format-version: 1.0 date: 18:09:2006 17:28 saved-by: midori auto-generated-by: OBO-Edit 1.002 subsetdef: goslim_generic "Generic GO slim" subsetdef: goslim_goa "GOA and proteome slim" subsetdef: goslim_plant "Plant GO slim" subsetdef: goslim_yeast "Yeast GO slim" subsetdef: gosubset_prok "Prokaryotic GO subset" default-namespace: gene_ontology remark: cvs version: $Revision: 4.82 $ [Term] id: GO:0000001 name: mitochondrion inheritance namespace: biological_process def: "The distribution of mitochondria, including the mitochondrial genome, into daughter cells after mitosis or meiosis, mediated by interactions between mitochondria and the cytoskeleton." [GOC:mcc, PMID:10873824, PMID:11389764] exact_synonym: "mitochondrial inheritance" [] is_a: GO:0048308 ! organelle inheritance is_a: GO:0048311 ! mitochondrion distribution [Term] id: GO:0000002 name: mitochondrial genome maintenance namespace: biological_process def: "The maintenance of the structure and integrity of the mitochondrial genome." [GOC:ai] is_a: GO:0007005 ! mitochondrion organization and biogenesis [Term] id: GO:0000003 name: reproduction namespace: biological_process alt_id: GO:0019952 def: "The production by an organism of new individuals that contain some portion of their genetic material inherited from that organism." [GOC:go_curators, ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: gosubset_prok is_a: GO:0008150 ! biological_process [Term] id: GO:0000004 name: biological process unknown namespace: biological_process def: "Used for the annotation of gene products whose process is not known or cannot be inferred." [GOC:sgd_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0008150 ! biological_process [Term] id: GO:0000005 name: ribosomal chaperone activity namespace: molecular_function def: "OBSOLETE. Assists in the correct assembly of ribosomes or ribosomal subunits in vivo, but is not a component of the assembled ribosome when performing its normal biological function." [GOC:jl, PMID:12150913] comment: This term was made obsolete because it refers to a class of gene products and a biological process rather than a molecular function. To update annotations, consider the molecular function term 'unfolded protein binding ; GO:0051082' and the biological process term 'ribosome biogenesis and assembly ; GO:0042254' and its children. is_obsolete: true [Term] id: GO:0000006 name: high affinity zinc uptake transporter activity namespace: molecular_function def: "Catalysis of the reaction: Zn2+(out) = Zn2+(in), probably powered by proton motive force." [TC:2.A.5.1.1] xref_analog: TC:2.A.5.1.1 is_a: GO:0005385 ! zinc ion transporter activity [Term] id: GO:0000007 name: low-affinity zinc ion transporter activity namespace: molecular_function is_a: GO:0005385 ! zinc ion transporter activity [Term] id: GO:0000008 name: thioredoxin namespace: molecular_function alt_id: GO:0000013 def: "OBSOLETE. A small disulfide-containing redox protein that serves as a general protein disulfide oxidoreductase. Interacts with a broad range of proteins by a redox mechanism, based on the reversible oxidation of 2 cysteine thiol groups to a disulfide, accompanied by the transfer of 2 electrons and 2 protons. The net result is the covalent interconversion of a disulfide and a dithiol." [UniProtKB:kd] comment: This term was made obsolete because it represents gene products. To update annotations, consider the molecular function term 'thiol-disulfide exchange intermediate activity ; GO:0030508'. is_obsolete: true [Term] id: GO:0000009 name: alpha-1,6-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,6-linkage." [GOC:mcc, PMID:2644248] xref_analog: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000010 name: trans-hexaprenyltranstransferase activity namespace: molecular_function def: "Catalysis of the reaction: all-trans-hexaprenyl diphosphate + isopentenyl diphosphate = diphosphate + all-trans-heptaprenyl diphosphate." [EC:2.5.1.30] subset: gosubset_prok xref_analog: EC:2.5.1.30 xref_analog: MetaCyc:TRANS-HEXAPRENYLTRANSTRANSFERASE-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0000011 name: vacuole inheritance namespace: biological_process def: "The distribution of vacuoles into daughter cells after mitosis or meiosis, mediated by interactions between vacuoles and the cytoskeleton." [GOC:mcc, PMID:10873824, PMID:14616069] is_a: GO:0007033 ! vacuole organization and biogenesis is_a: GO:0048308 ! organelle inheritance [Term] id: GO:0000012 name: single strand break repair namespace: biological_process def: "The repair of single strand breaks in DNA. Repair of such breaks is mediated by the same enzyme systems as are used in base excision repair." [http://www.ultranet.com/~jkimball/BiologyPages/D/DNArepair.html] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0000014 name: single-stranded DNA specific endodeoxyribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within a single-stranded deoxyribonucleic acid molecule by creating internal breaks." [GOC:mah] is_a: GO:0004520 ! endodeoxyribonuclease activity [Term] id: GO:0000015 name: phosphopyruvate hydratase complex namespace: cellular_component def: "A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "enolase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000016 name: lactase activity namespace: molecular_function def: "Catalysis of the reaction: lactose + H2O = D-glucose + D-galactose." [EC:3.2.1.108] xref_analog: EC:3.2.1.108 xref_analog: MetaCyc:LACTASE-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0000017 name: alpha-glucoside transport namespace: biological_process def: "The directed movement of alpha-glucosides into, out of, within or between cells. Alpha-glucosides are glycosides in which the sugar moiety is a glucose residue, and the anomeric carbon of the bond is in an alpha configuration." [GOC:jl, http://www.biochem.purdue.edu/, ISBN:0198506732] is_a: GO:0042946 ! glucoside transport [Term] id: GO:0000018 name: regulation of DNA recombination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA recombination, the processes by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok is_a: GO:0051052 ! regulation of DNA metabolism relationship: part_of GO:0006310 ! DNA recombination [Term] id: GO:0000019 name: regulation of mitotic recombination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA recombination during mitosis." [GOC:go_curators] narrow_synonym: "regulation of recombination within rDNA repeats" [] is_a: GO:0000018 ! regulation of DNA recombination relationship: part_of GO:0006312 ! mitotic recombination [Term] id: GO:0000020 name: negative regulation of recombination within rDNA repeats namespace: biological_process def: "OBSOLETE. Any process that stops, prevents or reduces the frequency, rate or extent of genetic recombination within the DNA of the genes coding for ribosomal RNA." [GOC:go_curators, ISBN:0198506732] comment: This term was made obsolete because it describes a substrate-specific process. To update annotations, consider the biological process term 'negative regulation of mitotic recombination ; GO:0045950'. is_obsolete: true [Term] id: GO:0000022 name: mitotic spindle elongation namespace: biological_process def: "Lengthening of the distance between poles of the mitotic spindle." [GOC:mah] exact_synonym: "spindle elongation during mitosis" [] is_a: GO:0051231 ! spindle elongation relationship: part_of GO:0007052 ! mitotic spindle organization and biogenesis [Term] id: GO:0000023 name: maltose metabolism namespace: biological_process def: "The chemical reactions and pathways involving the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose), an intermediate in the catabolism of glycogen and starch." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "malt sugar metabolism" [] is_a: GO:0005984 ! disaccharide metabolism [Term] id: GO:0000024 name: maltose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose)." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "malt sugar biosynthesis" [] exact_synonym: "maltose anabolism" [] exact_synonym: "maltose formation" [] exact_synonym: "maltose synthesis" [] is_a: GO:0000023 ! maltose metabolism is_a: GO:0046351 ! disaccharide biosynthesis [Term] id: GO:0000025 name: maltose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose)." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "malt sugar catabolism" [] exact_synonym: "maltose breakdown" [] exact_synonym: "maltose degradation" [] narrow_synonym: "maltose hydrolysis" [] xref_analog: MetaCyc:MALTOSECAT-PWY is_a: GO:0000023 ! maltose metabolism is_a: GO:0046352 ! disaccharide catabolism [Term] id: GO:0000026 name: alpha-1,2-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,2-linkage." [GOC:mcc, PMID:10521541] xref_analog: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000027 name: ribosomal large subunit assembly and maintenance namespace: biological_process def: "The maintenance and assembly of the large ribosomal subunit from its constituent parts." [GOC:jl] subset: gosubset_prok is_a: GO:0042257 ! ribosomal subunit assembly [Term] id: GO:0000028 name: ribosomal small subunit assembly and maintenance namespace: biological_process def: "The maintenance and assembly of the small ribosomal subunit from its constituent parts." [GOC:jl] subset: gosubset_prok is_a: GO:0042257 ! ribosomal subunit assembly [Term] id: GO:0000030 name: mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannosyl group to an acceptor molecule, typically another carbohydrate or a lipid." [GOC:ai] subset: gosubset_prok xref_analog: EC:2.4.1.- xref_analog: Reactome:7672 is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0000031 name: mannosylphosphate transferase activity namespace: molecular_function def: "Catalysis of the transfer of an mannosylphosphate group from one compound to another." [GOC:jl] is_a: GO:0016740 ! transferase activity [Term] id: GO:0000032 name: cell wall mannoprotein biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cell wall mannoproteins, any cell wall protein that contains covalently bound mannose residues other than as a moiety of nucleic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "cell wall mannoprotein anabolism" [] exact_synonym: "cell wall mannoprotein formation" [] exact_synonym: "cell wall mannoprotein synthesis" [] is_a: GO:0006057 ! mannoprotein biosynthesis is_a: GO:0031506 ! cell wall glycoprotein biosynthesis [Term] id: GO:0000033 name: alpha-1,3-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a mannose residue from GDP-mannose to an oligosaccharide, forming an alpha-1,3-linkage." [GOC:mcc, PMID:10521541] xref_analog: EC:2.4.1.- is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0000034 name: adenine deaminase activity namespace: molecular_function def: "Catalysis of the reaction: adenine + H2O = hypoxanthine + NH3." [EC:3.5.4.2] subset: gosubset_prok xref_analog: EC:3.5.4.2 xref_analog: MetaCyc:ADENINE-DEAMINASE-RXN is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0000035 name: acyl binding namespace: molecular_function def: "Interacting selectively with an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid." [http://cancerweb.ncl.ac.uk/, ISBN:0198506732] broad_synonym: "acyl-CoA or acyl binding" [] is_a: GO:0005488 ! binding [Term] id: GO:0000036 name: acyl carrier activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005386 ! carrier activity [Term] id: GO:0000038 name: very-long-chain fatty acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving fatty acids with a chain length of C18 or greater." [GOC:hjd] subset: gosubset_prok is_a: GO:0006631 ! fatty acid metabolism [Term] id: GO:0000039 name: plasma membrane long-chain fatty acid transporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a gene product and it contains component information. To update annotations, consider the molecular function term 'long-chain fatty acid transporter activity ; GO:0005324' and the cellular component term 'plasma membrane ; GO:0005886'. is_obsolete: true [Term] id: GO:0000040 name: low affinity iron ion transport namespace: biological_process is_a: GO:0006826 ! iron ion transport [Term] id: GO:0000041 name: transition metal ion transport namespace: biological_process def: "The directed movement of transition metal ions into, out of, within or between cells. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "transition metal transport" [] is_a: GO:0015674 ! di-, tri-valent inorganic cation transport is_a: GO:0030001 ! metal ion transport [Term] id: GO:0000042 name: protein targeting to Golgi namespace: biological_process def: "The process of directing proteins towards the Golgi using signals contained within the protein." [GOC:ai] exact_synonym: "protein-Golgi targeting" [] is_a: GO:0000301 ! retrograde transport, vesicle recycling within Golgi is_a: GO:0006605 ! protein targeting [Term] id: GO:0000044 name: ascorbate stabilization namespace: biological_process def: "The reduction of the ascorbate free radical to a stable form." [GOC:ai] subset: gosubset_prok exact_synonym: "vitamin C stabilization" [] is_a: GO:0006118 ! electron transport [Term] id: GO:0000045 name: autophagic vacuole formation namespace: biological_process def: "The formation of a double membrane-bound structure, the autophagosome, that occurs when a specialized membrane sac, called the isolation membrane, starts to enclose a portion of the cytoplasm." [PMID:9412464] exact_synonym: "autophagosome formation" [] is_a: GO:0006996 ! organelle organization and biogenesis relationship: part_of GO:0016236 ! macroautophagy [Term] id: GO:0000046 name: autophagic vacuole fusion namespace: biological_process def: "The fusion of an autophagic vacuole with a vacuole (yeast) or lysosome (e.g. mammals and insects). In the case of yeast, inner membrane-bound structures (autophagic bodies) appear in the vacuole." [PMID:11099404] narrow_synonym: "fusion of autophagosome with lysosome" [] is_a: GO:0048284 ! organelle fusion relationship: part_of GO:0016236 ! macroautophagy [Term] id: GO:0000047 name: Rieske iron-sulfur protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'electron carrier activity ; GO:0009055' and its children. exact_synonym: "Rieske iron-sulphur protein" [] is_obsolete: true [Term] id: GO:0000048 name: peptidyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-tRNA(1) + aminoacyl-tRNA(2) = tRNA(1) + peptidylaminoacyl-tRNA(2)." [EC:2.3.2.12, PMID:11433365, PMID:9242921] xref_analog: EC:2.3.2.12 xref_analog: MetaCyc:PEPTIDYLTRANSFERASE-RXN xref_analog: Reactome:20610 is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0000049 name: tRNA binding namespace: molecular_function def: "Interacting selectively with transfer RNA." [GOC:ai] subset: gosubset_prok is_a: GO:0003723 ! RNA binding [Term] id: GO:0000050 name: urea cycle namespace: biological_process alt_id: GO:0006594 alt_id: GO:0006871 def: "A cyclic metabolic pathway that converts waste nitrogen in the form of ammonium to urea." [ISBN:0198506732] exact_synonym: "ornithine cycle" [] exact_synonym: "urea biosynthesis" [] xref_analog: Reactome:70635 is_a: GO:0019627 ! urea metabolism [Term] id: GO:0000051 name: urea cycle intermediate metabolism namespace: biological_process def: "The chemical reactions and pathways involving any of the intermediate compounds involved in the urea cycle, a cyclic metabolic pathway that converts waste nitrogen in the form of ammonium to urea." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0008152 ! metabolism relationship: part_of GO:0006807 ! nitrogen compound metabolism [Term] id: GO:0000052 name: citrulline metabolism namespace: biological_process def: "The chemical reactions and pathways involving citrulline, N5-carbamoyl-L-ornithine, an alpha amino acid not found in proteins." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0000051 ! urea cycle intermediate metabolism is_a: GO:0019794 ! nonprotein amino acid metabolism [Term] id: GO:0000053 name: argininosuccinate metabolism namespace: biological_process def: "The chemical reactions and pathways involving argininosuccinate, 2-(Nw-arginino)succinate, an intermediate in the ornithine-urea cycle, where it is synthesized from citrulline and aspartate." [ISBN:0198506732] is_a: GO:0000051 ! urea cycle intermediate metabolism [Term] id: GO:0000054 name: ribosome export from nucleus namespace: biological_process def: "The directed movement of a ribosome from the nucleus into the cytoplasm." [GOC:ai] exact_synonym: "ribosome export out of nucleus" [] exact_synonym: "ribosome transport from nucleus to cytoplasm" [] exact_synonym: "ribosome-nucleus export" [] is_a: GO:0007046 ! ribosome biogenesis relationship: part_of GO:0006611 ! protein export from nucleus [Term] id: GO:0000055 name: ribosomal large subunit export from nucleus namespace: biological_process alt_id: GO:0000057 def: "The directed movement of a ribosomal large subunit from the nucleus into the cytoplasm." [GOC:mah] exact_synonym: "ribosomal large subunit export out of nucleus" [] exact_synonym: "ribosomal large subunit transport from nucleus to cytoplasm" [] exact_synonym: "ribosomal large subunit-nucleus export" [] is_a: GO:0000054 ! ribosome export from nucleus [Term] id: GO:0000056 name: ribosomal small subunit export from nucleus namespace: biological_process alt_id: GO:0000058 def: "The directed movement of a ribosomal small subunit from the nucleus into the cytoplasm." [GOC:mah] exact_synonym: "ribosomal small subunit export out of nucleus" [] exact_synonym: "ribosomal small subunit transport from nucleus to cytoplasm" [] exact_synonym: "ribosomal small subunit-nucleus export" [] is_a: GO:0000054 ! ribosome export from nucleus [Term] id: GO:0000059 name: protein import into nucleus, docking namespace: biological_process exact_synonym: "protein docking during protein import into nucleus" [] exact_synonym: "protein docking during protein transport from cytoplasm to nucleus" [] exact_synonym: "protein docking during protein-nucleus import" [] exact_synonym: "protein transport from cytoplasm to nucleus, docking" [] exact_synonym: "protein-nucleus import, docking" [] relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000060 name: protein import into nucleus, translocation namespace: biological_process def: "The vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:jl, ISBN:0198506732] exact_synonym: "protein translocation during protein import into nucleus" [] exact_synonym: "protein translocation during protein transport from cytoplasm to nucleus" [] exact_synonym: "protein translocation during protein-nucleus import" [] exact_synonym: "protein transport from cytoplasm to nucleus, translocation" [] exact_synonym: "protein-nucleus import, translocation" [] relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000061 name: protein import into nucleus, substrate release namespace: biological_process exact_synonym: "protein substrate release during protein import into nucleus" [] exact_synonym: "protein substrate release during protein transport from cytoplasm to nucleus" [] exact_synonym: "protein substrate release during protein-nucleus import" [] exact_synonym: "protein transport from cytoplasm to nucleus, substrate release" [] exact_synonym: "protein-nucleus import, substrate release" [] relationship: part_of GO:0006606 ! protein import into nucleus [Term] id: GO:0000062 name: acyl-CoA binding namespace: molecular_function def: "Interacting selectively with acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group." [GOC:jl, ISBN:0198506732] subset: gosubset_prok broad_synonym: "acyl-CoA or acyl binding" [] is_a: GO:0005504 ! fatty acid binding is_a: GO:0050662 ! coenzyme binding [Term] id: GO:0000064 name: L-ornithine transporter activity namespace: molecular_function def: "Enables the directed movement of L-ornithine, 2,5-diaminopentanoic acid, into, out of, within or between cells." [GOC:ai] subset: gosubset_prok related_synonym: "histidine/arginine/lysine/ornithine porter activity" [] xref_analog: Reactome:115868 xref_analog: Reactome:118497 xref_analog: Reactome:121106 xref_analog: Reactome:123243 xref_analog: Reactome:125346 xref_analog: Reactome:20635 xref_analog: Reactome:70633 is_a: GO:0015179 ! L-amino acid transporter activity [Term] id: GO:0000066 name: mitochondrial ornithine transport namespace: biological_process def: "The directed movement of ornithine, 2,5-diaminopentanoic acid, into, out of or within a mitochondrion." [GOC:ai] is_a: GO:0006839 ! mitochondrial transport is_a: GO:0015822 ! L-ornithine transport [Term] id: GO:0000067 name: DNA replication and chromosome cycle namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it has been superseded by more accurate terms to represent the biological processes occurring, and it is not clear that this term represents a useful concept. To update annotations, consider the biological process terms 'chromosome segregation ; GO:0007059', 'chromosome organization and biogenesis ; GO:0051276', and 'DNA replication ; GO:0006260'. subset: gosubset_prok is_obsolete: true [Term] id: GO:0000068 name: chromosome condensation namespace: biological_process def: "OBSOLETE. The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division in eukaryotic cells." [GOC:mah, ISBN:0815316194] comment: This term was made obsolete because its meaning was changed. To update annotations, consider the biological process term 'chromosome condensation ; GO:0030261'. is_obsolete: true [Term] id: GO:0000070 name: mitotic sister chromatid segregation namespace: biological_process alt_id: GO:0016359 def: "The process by which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets." [GOC:ai] exact_synonym: "mitotic chromosome segregation" [] narrow_synonym: "mitotic sister-chromatid adhesion release" [] is_a: GO:0000819 ! sister chromatid segregation relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000072 name: M phase specific microtubule process namespace: biological_process def: "A microtubule-based process that occurs only during M phase of the cell cycle." [GOC:mah] exact_synonym: "M-phase specific microtubule process" [] is_a: GO:0007017 ! microtubule-based process relationship: part_of GO:0000279 ! M phase [Term] id: GO:0000073 name: spindle pole body separation namespace: biological_process alt_id: GO:0030475 def: "A largely uncharacterized process involving the release of duplicated spindle pole bodies (SPBs) and their migration away from each other within the nuclear membrane. Duplicated SPBs are connected by a bridge structure that may be severed in order to release the SPBs from one another. Following liberation, SPBs diffuse through the nuclear membrane until they are across from each other. SPB separation must take place in order for a bipolar mitotic spindle to assemble." [GOC:sgd_curators] exact_synonym: "spindle pole body separation (sensu Fungi)" [] narrow_synonym: "spindle pole body separation (sensu Saccharomyces)" [] is_a: GO:0051300 ! spindle pole body organization and biogenesis [Term] id: GO:0000074 name: regulation of progression through cell cycle namespace: biological_process def: "Any process that modulates the rate or extent of progression through the cell cycle." [GOC:go_curators] subset: gosubset_prok related_synonym: "cell cycle regulator" [] related_synonym: "RHEB small monomeric GTPase activity" [] related_synonym: "tumor suppressor" [] exact_synonym: "control of cell cycle progression" [] exact_synonym: "modulation of cell cycle progression" [] exact_synonym: "regulation of cell cycle progression" [] xref_analog: Reactome:156678 xref_analog: Reactome:156699 xref_analog: Reactome:156711 xref_analog: Reactome:162657 xref_analog: Reactome:165167 xref_analog: Reactome:167104 xref_analog: Reactome:167109 xref_analog: Reactome:169311 xref_analog: Reactome:171117 xref_analog: Reactome:171122 xref_analog: Reactome:174455 xref_analog: Reactome:177752 xref_analog: Reactome:177757 is_a: GO:0051726 ! regulation of cell cycle [Term] id: GO:0000075 name: cell cycle checkpoint namespace: biological_process def: "A point in the eukaryotic cell cycle where progress through the cycle can be halted until conditions are suitable for the cell to proceed to the next stage." [GOC:mah, ISBN:0815316194] xref_analog: Reactome:69620 is_a: GO:0000074 ! regulation of progression through cell cycle [Term] id: GO:0000076 name: DNA replication checkpoint namespace: biological_process def: "A signal transduction based surveillance mechanism that prevents the initiation of mitosis until DNA replication is complete, thereby ensuring that progeny inherit a full complement of the genome." [GOC:rn, PMID:11728327, PMID:12537518] is_a: GO:0031570 ! DNA integrity checkpoint [Term] id: GO:0000077 name: DNA damage checkpoint namespace: biological_process def: "A signal transduction pathway, induced by DNA damage, that blocks cell cycle progression (in G1, G2 or metaphase) or slows the rate at which S phase proceeds." [PMID:11891124] narrow_synonym: "DNA damage response, signal transduction resulting in cell cycle arrest" [] is_a: GO:0031570 ! DNA integrity checkpoint is_a: GO:0042770 ! DNA damage response, signal transduction [Term] id: GO:0000078 name: cell morphogenesis checkpoint namespace: biological_process def: "A cell cycle checkpoint observed when aspects of polarity control are defective, which maintains coordination between the process of cellular morphogenesis and the nuclear events of the cell cycle. For example, in budding yeast cell-cycle delay or arrest is induced when aspects of bud formation are defective." [GOC:vw, PMID:14644188] is_a: GO:0000075 ! cell cycle checkpoint relationship: part_of GO:0000902 ! cellular morphogenesis [Term] id: GO:0000079 name: regulation of cyclin-dependent protein kinase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of CDK activity." [GOC:go_curators] exact_synonym: "regulation of CDK activity" [] is_a: GO:0000074 ! regulation of progression through cell cycle is_a: GO:0045859 ! regulation of protein kinase activity [Term] id: GO:0000080 name: G1 phase of mitotic cell cycle namespace: biological_process def: "Progression through G1 phase, one of two 'gap' phases in the mitotic cell cycle; G1 is the interval between the completion of mitosis and the beginning of DNA synthesis." [ISBN:0815316194] xref_analog: Reactome:69236 is_a: GO:0051318 ! G1 phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000082 name: G1/S transition of mitotic cell cycle namespace: biological_process def: "Progression from G1 phase to S phase of the mitotic cell cycle." [GOC:mah] xref_analog: Reactome:69206 relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000083 name: G1/S-specific transcription in mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed during the G1/S phase of the mitotic cell cycle." [GOC:mah] xref_analog: Reactome:69205 is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter relationship: part_of GO:0000082 ! G1/S transition of mitotic cell cycle [Term] id: GO:0000084 name: S phase of mitotic cell cycle namespace: biological_process def: "Progression through S phase, the part of the mitotic cell cycle during which DNA synthesis takes place." [ISBN:0815316194] is_a: GO:0051320 ! S phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000085 name: G2 phase of mitotic cell cycle namespace: biological_process def: "Progression through G2 phase, one of two 'gap' phases in the mitotic cell cycle; G2 is the interval between the completion of DNA synthesis and the beginning of mitosis." [ISBN:0815316194] xref_analog: Reactome:68911 is_a: GO:0051319 ! G2 phase relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000086 name: G2/M transition of mitotic cell cycle namespace: biological_process def: "Progression from G2 phase to M phase of the mitotic cell cycle." [GOC:mah] xref_analog: Reactome:69275 relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000087 name: M phase of mitotic cell cycle namespace: biological_process def: "Progression through M phase, the part of the mitotic cell cycle during which mitosis and cytokinesis take place." [GOC:mah, ISBN:0815316194] exact_synonym: "M-phase of mitotic cell cycle" [] xref_analog: Reactome:68886 is_a: GO:0000279 ! M phase relationship: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0000088 name: mitotic prophase namespace: biological_process def: "Progression through prophase, the initial stage of mitosis in which the chromosomes are condensed but are not yet attached to a mitotic spindle." [ISBN:0815316194] xref_analog: Reactome:68875 is_a: GO:0051324 ! prophase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000089 name: mitotic metaphase namespace: biological_process def: "Progression through metaphase, the stage of mitosis at which chromosomes are firmly attached to the mitotic spindle at its equator but have not yet segregated to opposite poles." [ISBN:0815316194] xref_analog: Reactome:68879 is_a: GO:0051323 ! metaphase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000090 name: mitotic anaphase namespace: biological_process def: "Progression through anaphase, the stage of mitosis during which the two sets of chromosomes separate and move away from each other." [ISBN:0815316194] xref_analog: Reactome:68882 is_a: GO:0051322 ! anaphase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000091 name: mitotic anaphase A namespace: biological_process def: "Progression through anaphase A, the part of mitotic anaphase in which the kinetochore microtubules shorten as chromosomes move toward the spindle poles." [ISBN:0815316194] is_a: GO:0000090 ! mitotic anaphase [Term] id: GO:0000092 name: mitotic anaphase B namespace: biological_process def: "Progression through anaphase B, the part of mitotic anaphase in which the polar microtubules elongate and the two poles of the spindle move farther apart." [ISBN:0815316194] is_a: GO:0000090 ! mitotic anaphase [Term] id: GO:0000093 name: mitotic telophase namespace: biological_process def: "Progression through telophase, the last of the stages of mitosis; in the canonical cell cycle, telophase begins when the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [ISBN:0721662544] is_a: GO:0051326 ! telophase relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000094 name: septin assembly and septum formation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it was not defined and the string name implied two separate processes. To update annotations, consider the biological process term 'septin ring assembly ; GO:0000921', 'barrier septum formation ; GO:0000917', 'selection of site for barrier septum formation ; GO:0000918'. is_obsolete: true [Term] id: GO:0000095 name: S-adenosylmethionine transporter activity namespace: molecular_function def: "Enables the directed movement of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism, into, out of, within or between cells." [GOC:ai] exact_synonym: "S-adenosyl methionine transporter activity" [] is_a: GO:0000099 ! sulfur amino acid transporter activity is_a: GO:0051184 ! cofactor transporter activity [Term] id: GO:0000096 name: sulfur amino acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving amino acids containing sulfur, comprising cysteine, homocysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok exact_synonym: "sulphur amino acid metabolism" [] is_a: GO:0006520 ! amino acid metabolism is_a: GO:0006790 ! sulfur metabolism [Term] id: GO:0000097 name: sulfur amino acid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of amino acids containing sulfur, comprising cysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok exact_synonym: "sulfur amino acid anabolism" [] exact_synonym: "sulfur amino acid formation" [] exact_synonym: "sulfur amino acid synthesis" [] exact_synonym: "sulphur amino acid biosynthesis" [] is_a: GO:0000096 ! sulfur amino acid metabolism is_a: GO:0008652 ! amino acid biosynthesis is_a: GO:0044272 ! sulfur compound biosynthesis [Term] id: GO:0000098 name: sulfur amino acid catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of amino acids containing sulfur, comprising cysteine, methionine and selenocysteine." [GOC:ai] subset: gosubset_prok exact_synonym: "sulfur amino acid breakdown" [] exact_synonym: "sulfur amino acid degradation" [] exact_synonym: "sulphur amino acid catabolism" [] is_a: GO:0000096 ! sulfur amino acid metabolism is_a: GO:0009063 ! amino acid catabolism is_a: GO:0044273 ! sulfur compound catabolism [Term] id: GO:0000099 name: sulfur amino acid transporter activity namespace: molecular_function def: "Enables the directed movement of amino acids containing sulfur (cystine, methionine and their derivatives) into, out of, within or between cells." [GOC:ai] subset: gosubset_prok exact_synonym: "sulphur amino acid transporter activity" [] is_a: GO:0015171 ! amino acid transporter activity [Term] id: GO:0000100 name: S-methylmethionine transporter activity namespace: molecular_function def: "Enables the directed movement of S-methylmethionine into, out of, within or between cells." [GOC:ai] subset: gosubset_prok is_a: GO:0000099 ! sulfur amino acid transporter activity [Term] id: GO:0000101 name: sulfur amino acid transport namespace: biological_process def: "The directed movement of amino acids containing sulfur (cystine, methionine and their derivatives) into, out of, within or between cells." [GOC:ai] subset: gosubset_prok exact_synonym: "sulphur amino acid transport" [] is_a: GO:0006865 ! amino acid transport [Term] id: GO:0000102 name: L-methionine porter activity namespace: molecular_function xref_analog: TC:2.A.3.8.4 is_a: GO:0005294 ! neutral L-amino acid porter activity is_a: GO:0015191 ! L-methionine transporter activity [Term] id: GO:0000103 name: sulfate assimilation namespace: biological_process def: "The pathways by which inorganic sulfate is processed and incorporated into sulfated compounds." [GOC:jl] subset: gosubset_prok exact_synonym: "sulphate assimilation" [] is_a: GO:0006791 ! sulfur utilization [Term] id: GO:0000104 name: succinate dehydrogenase activity namespace: molecular_function alt_id: GO:0019739 def: "Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor. No reaction with quinols." [EC:1.3.99.1, UniProtKB:kd] subset: gosubset_prok exact_synonym: "fumarate reductase" [] xref_analog: EC:1.3.99.1 xref_analog: MetaCyc:SUCC-FUM-OXRED-RXN xref_analog: Reactome:118816 xref_analog: Reactome:21566 xref_analog: Reactome:70993 is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0000105 name: histidine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "histidine anabolism" [] exact_synonym: "histidine formation" [] exact_synonym: "histidine synthesis" [] xref_analog: MetaCyc:HISTSYN-PWY is_a: GO:0006547 ! histidine metabolism is_a: GO:0009076 ! histidine family amino acid biosynthesis [Term] id: GO:0000107 name: imidazoleglycerol-phosphate synthase activity namespace: molecular_function def: "Catalysis of the reaction: phosphoribulosylformimino-AICAR-P + L-glutamine = D-erythro-imidazole-glycerol-phosphate + AICAR + L-glutamate." [MetaCyc:GLUTAMIDOTRANS-RXN] subset: gosubset_prok exact_synonym: "imidazoleglycerol phosphate synthase activity" [] broad_synonym: "glutamine amidotransferase:cyclase" [] xref_analog: EC:2.4.2.- xref_analog: MetaCyc:GLUTAMIDOTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0000108 name: repairosome namespace: cellular_component def: "A stable complex of proteins that carry out the DNA damage recognition and incision reactions characteristic of nucleotide excision repair (NER), such as DNA damage recognition, DNA helix unwinding, and endonucleolytic cleavage at sites flanking damaged DNA; includes TFIIH subunits and additional polypeptides; may form in the absence of DNA damage." [PMID:10681587, PMID:9852079] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000109 name: nucleotide-excision repair complex namespace: cellular_component def: "Any complex formed of proteins that act in nucleotide-excision repair." [PMID:10915862] comment: Note that process information is included in the term and definition for the purpose of describing and distinguishing the complex. is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000110 name: nucleotide-excision repair factor 1 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and endodeoxynuclease activities." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. exact_synonym: "NEF1 complex" [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000111 name: nucleotide-excision repair factor 2 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses damaged DNA binding activity." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. exact_synonym: "NEF2 complex" [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000112 name: nucleotide-excision repair factor 3 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses endodeoxynuclease and DNA helicase activities." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. exact_synonym: "NEF3 complex" [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000113 name: nucleotide-excision repair factor 4 complex namespace: cellular_component def: "One of several protein complexes involved in nucleotide-excision repair; possesses DNA damage recognition and DNA-dependent ATPase activities." [PMID:10915862] comment: Note that process and function information are included in the term and definition for the purpose of describing and distinguishing the complex. exact_synonym: "NEF4 complex" [] is_a: GO:0000109 ! nucleotide-excision repair complex [Term] id: GO:0000114 name: G1-specific transcription in mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed during the G1 phase of the mitotic cell cycle." [GOC:mah] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter relationship: part_of GO:0000080 ! G1 phase of mitotic cell cycle [Term] id: GO:0000115 name: S-phase-specific transcription in mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed during the S phase of the mitotic cell cycle." [GOC:mah] exact_synonym: "S-specific transcription in mitotic cell cycle" [] xref_analog: Reactome:69241 is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter relationship: part_of GO:0000084 ! S phase of mitotic cell cycle [Term] id: GO:0000116 name: G2-specific transcription in mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed during the G2 phase of the mitotic cell cycle." [GOC:mah] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter relationship: part_of GO:0000085 ! G2 phase of mitotic cell cycle [Term] id: GO:0000117 name: G2/M-specific transcription in mitotic cell cycle namespace: biological_process def: "Any process that regulates transcription such that the target genes are transcribed during the G2/M phase of the mitotic cell cycle." [GOC:mah] xref_analog: Reactome:69274 is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter relationship: part_of GO:0000086 ! G2/M transition of mitotic cell cycle [Term] id: GO:0000118 name: histone deacetylase complex namespace: cellular_component def: "Complex that possesses histone deacetylase activity." [GOC:mah] comment: Note that this term represents a location, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone deacetylase activity ; GO:0004407'. exact_synonym: "HDAC complex" [] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000119 name: mediator complex namespace: cellular_component def: "A protein complex that enables the RNA polymerase II-general RNA polymerase II transcription factor complex to react to transcriptional activator proteins; also enhances the level of basal transcription." [PMID:10384286, PMID:11114191, PMID:8187178, PMID:9396788, PMID:9774831] narrow_synonym: "TRAP complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044451 ! nucleoplasm part relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0000120 name: RNA polymerase I transcription factor complex namespace: cellular_component def: "A transcription factor complex that acts at promoters of genes transcribed by RNA polymerase I." [GOC:mah] is_a: GO:0005667 ! transcription factor complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0000121 name: glycerol-1-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: glycerol 1-phosphate + H2O = glycerol + phosphate." [EC:3.1.3.21] xref_analog: EC:3.1.3.21 xref_analog: MetaCyc:GLYCEROL-1-PHOSPHATASE-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0000122 name: negative regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:go_curators] exact_synonym: "negative regulation of transcription from Pol II promoter" [] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter is_a: GO:0045892 ! negative regulation of transcription, DNA-dependent [Term] id: GO:0000123 name: histone acetyltransferase complex namespace: cellular_component def: "Complex that possesses histone acetyltransferase activity." [GOC:mah] comment: Note that this term represents a location, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone acetyltransferase activity ; GO:0004402'. exact_synonym: "histone acetylase complex" [] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000124 name: SAGA complex namespace: cellular_component def: "A large multiprotein complex that possesses histone acetyltransferase and in involved in regulation of transcription. The budding yeast complex includes Gcn5p, several proteins of the Spt and Ada families, and several TBP-associate proteins (TAFs); analogous complexes in other species have analogous compositions, and usually contain homologs of the yeast proteins." [PMID:10637607] exact_synonym: "Spt-Ada-Gcn5-acetyltransferase complex" [] is_a: GO:0000123 ! histone acetyltransferase complex [Term] id: GO:0000125 name: PCAF complex namespace: cellular_component def: "A large multiprotein complex that possesses histone acetyltransferase and is involved in regulation of transcription. The composition is similar to that of the SAGA complex, but includes fewer Spt and Ada proteins, and more TAFs." [PMID:10637607] comment: See also the cellular component term 'SAGA complex ; GO:0000124'. is_a: GO:0000123 ! histone acetyltransferase complex [Term] id: GO:0000126 name: transcription factor TFIIIB complex namespace: cellular_component def: "A transcription factor for eukaryotic RNA polymerase III promoters that is an RNA polymerase binding protein." [GOC:mah, ISBN:0198547684] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000127 name: transcription factor TFIIIC complex namespace: cellular_component def: "A heterotrimeric transcription factor for eukaryotic RNA polymerase III promoters." [GOC:mah, ISBN:0198547684] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0000128 name: flocculation namespace: biological_process def: "Non-sexual aggregation of single-celled organisms in culture." [GOC:jl] is_a: GO:0016337 ! cell-cell adhesion is_a: GO:0051704 ! interaction between organisms [Term] id: GO:0000131 name: incipient bud site namespace: cellular_component def: "The portion of the budding yeast plasma membrane where a daughter cell will emerge. The yeast marks this spot with bud-site selection proteins before bud emergence occurs. Actin is polarized to this spot just prior to and during bud emergence." [GOC:clt] is_a: GO:0044424 ! intracellular part [Term] id: GO:0000132 name: establishment of mitotic spindle orientation namespace: biological_process alt_id: GO:0030607 alt_id: GO:0030609 def: "The processes that set the alignment of mitotic spindle relative to other cellular structures." [GOC:ems] exact_synonym: "establishment of spindle orientation during mitosis" [] exact_synonym: "mitotic spindle orientation" [] exact_synonym: "orienting of mitotic spindle" [] narrow_synonym: "mitotic spindle orientation (sensu Fungi)" [] narrow_synonym: "mitotic spindle orientation (sensu Saccharomyces)" [] is_a: GO:0040001 ! establishment of mitotic spindle localization is_a: GO:0051294 ! establishment of spindle orientation [Term] id: GO:0000133 name: polarisome namespace: cellular_component def: "Protein complex that plays a role in determining cell polarity by directing the localized assembly of actin filaments at polarization sites; in Saccharomyces the polarisome includes Bni1p, Spa2p, Pea2p, and Bud6p." [PMID:14734532, PMID:14998522, PMID:9632790] is_a: GO:0043234 ! protein complex is_a: GO:0044448 ! cell cortex part relationship: part_of GO:0030427 ! site of polarized growth [Term] id: GO:0000135 name: septin checkpoint namespace: biological_process def: "A cell cycle checkpoint that detects septin defects and responds by inhibiting the mitotic CDK. In Saccharomyces cerevisiae, correct formation of a functional septin cytoskeleton permits the cell to switch to isotropic bud growth and the onset of mitotic chromosome segregation. In the presence of septin defects, the mitotic CDK is inhibited and both the switch to isotropic bud growth and the onset of mitotic chromosome segregation is delayed." [PMID:9925642] is_a: GO:0000075 ! cell cycle checkpoint [Term] id: GO:0000136 name: alpha-1,6-mannosyltransferase complex namespace: cellular_component def: "A large, multiprotein complex with alpha-1,6 mannosyltransferase activity, located in the cis Golgi membrane; adds mannan to N-linked glycans on proteins." [GOC:mcc, PMID:10037752, PMID:11095735] is_a: GO:0031501 ! mannosyltransferase complex is_a: GO:0044431 ! Golgi apparatus part relationship: part_of GO:0000137 ! Golgi cis cisterna [Term] id: GO:0000137 name: Golgi cis cisterna namespace: cellular_component def: "The Golgi cisterna closest to the endoplasmic reticulum; the first processing compartment through which proteins pass after export from the ER." [ISBN:0815316194] is_a: GO:0031985 ! Golgi cisterna [Term] id: GO:0000138 name: Golgi trans cisterna namespace: cellular_component def: "The Golgi cisterna farthest from the endoplasmic reticulum; the final processing compartment through which proteins pass before exiting the Golgi apparatus; the compartment in which N-linked protein glycosylation is completed." [ISBN:0815316194] is_a: GO:0031985 ! Golgi cisterna [Term] id: GO:0000139 name: Golgi membrane namespace: cellular_component def: "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah] is_a: GO:0031090 ! organelle membrane is_a: GO:0044425 ! membrane part is_a: GO:0044431 ! Golgi apparatus part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0000140 name: acylglycerone-phosphate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 1-palmitoylglycerol 3-phosphate + NADP+ = palmitoylglycerone phosphate + NADPH + H+." [EC:1.1.1.101] exact_synonym: "1-acyldihydroxyacetone-phosphate reductase" [] exact_synonym: "palmitoyldihydroxyacetone-phosphate reductase" [] xref_analog: EC:1.1.1.101 xref_analog: MetaCyc:ACYLGLYCERONE-PHOSPHATE-REDUCTASE-RXN xref_analog: Reactome:21659 xref_analog: Reactome:76162 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000142 name: bud neck contractile ring namespace: cellular_component def: "A contractile ring, i.e. a cytoskeletal structure composed of actin filaments and myosin, that forms beneath the plasma membrane at the mother-bud neck in mitotic cells that divide by budding in preparation for completing cytokinesis." [GOC:krc, PMID:16009555] exact_synonym: "contractile ring (sensu Saccharomyces)" [] exact_synonym: "neck ring" [] broad_synonym: "actomyosin ring (sensu Saccharomyces)" [] broad_synonym: "cytokinetic ring (sensu Saccharomyces)" [] is_a: GO:0005826 ! contractile ring relationship: part_of GO:0005935 ! bud neck [Term] id: GO:0000144 name: bud neck septin ring namespace: cellular_component def: "A ring-shaped structure that forms at the site of cytokinesis; composed of members of the conserved family of filament forming proteins called septins as well as septin-associated proteins. In S. cerevisiae, this structure forms at the time of bud emergence and the septins show a high rate of exchange." [GOC:krc, PMID:16009555] exact_synonym: "septin ring (sensu Saccharomyces)" [] is_a: GO:0000399 ! bud neck septin structure is_a: GO:0005940 ! septin ring is_a: GO:0032161 ! cleavage apparatus septin structure [Term] id: GO:0000145 name: exocyst namespace: cellular_component def: "Protein complex peripherally associated with the plasma membrane that determines where secretory vesicles dock and fuse. At least eight complex components are conserved between yeast and mammals." [PMID:9700152] is_a: GO:0043234 ! protein complex is_a: GO:0044448 ! cell cortex part [Term] id: GO:0000146 name: microfilament motor activity namespace: molecular_function def: "Catalysis of movement along a microfilament, coupled to the hydrolysis of a nucleoside triphosphate (usually ATP)." [GOC:mah, ISBN:0815316194] related_synonym: "myosin ATPase activity" [] narrow_synonym: "muscle motor activity" [] is_a: GO:0003774 ! motor activity [Term] id: GO:0000147 name: actin cortical patch assembly namespace: biological_process def: "Assembly of an actin cortical patch, a discrete actin-containing structure found at the plasma membrane of fungal cells." [GOC:mah] is_a: GO:0030866 ! cortical actin cytoskeleton organization and biogenesis [Term] id: GO:0000148 name: 1,3-beta-glucan synthase complex namespace: cellular_component def: "The complex that catalyzes the transfer of a glucose moiety from UDP-glucose to a 1,3-beta-D-glucan chain." [EC:2.4.1.34] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0000149 name: SNARE binding namespace: molecular_function def: "Interacting selectively with a SNARE (soluble N-ethylmaleimide-sensitive factor attached protein receptor) protein." [PMID:12642621] exact_synonym: "SNAP receptor binding" [] is_a: GO:0005515 ! protein binding [Term] id: GO:0000150 name: recombinase activity namespace: molecular_function def: "Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA." [GOC:elh] comment: Consider also annotating to the molecular function terms 'double-stranded DNA binding ; GO:0003690' and 'single-stranded DNA binding ; GO:0003697'. subset: gosubset_prok narrow_synonym: "strand transferase" [] is_a: GO:0003824 ! catalytic activity [Term] id: GO:0000151 name: ubiquitin ligase complex namespace: cellular_component def: "A protein complex that includes a ubiquitin-protein ligase (E3) and other proteins that may confer substrate specificity on the complex." [PMID:9529603] subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000152 name: nuclear ubiquitin ligase complex namespace: cellular_component def: "A ubiquitin ligase complex found in the nucleus." [GOC:mah] is_a: GO:0000151 ! ubiquitin ligase complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000153 name: cytoplasmic ubiquitin ligase complex namespace: cellular_component def: "A ubiquitin ligase complex found in the cytoplasm." [GOC:mah] is_a: GO:0000151 ! ubiquitin ligase complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000154 name: rRNA modification namespace: biological_process def: "The covalent alteration of one or more nucleotides within rRNA, resulting in a change in the properties of the rRNA." [GOC:jl] subset: gosubset_prok is_a: GO:0009451 ! RNA modification is_a: GO:0016072 ! rRNA metabolism [Term] id: GO:0000155 name: two-component sensor activity namespace: molecular_function def: "Catalysis of the phosphorylation of a specific transcription regulator in response to the presence of a particular signal substance outside the cell." [GOC:mah] subset: gosubset_prok exact_synonym: "two-component system sensor activity " [] narrow_synonym: "two-component sensor molecule" [] xref_analog: EC:2.7.3.- is_a: GO:0004673 ! protein histidine kinase activity is_a: GO:0004871 ! signal transducer activity [Term] id: GO:0000156 name: two-component response regulator activity namespace: molecular_function def: "Alters the level of transcription of target genes, usually by binding to a transcription factor, when phosphorylated by a sensor that detects the presence of a particular signal substance outside the cell." [GOC:mah] subset: gosubset_prok is_a: GO:0004871 ! signal transducer activity is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0000158 name: protein phosphatase type 2A activity namespace: molecular_function alt_id: GO:0008600 def: "Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. A protein serine/threonine phosphatase that is polycation-stimulated (PCS), being directly stimulated by protamine, polylysine, or histone H1; it constitutes a subclass of several enzymes activated by different histones and polylysine." [EC:3.1.3.16, ISBN:0198547684] exact_synonym: "protein phosphatase type 2A, intrinsic catalyst activity" [] is_a: GO:0004722 ! protein serine/threonine phosphatase activity [Term] id: GO:0000159 name: protein phosphatase type 2A complex namespace: cellular_component def: "A heterodimer with protein serine/threonine phosphatase activity that is polycation-stimulated (PCS), being directly stimulated by protamine, polylysine, or histone H1; it constitutes a subclass of several enzymes activated by different histones and polylysine, and consists of catalytic and regulatory subunits." [GOC:mah, ISBN:0198547684] is_a: GO:0008287 ! protein serine/threonine phosphatase complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000160 name: two-component signal transduction system (phosphorelay) namespace: biological_process def: "A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins." [PMID:9191038] subset: gosubset_prok exact_synonym: "histidyl-aspartyl phosphorelay" [] is_a: GO:0007165 ! signal transduction [Term] id: GO:0000161 name: MAPKKK cascade during osmolarity sensing namespace: biological_process def: "MAPKKK cascade involved in signal transduction in response to change in osmotic conditions." [PMID:9561267] exact_synonym: "osmolarity sensing, MAPKKK cascade" [] is_a: GO:0000165 ! MAPKKK cascade relationship: part_of GO:0007234 ! osmosensory signaling pathway via two-component system [Term] id: GO:0000162 name: tryptophan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "tryptophan anabolism" [] exact_synonym: "tryptophan formation" [] exact_synonym: "tryptophan synthesis" [] xref_analog: MetaCyc:TRPSYN-PWY is_a: GO:0006568 ! tryptophan metabolism is_a: GO:0009096 ! aromatic amino acid family biosynthesis, anthranilate pathway is_a: GO:0046219 ! indolalkylamine biosynthesis [Term] id: GO:0000163 name: protein phosphatase type 1 activity namespace: molecular_function alt_id: GO:0008598 def: "Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. An ATP, magnesium-dependent protein serine/threonine phosphatase (AMD phosphatase) that consists of a catalytic subunit of 38 kDa and a modulator subunit of 23 kDa, which is subject to phosphorylation, thus activating the phosphatase." [GOC:mah, ISBN:0198547684] exact_synonym: "protein phosphatase type 1, intrinsic catalyst activity" [] xref_analog: Reactome:21718 is_a: GO:0004722 ! protein serine/threonine phosphatase activity [Term] id: GO:0000164 name: protein phosphatase type 1 complex namespace: cellular_component def: "An ATP, magnesium-dependent protein serine/threonine phosphatase (AMD phosphatase) that consists of a catalytic subunit of 38 kDa and a modulator subunit of 23 kDa, which is subject to phosphorylation, thus activating the phosphatase." [GOC:mah, ISBN:0198547684] is_a: GO:0008287 ! protein serine/threonine phosphatase complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000165 name: MAPKKK cascade namespace: biological_process def: "Cascade of at least three protein kinase activities culminating in the phosphorylation and activation of a MAP kinase. MAPKKK cascades lie downstream of numerous signaling pathways." [GOC:mah, PMID:9561267] exact_synonym: "ERK/MAPK cascade" [] exact_synonym: "MAP kinase cascade" [] exact_synonym: "MAP kinase kinase kinase cascade" [] exact_synonym: "MAPK cascade" [] xref_analog: Reactome:109869 is_a: GO:0007243 ! protein kinase cascade [Term] id: GO:0000166 name: nucleotide binding namespace: molecular_function def: "Interacting selectively with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety." [GOC:mah, ISBN:0198547684] subset: goslim_generic subset: goslim_plant subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0000167 name: activation of MAPKKK activity during osmolarity sensing namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase during osmolarity sensing." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase kinase activity during osmolarity sensing" [] exact_synonym: "osmolarity sensing, activation of MAP kinase kinase kinase activity" [] exact_synonym: "osmolarity sensing, activation of MAPKKK activity" [] is_a: GO:0000185 ! activation of MAPKKK activity relationship: part_of GO:0000161 ! MAPKKK cascade during osmolarity sensing [Term] id: GO:0000168 name: activation of MAPKK activity during osmolarity sensing namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase during osmolarity sensing." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase activity during osmolarity sensing" [] exact_synonym: "osmolarity sensing, activation of MAP kinase kinase activity" [] exact_synonym: "osmolarity sensing, activation of MAPKK activity" [] is_a: GO:0000186 ! activation of MAPKK activity relationship: part_of GO:0000161 ! MAPKKK cascade during osmolarity sensing [Term] id: GO:0000169 name: activation of MAPK activity during osmolarity sensing namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase activity during osmolarity sensing." [PMID:9561267] exact_synonym: "osmolarity sensing, activation of MAPK activity" [] is_a: GO:0000187 ! activation of MAPK activity relationship: part_of GO:0000161 ! MAPKKK cascade during osmolarity sensing [Term] id: GO:0000170 name: sphingosine hydroxylase activity namespace: molecular_function def: "Catalysis of the hydroxylation of sphingolipid long chain bases." [PMID:9556590] is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0000171 name: ribonuclease MRP activity namespace: molecular_function def: "Catalysis of the first cleavage in rRNA transcript processing, also involved in mitochondrial RNA processing." [PMID:10690410] exact_synonym: "RNase MRP" [] is_a: GO:0004540 ! ribonuclease activity [Term] id: GO:0000172 name: ribonuclease MRP complex namespace: cellular_component def: "A ribonucleoprotein complex that performs the first cleavage in rRNA transcript processing and is also involved in mitochondrial RNA processing." [PMID:10690410] exact_synonym: "ribonuclease mitochondrial RNA processing complex" [] exact_synonym: "RNase MRP complex" [] is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0000173 name: inactivation of MAPK activity during osmolarity sensing namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase during osmolarity sensing." [PMID:9561267] exact_synonym: "osmolarity sensing, inactivation of MAPK" [] exact_synonym: "osmolarity sensing, termination of MAPK activity" [] exact_synonym: "termination of MAPK activity during osmolarity sensing" [] is_a: GO:0000188 ! inactivation of MAPK activity relationship: part_of GO:0000161 ! MAPKKK cascade during osmolarity sensing [Term] id: GO:0000174 name: inactivation of MAPK (mating sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of transduction of mating pheromone signal, as described for Saccharomyces." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, use the biological process term 'pheromone-dependent signal transduction during conjugation with cellular fusion ; GO:0000750'. is_obsolete: true [Term] id: GO:0000175 name: 3'-5'-exoribonuclease activity namespace: molecular_function def: "Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule." [GOC:mah, ISBN:0198547684] subset: gosubset_prok exact_synonym: "3'-5' exoribonuclease activity" [] xref_analog: EC:3.1.13.- is_a: GO:0008408 ! 3'-5' exonuclease activity is_a: GO:0016896 ! exoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0000176 name: nuclear exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases found in the nucleus." [PMID:10465791] is_a: GO:0000178 ! exosome (RNase complex) is_a: GO:0044428 ! nuclear part [Term] id: GO:0000177 name: cytoplasmic exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases found in the cytoplasm." [PMID:10465791] is_a: GO:0000178 ! exosome (RNase complex) is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000178 name: exosome (RNase complex) namespace: cellular_component def: "Complex of 3'-5' exoribonucleases." [PMID:10465791] comment: Note that this term should not be confused with 'exosome' used in the context of vesicles released from multivesicular bodies. is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000179 name: rRNA (adenine-N6,N6-)-dimethyltransferase activity namespace: molecular_function def: "Catalysis of the dimethylation two adjacent A residues in the loop closing the 3'-terminal stem of the 18S rRNA, using S-adenosyl-L-methionine as a methyl donor." [ISBN:1555811337, PMID:10690410] subset: gosubset_prok xref_analog: EC:2.1.1.- is_a: GO:0016433 ! rRNA (adenine) methyltransferase activity [Term] id: GO:0000180 name: cytosolic large ribosomal subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because more specific children exist. To update annotations, consider the cellular component terms 'cytosolic large ribosomal subunit (sensu Bacteria) ; GO:0009282' and 'cytosolic large ribosomal subunit (sensu Eukaryota) ; GO:0005842'. is_obsolete: true [Term] id: GO:0000181 name: cytosolic small ribosomal subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because more specific children exist. To update annotations, consider the cellular component terms 'cytosolic small ribosomal subunit (sensu Bacteria) ; GO:0009283' and 'cytosolic small ribosomal subunit (sensu Eukaryota) ; GO:0005843'. is_obsolete: true [Term] id: GO:0000182 name: rDNA binding namespace: molecular_function def: "Interacting selectively with DNA sequences encoding ribosomal RNA." [GOC:mah] exact_synonym: "ribosomal DNA binding" [] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0000183 name: chromatin silencing at rDNA namespace: biological_process def: "Repression of transcription of ribosomal DNA by the formation of heterochromatin." [PMID:10219245] exact_synonym: "chromatin silencing at ribosomal DNA" [] is_a: GO:0006342 ! chromatin silencing [Term] id: GO:0000184 name: mRNA catabolism, nonsense-mediated decay namespace: biological_process def: "The nonsense-mediated mRNA decay pathway degrades mRNAs transcribed from genes in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins." [GOC:ma, PMID:10025395] subset: gosubset_prok exact_synonym: "mRNA breakdown, nonsense-mediated decay" [] exact_synonym: "mRNA catabolism, nonsense-mediated" [] exact_synonym: "mRNA degradation, nonsense-mediated decay" [] exact_synonym: "nonsense-mediated mRNA decay" [] is_a: GO:0006402 ! mRNA catabolism [Term] id: GO:0000185 name: activation of MAPKKK activity namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase kinase" [] broad_synonym: "positive regulation of MAP kinase kinase kinase activity" [] broad_synonym: "positive regulation of MAPKKK activity" [] is_a: GO:0032147 ! activation of protein kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000186 name: activation of MAPKK activity namespace: biological_process alt_id: GO:0007255 def: "The initiation of the activity of the inactive enzyme MAP kinase kinase by phosphorylation by a MAPKKK." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase activity" [] exact_synonym: "activation of MAP/ERK kinase kinase" [] broad_synonym: "positive regulation of MAPKK activity" [] xref_analog: Reactome:110049 is_a: GO:0032147 ! activation of protein kinase activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000187 name: activation of MAPK activity namespace: biological_process def: "The initiation of the activity of the inactive enzyme MAP kinase by phosphorylation by a MAPKK." [PMID:9561267] exact_synonym: "activation of MAP kinase" [] xref_analog: Reactome:112409 is_a: GO:0043406 ! positive regulation of MAPK activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000188 name: inactivation of MAPK activity namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase." [PMID:9561267] exact_synonym: "termination of MAPK activity" [] is_a: GO:0043407 ! negative regulation of MAPK activity relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000189 name: nuclear translocation of MAPK namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus upon activation." [PMID:9561267] xref_analog: Reactome:109867 xref_analog: Reactome:109868 xref_analog: Reactome:112353 xref_analog: Reactome:167476 xref_analog: Reactome:167481 xref_analog: Reactome:174708 xref_analog: Reactome:178088 xref_analog: Reactome:178093 is_a: GO:0000060 ! protein import into nucleus, translocation relationship: part_of GO:0000165 ! MAPKKK cascade [Term] id: GO:0000190 name: MAPKKK cascade (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. MAPKKK cascade involved in transduction of signal promoting pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000191 name: activation of MAPKKK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of MAPKKK activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000192 name: activation of MAPKK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of a MAP kinase kinase in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000193 name: activation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Upregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000194 name: inactivation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000195 name: nuclear translocation of MAPK (pseudohyphal growth) namespace: biological_process def: "OBSOLETE. Movement of a MAP kinase to the nucleus in the context of regulating pseudohyphal or invasive growth." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process term 'signal transduction during filamentous growth' (GO:0001402). is_obsolete: true [Term] id: GO:0000196 name: MAPKKK cascade during cell wall biogenesis namespace: biological_process def: "Cascade of at least three protein kinase activities culminating in the phosphorylation and activation of a MAP kinase that occurs during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "cell wall biogenesis, MAPKKK cascade" [] is_a: GO:0000165 ! MAPKKK cascade relationship: part_of GO:0007047 ! cell wall organization and biogenesis [Term] id: GO:0000197 name: activation of MAPKKK activity during cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase kinase activity during cell wall biogenesis" [] exact_synonym: "cell wall biogenesis, activation of MAP kinase kinase kinase activity" [] exact_synonym: "cell wall biogenesis, activation of MAPKKK activity" [] is_a: GO:0000185 ! activation of MAPKKK activity relationship: part_of GO:0000196 ! MAPKKK cascade during cell wall biogenesis [Term] id: GO:0000198 name: activation of MAPKK activity during cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase kinase during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "activation of MAP kinase kinase activity during cell wall biogenesis" [] exact_synonym: "cell wall biogenesis, activation of MAP kinase kinase activity" [] exact_synonym: "cell wall biogenesis, activation of MAPKK activity" [] is_a: GO:0000186 ! activation of MAPKK activity relationship: part_of GO:0000196 ! MAPKKK cascade during cell wall biogenesis [Term] id: GO:0000199 name: activation of MAPK activity during cell wall biogenesis namespace: biological_process def: "Any process that initiates the activity of the inactive enzyme MAP kinase during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "cell wall biogenesis, activation of MAPK activity" [] is_a: GO:0000187 ! activation of MAPK activity relationship: part_of GO:0000196 ! MAPKKK cascade during cell wall biogenesis [Term] id: GO:0000200 name: inactivation of MAPK activity during cell wall biogenesis namespace: biological_process def: "Any process that terminates the activity of the active enzyme MAP kinase during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "cell wall biogenesis, inactivation of MAPK activity" [] exact_synonym: "cell wall biogenesis, termination of MAPK activity" [] exact_synonym: "termination of MAPK activity during cell wall biogenesis" [] is_a: GO:0000188 ! inactivation of MAPK activity relationship: part_of GO:0000196 ! MAPKKK cascade during cell wall biogenesis [Term] id: GO:0000201 name: nuclear translocation of MAPK during cell wall biogenesis namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus during cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267] exact_synonym: "cell wall biogenesis, nuclear translocation of MAPK" [] is_a: GO:0000189 ! nuclear translocation of MAPK relationship: part_of GO:0000196 ! MAPKKK cascade during cell wall biogenesis [Term] id: GO:0000202 name: MAPKKK cascade during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. MAPKKK cascade involved in transduction of signal promoting sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000203 name: activation of MAPKKK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of MAPKKK activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000204 name: activation of MAPKK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of a MAP kinase kinase in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000205 name: activation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Upregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000206 name: inactivation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Downregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000207 name: nuclear translocation of MAPK during sporulation (sensu Saccharomyces) namespace: biological_process def: "OBSOLETE. Movement of a MAP kinase to the nucleus in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267] comment: This term was made obsolete because it is a gene product specific term. To update annotations, consider the biological process terms 'sporulation (sensu Fungi)' ; GO:0030437 or 'signal transduction' ; GO:0007165. is_obsolete: true [Term] id: GO:0000208 name: nuclear translocation of MAPK during osmolarity sensing namespace: biological_process def: "The directed movement of a MAP kinase to the nucleus during osmolarity sensing." [PMID:9561267] exact_synonym: "osmolarity sensing, nuclear translocation of MAPK" [] is_a: GO:0000189 ! nuclear translocation of MAPK relationship: part_of GO:0000161 ! MAPKKK cascade during osmolarity sensing [Term] id: GO:0000209 name: protein polyubiquitination namespace: biological_process def: "Addition of multiple ubiquitin moieties to a protein, forming a ubiquitin chain." [ISBN:0815316194] subset: gosubset_prok related_synonym: "polyubiquitin" [] exact_synonym: "protein polyubiquitinylation" [] exact_synonym: "protein polyubiquitylation" [] is_a: GO:0016567 ! protein ubiquitination [Term] id: GO:0000210 name: NAD+ diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: NAD+ + H2O = AMP + NMN." [EC:3.6.1.22] subset: gosubset_prok exact_synonym: "NAD diphosphatase activity" [] exact_synonym: "NAD pyrophosphatase activity" [] xref_analog: EC:3.6.1.22 xref_analog: MetaCyc:NADPYROPHOSPHAT-RXN is_a: GO:0004551 ! nucleotide diphosphatase activity [Term] id: GO:0000211 name: protein degradation tagging activity namespace: molecular_function def: "OBSOLETE. Covalent addition of polyubiquitin to another protein, targeting the tagged protein for destruction." [GOC:cl, ISBN:0815316194] comment: This term was made obsolete because it represents a biological process and a molecular function. To update annotations, consider the molecular function term 'protein binding ; GO:0005515' and its children, and the biological process terms 'protein ubiquitination during ubiquitin-dependent protein catabolism ; GO:0042787' and 'modification-dependent protein catabolism ; GO:0019941' and its children. is_obsolete: true [Term] id: GO:0000212 name: meiotic spindle organization and biogenesis namespace: biological_process def: "The formation and maintenance of the microtubule spindle during a meiotic cell cycle." [GOC:mah] exact_synonym: "meiotic spindle organisation and biogenesis" [] exact_synonym: "spindle organization and biogenesis during meiosis" [] is_a: GO:0007051 ! spindle organization and biogenesis relationship: part_of GO:0051321 ! meiotic cell cycle [Term] id: GO:0000213 name: tRNA-intron endonuclease activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [EC:3.1.27.9] exact_synonym: "tRNA-splicing endonuclease" [] xref_analog: EC:3.1.27.9 xref_analog: MetaCyc:3.1.27.9-RXN is_a: GO:0004549 ! tRNA-specific ribonuclease activity is_a: GO:0016892 ! endoribonuclease activity, producing 3'-phosphomonoesters [Term] id: GO:0000214 name: tRNA-intron endonuclease complex namespace: cellular_component def: "A complex that catalyses the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [EC:3.1.27.9] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000215 name: tRNA 2'-phosphotransferase activity namespace: molecular_function def: "Catalysis of the transfer of the splice junction 2-phosphate from ligated tRNA to NAD+ to produce ADP-ribose 1'-2' cyclic phosphate." [PMID:9148937] is_a: GO:0008665 ! 2'-phosphotransferase activity [Term] id: GO:0000216 name: M/G1 transition of mitotic cell cycle namespace: biological_process def: "Progression from M phase to G1 phase of the mitotic cell cycle." [GOC:mah] xref_analog: Reactome:68874 relationship: part_of GO:0051329 ! interphase of mitotic cell cycle [Term] id: GO:0000217 name: DNA secondary structure binding namespace: molecular_function def: "Interacting selectively with DNA containing secondary structure elements such as four-way junctions, bubbles, loops, Y-form DNA, or double-strand/single-strand junctions." [GOC:krc] is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0000219 name: vacuolar hydrogen-transporting ATPase namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more specific terms were created. To update annotations, consider the cellular component term 'proton-transporting two-sector ATPase complex ; GO:0016469' and its children. exact_synonym: "V-ATPase" [] is_obsolete: true [Term] id: GO:0000220 name: hydrogen-transporting ATPase V0 domain namespace: cellular_component def: "The integral domain of the V-type ATPase comprises the pore through the membrane, through which protons are translocated." [GOC:rb, PMID:10224039, TC:3.A.2.-.-] comment: Note that this domain often consists of five subunits, although in some mammalian tissues it may have an additional subunit. is_a: GO:0016471 ! hydrogen-translocating V-type ATPase complex [Term] id: GO:0000221 name: hydrogen-transporting ATPase V1 domain namespace: cellular_component def: "The peripheral domain of the V-type ATPase contains the section responsible for ATP hydrolysis." [GOC:rb, PMID:10224039, TC:3.A.2.-.-] comment: Note that this domain generally consists of eight subunits. is_a: GO:0016471 ! hydrogen-translocating V-type ATPase complex [Term] id: GO:0000222 name: plasma membrane hydrogen-transporting ATPase V0 domain namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0000223 name: plasma membrane hydrogen-transporting ATPase V1 domain namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0000224 name: peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of an N4-(acetyl-beta-D-glucosaminyl)asparagine residue in which the N-acetyl-D-glucosamine residue may be further glycosylated, to yield a (substituted) N-acetyl-beta-D-glucosaminylamine and the peptide containing an aspartic residue." [EC:3.5.1.52] subset: gosubset_prok related_synonym: "peptide:N-glycanase" [] exact_synonym: "PNGase" [] xref_analog: EC:3.5.1.52 xref_analog: MetaCyc:3.5.1.52-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0000225 name: N-acetylglucosaminylphosphatidylinositol deacetylase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-D-glucosaminylphosphatidylinositol + H2O = D-glucosaminylphosphatidylinositol + acetate. The second step enzyme catalyzing the biosynthesis of glycosylphosphatidylinositol (GPI), used to anchor various eukaryotic proteins to the cell-surface membrane. Catalyzes the N-deacetylation of GlcNAc-PI to GlcN-PI." [EC:3.5.1.89] comment: Note that this function was formerly EC:3.1.1.69. xref_analog: EC:3.5.1.89 xref_analog: MetaCyc:3.1.1.69-RXN xref_analog: Reactome:22619 is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides is_a: GO:0019213 ! deacetylase activity [Term] id: GO:0000226 name: microtubule cytoskeleton organization and biogenesis namespace: biological_process def: "The assembly and arrangement of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] is_a: GO:0007017 ! microtubule-based process [Term] id: GO:0000227 name: oxaloacetate carrier activity namespace: molecular_function xref_analog: TC:2.A.29.15.1 is_a: GO:0015131 ! oxaloacetate transporter activity [Term] id: GO:0000228 name: nuclear chromosome namespace: cellular_component def: "A chromosome found in the nucleus of a eukaryotic cell." [GOC:mah] subset: goslim_generic narrow_synonym: "nuclear interphase chromosome" [] is_a: GO:0005694 ! chromosome is_a: GO:0044428 ! nuclear part [Term] id: GO:0000229 name: cytoplasmic chromosome namespace: cellular_component def: "A chromosome found in the cytoplasm." [GOC:mah] subset: goslim_generic subset: gosubset_prok narrow_synonym: "cytoplasmic interphase chromosome" [] is_a: GO:0005694 ! chromosome is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000230 name: nuclear mitotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the nucleus during mitosis." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'condensed nuclear chromosome ; GO:0000794'. is_obsolete: true [Term] id: GO:0000231 name: cytoplasmic mitotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cytoplasm during mitosis." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'condensed chromosome ; GO:0000793'. is_obsolete: true [Term] id: GO:0000232 name: nuclear interphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the nucleus during interphase." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'nuclear chromosome ; GO:0000228'. is_obsolete: true [Term] id: GO:0000233 name: cytoplasmic interphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cytoplasm during interphase." [GOC:mah] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'cytoplasmic chromosome ; GO:0000229'. is_obsolete: true [Term] id: GO:0000234 name: phosphoethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + ethanolamine phosphate = S-adenosyl-L-homocysteine + N-methylethanolamine phosphate." [EC:2.1.1.103] xref_analog: EC:2.1.1.103 xref_analog: MetaCyc:2.1.1.103-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0000235 name: astral microtubule namespace: cellular_component def: "Any of the spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell." [ISBN:0815316194] is_a: GO:0005876 ! spindle microtubule relationship: part_of GO:0005818 ! aster [Term] id: GO:0000236 name: mitotic prometaphase namespace: biological_process def: "Progression through prometaphase, the stage following prophase in mitosis (in higher eukaryotes) during which the nuclear envelope is disrupted and breaks into membrane vesicles, and the spindle microtubules enter the nuclear region. Kinetochores mature on each centromere and attach to some of the spindle microtubules. Kinetochore microtubules begin the process of aligning chromosomes in one plane halfway between the poles." [GOC:mah, ISBN:0198547684] xref_analog: Reactome:68877 relationship: part_of GO:0007067 ! mitosis [Term] id: GO:0000237 name: leptotene namespace: biological_process def: "Progression through the first stage of prophase I in meiosis, in which chromosomes first become visible." [ISBN:0198547684] relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000238 name: zygotene namespace: biological_process def: "Progression through the second stage of prophase I in meiosis, in which each chromosome pairs with its homolog; the two become aligned and crossing over may occur." [ISBN:0198547684] relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000239 name: pachytene namespace: biological_process def: "Progression through the third stage of prophase I in meiosis, in which crossing over occurs between a chromatid in one partner and another chromatid in the homologous chromosome." [ISBN:0198547684] relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000240 name: diplotene namespace: biological_process def: "Progression through the fourth stage of prophase I in meiosis, in which the homologous chromosomes begin to separate and the synaptonemal complex dissolves." [ISBN:0198547684] relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000241 name: diakinesis namespace: biological_process def: "Progression through the final stage of prophase I in meiosis; the transition to meiotic metaphase I." [ISBN:0198547684] relationship: part_of GO:0007128 ! meiotic prophase I [Term] id: GO:0000242 name: pericentriolar material namespace: cellular_component def: "A network of small fibers that surrounds the centrioles in cells; contains the microtubule nucleating activity of the centrosome." [GOC:clt, ISBN:0815316194] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005813 ! centrosome [Term] id: GO:0000243 name: commitment complex namespace: cellular_component def: "The first portion of the spliceosome to assemble in mRNA splicing; in commitment complex formation the 5' and 3' splice sites are recognized by the U1 snRNP and the U2 snRNP auxiliary factor, respectively." [PMID:9159080] exact_synonym: "E complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part relationship: part_of GO:0005681 ! spliceosome complex [Term] id: GO:0000244 name: assembly of spliceosomal tri-snRNP namespace: biological_process def: "The formation of a tri-snRNP complex containing U4 and U6 (or U4atac and U6atac) snRNAs and U5 snRNAs and associated proteins. This includes reannealing of U4 and U6 (or U4atac and U6atac) snRNAs released from previous rounds of splicing to reform the U4/U6 snRNP (or U4atac/U6atac snRNP) as well as the subsequent association of the U5 snRNP with the U4/U6 snRNP (or U4atac/U6atac snRNP) to form a tri-snRNP that is ready to reassemble into another spliceosome complex." [ISBN:0879695897, PMID:9452384] related_synonym: "MATa1 (A1) pre-mRNA splicing" [] exact_synonym: "snRNP recycling" [] relationship: part_of GO:0000387 ! spliceosomal snRNP biogenesis [Term] id: GO:0000245 name: spliceosome assembly namespace: biological_process def: "The aggregation and bonding together of the spliceosome, a ribonucleoprotein apparatus that catalyzes nuclear mRNA splicing via transesterification reactions." [PMID:9476892] is_a: GO:0006461 ! protein complex assembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000246 name: delta24(24-1) sterol reductase activity namespace: molecular_function def: "Catalysis of the reaction: ergosterol + NADP+ = ergosta-5,7,22,24(241)-tetraen-3-beta-ol + NADPH + H+." [EC:1.3.1.71, PMID:10722850] subset: gosubset_prok exact_synonym: "D24(24-1)-sterol reductase activity" [] exact_synonym: "sterol delta-24(28) methylene reductase activity" [] exact_synonym: "sterol delta-24(28) reductase activity" [] xref_analog: EC:1.3.1.71 xref_analog: MetaCyc:1.3.1.71-RXN is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0000247 name: C-8 sterol isomerase activity namespace: molecular_function def: "Catalysis of the reaction which results in unsaturation at C-7 in the B ring of sterols." [UniProtKB:P32352] exact_synonym: "delta-8-delta-7 sterol isomerase" [] xref_analog: EC:5.3.3.- is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0000248 name: C-5 sterol desaturase activity namespace: molecular_function def: "Catalysis of the introduction of a C-5 double bond in the B ring of ergosterol." [UniProtKB:P32353] exact_synonym: "sterol-C5-desaturase" [] is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0000249 name: C-22 sterol desaturase activity namespace: molecular_function def: "Catalysis of the formation of the C-22(23) double bond in the sterol side chain." [UniProtKB:P54781] is_a: GO:0003824 ! catalytic activity [Term] id: GO:0000250 name: lanosterol synthase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-2,3-epoxysqualene = lanosterol. This is a cyclization reaction that forms the sterol nucleus." [EC:5.4.99.7] subset: gosubset_prok exact_synonym: "2,3-epoxysqualene-lanosterol cyclase" [] exact_synonym: "OSC" [] exact_synonym: "oxidosqualene-lanosterol cyclase" [] xref_analog: EC:5.4.99.7 xref_analog: MetaCyc:LANOSTEROL-SYNTHASE-RXN is_a: GO:0031559 ! oxidosqualene cyclase activity [Term] id: GO:0000252 name: C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity namespace: molecular_function def: "Catalysis of the reaction: 3-beta-hydroxy-4-beta-methyl-5-alpha-cholesta-8,24-dien-4-alpha-carboxylate + NAD(P)+ = 4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-one + CO2 + NAD(P)H." [EC:1.1.1.170, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. related_synonym: "sterol-4-carboxylate 3-dehydrogenase (decarboxylating) activity" [] xref_analog: EC:1.1.1.- is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000253 name: 3-keto sterol reductase activity namespace: molecular_function def: "Catalysis of the reaction: 4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-beta-ol + NADP+ = 4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-one + NADPH + H+." [EC:1.1.1.270, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. xref_analog: EC:1.1.1.- is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000254 name: C-4 methylsterol oxidase activity namespace: molecular_function def: "Catalysis of the reaction: 4,4-dimethyl-5-alpha-cholesta-8,24-dien-3-beta-ol + NAD(P)H + H+ + O2 = 4-beta-hydroxymethyl-4-alpha-methyl-5-alpha-cholesta-8,24-dien-3-beta-ol + NAD(P)+ + H2O." [EC:1.14.13.72, PMID:9811880] comment: Note that zymosterol is cholesta-8,24-dien-3-ol. related_synonym: "methylsterol hydroxylase activity" [] related_synonym: "methylsterol monooxygenase activity" [] exact_synonym: "4-methylsterol oxidase activity" [] xref_analog: EC:1.14.13.- is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD or NADH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0000255 name: allantoin metabolism namespace: biological_process def: "The chemical reactions and pathways involving allantoin, (2,5-dioxo-4-imidazolidinyl)urea, an intermediate or end product of purine catabolism." [GOC:mah, ISBN:0198547684] subset: gosubset_prok is_a: GO:0009308 ! amine metabolism is_a: GO:0046483 ! heterocycle metabolism [Term] id: GO:0000256 name: allantoin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of allantoin, (2,5-dioxo-4-imidazolidinyl)urea." [GOC:mah, ISBN:0198547684] subset: gosubset_prok exact_synonym: "allantoin breakdown" [] exact_synonym: "allantoin degradation" [] is_a: GO:0000255 ! allantoin metabolism is_a: GO:0046700 ! heterocycle catabolism [Term] id: GO:0000257 name: nitrilase activity namespace: molecular_function def: "Catalysis of the reaction: a nitrile + H2O = a carboxylate + NH3. Acts on a wide range of aromatic nitriles including (indole-3-yl)-acetonitrile and some aliphatic nitriles, and on the corresponding acid amides." [EC:3.5.5.1, GOC:kd] subset: gosubset_prok xref_analog: EC:3.5.5.1 xref_analog: MetaCyc:3.5.5.1-RXN xref_analog: UM-BBD_enzymeID:e0283 is_a: GO:0016815 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in nitriles [Term] id: GO:0000258 name: isoleucine/valine:sodium symporter activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: (isoleucine or valine)(out) + Na+(out) = (isoleucine or valine)(in) + Na+(in)." [TC:2.A.26.1.1] comment: This term was made obsolete because it represents a multifunctional gene product. To update annotations, consider the molecular function terms 'L-isoleucine transporter activity ; GO:0015188', 'L-valine transporter activity ; GO:0005304', and 'sodium:amino acid symporter activity ; GO:0005283'. is_obsolete: true [Term] id: GO:0000259 name: intracellular nucleoside transporter activity namespace: molecular_function def: "OBSOLETE. Enables the directed movement of a nucleoside, a nucleobase linked to either beta-D-ribofuranose (ribonucleoside) or 2-deoxy-beta-D-ribofuranose (a deoxyribonucleotide) within a cell." [GOC:ai] comment: This term was made obsolete because it contains component and function information. To update annotations, use the molecular function term 'nucleoside transporter activity ; GO:0005337' and the cellular component term 'intracellular ; GO:0005622'. is_obsolete: true [Term] id: GO:0000260 name: hydrogen-translocating V-type ATPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + H2O + H+(in) = ADP + phosphate + H+(out). Found in vacuoles of eukaryotes and in bacteria." [TC:3.A.2.2.1, TC:3.A.2.2.3] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'hydrogen-transporting ATPase activity, rotational mechanism ; GO:0046961'. is_obsolete: true [Term] id: GO:0000261 name: sodium-translocating V-type ATPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + H2O + Na+(in) = ADP + phosphate + Na+(out). Found in vacuoles of eukaryotes and in bacteria." [TC:3.A.2.2.2] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'sodium-transporting ATPase activity, rotational mechanism ; GO:0046962'. is_obsolete: true [Term] id: GO:0000262 name: mitochondrial chromosome namespace: cellular_component def: "A chromosome found in the mitochondrion of a eukaryotic cell." [GOC:mah] related_synonym: "mitochondrial genome" [] narrow_synonym: "mitochondrial DNA" [] narrow_synonym: "mtDNA" [] is_a: GO:0005694 ! chromosome is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0042645 ! mitochondrial nucleoid [Term] id: GO:0000263 name: heterotrimeric G-protein GTPase, alpha-subunit namespace: molecular_function def: "OBSOLETE. Subunit of a heterotrimeric G-protein GTPase that contains the guanine nucleotide binding site and possesses GTPase activity." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the molecular function term 'GTPase activity ; GO:0003924' and the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'. is_obsolete: true [Term] id: GO:0000264 name: heterotrimeric G-protein GTPase, beta-subunit namespace: molecular_function def: "OBSOLETE. Subunit of a heterotrimeric G-protein GTPase; associates tightly with the gamma subunit." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the molecular function term 'GTPase activity ; GO:0003924' and the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'. is_obsolete: true [Term] id: GO:0000265 name: heterotrimeric G-protein GTPase, gamma-subunit namespace: molecular_function def: "OBSOLETE. Smallest subunit of a heterotrimeric G-protein GTPase; associates tightly with the beta subunit." [GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the molecular function term 'GTPase activity ; GO:0003924' and the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'. is_obsolete: true [Term] id: GO:0000266 name: mitochondrial fission namespace: biological_process def: "The division of a mitochondrion within a cell to form two or more separate mitochondrial compartments." [PMID:11038192] exact_synonym: "mitochondrial division" [] is_a: GO:0007005 ! mitochondrion organization and biogenesis is_a: GO:0048285 ! organelle fission [Term] id: GO:0000267 name: cell fraction namespace: cellular_component def: "A generic term for parts of cells prepared by disruptive biochemical techniques." [GOC:ma] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. subset: gosubset_prok is_a: GO:0044464 ! cell part [Term] id: GO:0000268 name: peroxisome targeting sequence binding namespace: molecular_function alt_id: GO:0005051 def: "Interacting selectively with a peroxisomal targeting sequence, any of several sequences of amino acids within a protein that can act as a signal for the localization of the protein into the peroxisome." [GOC:mah, ISBN:0879693568] exact_synonym: "PTS binding" [] narrow_synonym: "peroxisome targeting signal receptor" [] narrow_synonym: "PTS receptor" [] is_a: GO:0005048 ! signal sequence binding [Term] id: GO:0000269 name: toxin export channel activity namespace: molecular_function xref_analog: TC:1.B.20.-.- is_a: GO:0015288 ! porin activity is_a: GO:0019534 ! toxin transporter activity [Term] id: GO:0000270 name: peptidoglycan metabolism namespace: biological_process alt_id: GO:0009284 def: "The chemical reactions and pathways involving peptidoglycans, any of a class of glycoconjugates found only in bacterial cell walls and consisting of strands of glycosaminoglycan cross-linked by oligopeptides to form a huge and rigid network." [http://www.dsmz.de/species/murein.htm, ISBN:0198506732] subset: gosubset_prok exact_synonym: "murein metabolism" [] is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0000271 name: polysaccharide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glycan biosynthesis" [] exact_synonym: "polysaccharide anabolism" [] exact_synonym: "polysaccharide formation" [] exact_synonym: "polysaccharide synthesis" [] is_a: GO:0016051 ! carbohydrate biosynthesis is_a: GO:0043284 ! biopolymer biosynthesis is_a: GO:0044264 ! cellular polysaccharide metabolism [Term] id: GO:0000272 name: polysaccharide catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages." [GOC:go_curators] subset: gosubset_prok exact_synonym: "polysaccharide breakdown" [] exact_synonym: "polysaccharide degradation" [] is_a: GO:0005976 ! polysaccharide metabolism is_a: GO:0043285 ! biopolymer catabolism [Term] id: GO:0000273 name: lipoic acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving lipoic acid, 1,2-dithiolane-3-pentanoic acid, a coenzyme involved in oxidative decarboxylation of keto acids." [GOC:ai, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006732 ! coenzyme metabolism is_a: GO:0019752 ! carboxylic acid metabolism is_a: GO:0046483 ! heterocycle metabolism [Term] id: GO:0000274 name: proton-transporting ATP synthase, stator stalk (sensu Eukaryota) namespace: cellular_component def: "One of two stalks that connect the catalytic core of the hydrogen-transporting ATP synthase to the membrane-associated F0 proteins; is thought to prevent futile rotation of the catalytic core. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [PMID:10838056] exact_synonym: "hydrogen-transporting ATP synthase, stator stalk (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045265 ! proton-transporting ATP synthase, stator stalk relationship: part_of GO:0000276 ! proton-transporting ATP synthase complex, coupling factor F(o) (sensu Eukaryota) [Term] id: GO:0000275 name: proton-transporting ATP synthase complex, catalytic core F(1) (sensu Eukaryota) namespace: cellular_component def: "The catalytic sector of the mitochondrial hydrogen-transporting ATP synthase; it comprises the catalytic core and central stalk, and is peripherally associated with the mitochondrial inner membrane when the entire ATP synthase is assembled. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [PMID:10838056] comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'. broad_synonym: "hydrogen-transporting ATP synthase, F1 sector" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045261 ! proton-transporting ATP synthase complex, catalytic core F(1) relationship: part_of GO:0005753 ! proton-transporting ATP synthase complex (sensu Eukaryota) [Term] id: GO:0000276 name: proton-transporting ATP synthase complex, coupling factor F(o) (sensu Eukaryota) namespace: cellular_component def: "All non-F1 subunits of the mitochondrial hydrogen-transporting ATP synthase, including integral and peripheral mitochondrial inner membrane proteins. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [PMID:10838056] exact_synonym: "proton-transporting ATP synthase complex, coupling factor F(0) (sensu Eukaryota)" [] broad_synonym: "hydrogen-transporting ATP synthase, F0 sector" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045263 ! proton-transporting ATP synthase complex, coupling factor F(o) relationship: part_of GO:0005753 ! proton-transporting ATP synthase complex (sensu Eukaryota) [Term] id: GO:0000277 name: [cytochrome c]-lysine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + cytochrome c L-lysine = S-adenosyl-L-homocysteine + cytochrome c N6-methyl-L-lysine. This is the addition of a methyl group to the N6 atom of a lysine residue in cytochrome c." [EC:2.1.1.59] xref_analog: EC:2.1.1.59 xref_analog: MetaCyc:2.1.1.59-RXN is_a: GO:0016279 ! protein-lysine N-methyltransferase activity [Term] id: GO:0000278 name: mitotic cell cycle namespace: biological_process def: "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, in which a cell is duplicated without changing ploidy; comprises four successive phases called G1, S, G2, and M." [GOC:mah, ISBN:0815316194] xref_analog: Reactome:69278 is_a: GO:0007049 ! cell cycle [Term] id: GO:0000279 name: M phase namespace: biological_process def: "Progression through M phase, the part of the cell cycle comprising nuclear division and cytokinesis." [ISBN:0815316194] exact_synonym: "M-phase" [] relationship: part_of GO:0007049 ! cell cycle [Term] id: GO:0000280 name: nuclear division namespace: biological_process def: "The partitioning of the nucleus and its genetic information." [GOC:bf, GOC:jl, http://www.biology-online.org/] related_synonym: "karyokinesis" [] is_a: GO:0050875 ! cellular physiological process [Term] id: GO:0000281 name: cytokinesis after mitosis namespace: biological_process def: "The processes resulting in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells." [GOC:ai] is_a: GO:0000910 ! cytokinesis relationship: part_of GO:0000087 ! M phase of mitotic cell cycle [Term] id: GO:0000282 name: bud site selection namespace: biological_process def: "The specification of the site where a daughter cell will form, in organisms that reproduce by budding." [GOC:mah] comment: Note that this term was split from 'bud site selection/establishment of cell polarity (sensu Saccharomyces) ; GO:0007115' (sibling term 'establishment of cell polarity (sensu Saccharomyces) ; GO:0000283'). related_synonym: "bud scar accumulation" [] broad_synonym: "bud site selection/establishment of cell polarity (sensu Saccharomyces)" [] is_a: GO:0007105 ! cytokinesis, site selection is_a: GO:0030468 ! establishment of cell polarity (sensu Fungi) [Term] id: GO:0000284 name: shmoo orientation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:elh] comment: This term was made obsolete because it is an organism specific term. The entire branch of the ontology was reorganized to be more generally applicable. To update annotations, use the biological process term 'cellular morphogenesis during conjugation with cellular fusion ; GO:0000753'. is_obsolete: true [Term] id: GO:0000285 name: 1-phosphatidylinositol-3-phosphate 5-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1-phosphatidyl-1D-myo-inositol 3-phosphate = ADP + 1-phosphatidyl-1D-myo-inositol 3,5-bisphosphate." [EC:2.7.1.150] xref_analog: EC:2.7.1.150 xref_analog: MetaCyc:2.7.1.150-RXN is_a: GO:0016307 ! phosphatidylinositol phosphate kinase activity [Term] id: GO:0000286 name: alanine dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-alanine + H2O + NAD+ = pyruvate + NH3 + NADH + H+." [EC:1.4.1.1] subset: gosubset_prok xref_analog: EC:1.4.1.1 xref_analog: MetaCyc:ALANINE-DEHYDROGENASE-RXN is_a: GO:0016638 ! oxidoreductase activity, acting on the CH-NH2 group of donors [Term] id: GO:0000287 name: magnesium ion binding namespace: molecular_function def: "Interacting selectively with magnesium (Mg) ions." [GOC:ai] subset: gosubset_prok exact_synonym: "magnesium binding" [] is_a: GO:0046872 ! metal ion binding [Term] id: GO:0000288 name: mRNA catabolism, deadenylylation-dependent decay namespace: biological_process def: "A major pathway of mRNA degradation, that proceeds through a series of ordered steps: poly(A) tail shortening, deadenylylation-dependent decapping, and decay of the transcript body, and that can regulate mRNA stability." [GOC:krc] subset: gosubset_prok exact_synonym: "deadenylation-dependent mRNA decay" [] exact_synonym: "mRNA breakdown, deadenylylation-dependent decay" [] exact_synonym: "mRNA catabolism, deadenylation-dependent" [] exact_synonym: "mRNA catabolism, deadenylylation-dependent" [] exact_synonym: "mRNA degradation, deadenylylation-dependent decay" [] is_a: GO:0006402 ! mRNA catabolism is_a: GO:0043488 ! regulation of mRNA stability [Term] id: GO:0000289 name: poly(A) tail shortening namespace: biological_process def: "Shortening of the poly(A) tail of an mRNA from full length to an oligo(A) length." [GOC:krc] subset: gosubset_prok relationship: part_of GO:0000288 ! mRNA catabolism, deadenylylation-dependent decay [Term] id: GO:0000290 name: deadenylylation-dependent decapping namespace: biological_process def: "Cleavage of the 5'-cap of an mRNA triggered by shortening of the poly(A) tail to below a minimum functional length." [GOC:krc] exact_synonym: "deadenylation-dependent decapping" [] relationship: part_of GO:0000288 ! mRNA catabolism, deadenylylation-dependent decay [Term] id: GO:0000291 name: mRNA catabolism, exonucleolytic namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the mRNA transcript body that occurs when the ends are not protected by the 5'-cap or the 3'-poly(A) tail." [GOC:krc] subset: gosubset_prok exact_synonym: "exonucleolytic degradation of mRNA" [] exact_synonym: "mRNA breakdown, exonucleolytic" [] exact_synonym: "mRNA degradation, exonucleolytic" [] is_a: GO:0006402 ! mRNA catabolism relationship: part_of GO:0000288 ! mRNA catabolism, deadenylylation-dependent decay relationship: part_of GO:0000294 ! mRNA catabolism, endonucleolytic cleavage-dependent decay [Term] id: GO:0000292 name: RNA fragment catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a fragment of RNA, such as excised introns or sequences removed from ribosomal RNA during processing." [GOC:mah] subset: gosubset_prok exact_synonym: "RNA fragment breakdown" [] exact_synonym: "RNA fragment degradation" [] is_a: GO:0006401 ! RNA catabolism [Term] id: GO:0000293 name: ferric-chelate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 2 Fe2+ + NAD+ = 2 Fe3+ + NADH + H+." [EC:1.16.1.7] comment: Note that this function was formerly EC:1.6.99.13. xref_analog: EC:1.16.1.7 xref_analog: MetaCyc:FERRIC-CHELATE-REDUCTASE-RXN is_a: GO:0016723 ! oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor [Term] id: GO:0000294 name: mRNA catabolism, endonucleolytic cleavage-dependent decay namespace: biological_process def: "A minor mRNA degradation pathway that begins with an endonucleolytic cleavage to generate unprotected ends." [GOC:krc] subset: gosubset_prok exact_synonym: "endonucleolytic mRNA decay" [] exact_synonym: "mRNA breakdown, endonucleolytic cleavage-dependent decay" [] exact_synonym: "mRNA catabolism, endonucleolytic" [] exact_synonym: "mRNA degradation, endonucleolytic cleavage-dependent decay" [] is_a: GO:0006402 ! mRNA catabolism [Term] id: GO:0000295 name: adenine nucleotide transporter activity namespace: molecular_function def: "Transports adenine nucleotides (AMP, ADP, and ATP) across membranes." [PMID:11566870] is_a: GO:0015216 ! purine nucleotide transporter activity [Term] id: GO:0000296 name: spermine transport namespace: biological_process def: "The directed movement of spermine, N,N-bis(3-aminopropyl)-1,4-diaminobutane, a polyamine formed by the transfer of a propylamine group from decarboxylated S-adenosylmethionine to spermidine, into, out of, within or between cells." [GOC:krc, ISBN:0198506732] is_a: GO:0015846 ! polyamine transport [Term] id: GO:0000297 name: spermine transporter activity namespace: molecular_function def: "Enables the directed movement of spermine into, out of, within or between cells. Spermine is a polybasic amine found in human sperm, in ribosomes and in some viruses, which is involved in nucleic acid packaging. Synthesis is regulated by ornithine decarboxylase which plays a key role in control of DNA replication." [GOC:ai] is_a: GO:0015203 ! polyamine transporter activity [Term] id: GO:0000298 name: endopolyphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: polyphosphate + n H2O = (n+1) oligophosphate. The product contains 4 or 5 phosphate residues." [EC:3.6.1.10] xref_analog: EC:3.6.1.10 xref_analog: MetaCyc:ENDOPOLYPHOSPHATASE-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0000299 name: integral to membrane of membrane fraction namespace: cellular_component def: "Integral to that fraction of cells, prepared by disruptive biochemical methods, that includes the plasma and other membranes; require detergents, such as Triton X-100, to be released from membranes." [PMID:10512869] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. is_a: GO:0005624 ! membrane fraction [Term] id: GO:0000300 name: peripheral to membrane of membrane fraction namespace: cellular_component def: "Peripheral to that fraction of cells, prepared by disruptive biochemical methods, that includes the plasma and other membranes; can be extracted from membrane fraction with high concentrations of salt or high pH." [PMID:10512869] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. is_a: GO:0005624 ! membrane fraction [Term] id: GO:0000301 name: retrograde transport, vesicle recycling within Golgi namespace: biological_process def: "The retrograde movement of substances within the Golgi, mediated by COP I vesicles. Cis-Golgi vesicles are constantly moving forward through the Golgi stack by cisternal progression, eventually becoming trans-Golgi vesicles. They then selectively transport membrane and luminal proteins from the trans- to the medial-Golgi while leaving others behind in the trans-Golgi cisternae; similarly, they selectively move proteins from the medial- to the cis-Golgi." [ISBN:0716731363] exact_synonym: "retrograde (vesicle recycling within Golgi) transport" [] is_a: GO:0006891 ! intra-Golgi vesicle-mediated transport [Term] id: GO:0000302 name: response to reactive oxygen species namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a reactive oxygen species stimulus. Reactive oxygen species include singlet oxygen, superoxide, and oxygen free radicals." [GOC:krc] subset: gosubset_prok is_a: GO:0006979 ! response to oxidative stress [Term] id: GO:0000303 name: response to superoxide namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a superoxide stimulus. Superoxide is the anion, oxygen-, formed by addition of one electron to dioxygen (O2) or any compound containing the superoxide anion." [GOC:krc, ISBN:0198506732] subset: gosubset_prok is_a: GO:0000305 ! response to oxygen radical [Term] id: GO:0000304 name: response to singlet oxygen namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a singlet oxygen stimulus. Singlet oxygen is a dioxygen (O2) molecule in which two 2p electrons have similar spin. Singlet oxygen is more highly reactive than the form in which these electrons are of opposite spin, and it is produced in mutant chloroplasts lacking carotenoids and by leukocytes during metabolic burst." [GOC:krc, ISBN:0124325653, ISBN:0198506732] subset: gosubset_prok is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0000305 name: response to oxygen radical namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an oxygen radical stimulus. An oxygen radical is any oxygen species that carries a free electron; examples include hydroxyl radicals and the superoxide anion." [GOC:krc, ISBN:0124325653] subset: gosubset_prok is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0000306 name: extrinsic to vacuolar membrane namespace: cellular_component def: "Loosely bound to one or the other surface of the vacuolar membrane, but not integrated into the hydrophobic region." [GOC:jl, GOC:mah, http://cancerweb.ncl.ac.uk/] is_a: GO:0031312 ! extrinsic to organelle membrane is_a: GO:0044437 ! vacuolar part relationship: part_of GO:0005774 ! vacuolar membrane [Term] id: GO:0000307 name: cyclin-dependent protein kinase holoenzyme complex namespace: cellular_component def: "Cyclin-dependent protein kinases (CDKs) are heterodimeric enzymes that contain a kinase catalytic subunit associated with a regulatory cyclin partner." [GOC:krc, PMID:11602261] exact_synonym: "CDK holoenzyme" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000308 name: cytoplasmic cyclin-dependent protein kinase holoenzyme complex namespace: cellular_component def: "Cyclin-dependent protein kinase (CDK) complex found in the cytoplasm." [GOC:krc] broad_synonym: "CDK holoenzyme" [] is_a: GO:0000307 ! cyclin-dependent protein kinase holoenzyme complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000309 name: nicotinamide-nucleotide adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nicotinamide nucleotide = diphosphate + NAD+." [EC:2.7.7.1] subset: gosubset_prok exact_synonym: "ATP:nicotinamide-nucleotide adenylyltransferase activity" [] narrow_synonym: "NMN adenylyltransferase" [] xref_analog: EC:2.7.7.1 xref_analog: MetaCyc:2.7.7.1-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0000310 name: xanthine phosphoribosyltransferase activity namespace: molecular_function alt_id: GO:0009043 def: "Catalysis of the reaction: 5-phospho-alpha-D-ribose 1-diphosphate + xanthine = (9-D-ribosylxanthine)-5'-phosphate + diphosphate; substrate specificity for xanthine." [EC:2.4.2.22, GOC:clt] subset: gosubset_prok exact_synonym: "xanthine-guanine phosphoribosyltransferase activity" [] xref_analog: EC:2.4.2.22 xref_analog: MetaCyc:XANPRIBOSYLTRAN-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0000311 name: plastid large ribosomal subunit namespace: cellular_component def: "The larger of the two subunits of a plastid ribosome. Two sites on the ribosomal large subunit are involved in translation: the aminoacyl site (A site) and peptidyl site (P site)." [GOC:mcc] is_a: GO:0000315 ! organellar large ribosomal subunit is_a: GO:0044435 ! plastid part relationship: part_of GO:0009547 ! plastid ribosome [Term] id: GO:0000312 name: plastid small ribosomal subunit namespace: cellular_component def: "The smaller of the two subunits of a plastid ribosome." [GOC:mcc] is_a: GO:0000314 ! organellar small ribosomal subunit is_a: GO:0044435 ! plastid part relationship: part_of GO:0009547 ! plastid ribosome [Term] id: GO:0000313 name: organellar ribosome namespace: cellular_component def: "A ribosome contained within a subcellular organelle." [GOC:mcc] is_a: GO:0005840 ! ribosome [Term] id: GO:0000314 name: organellar small ribosomal subunit namespace: cellular_component def: "The smaller of the two subunits of an organellar ribosome." [GOC:mcc] is_a: GO:0015935 ! small ribosomal subunit relationship: part_of GO:0000313 ! organellar ribosome [Term] id: GO:0000315 name: organellar large ribosomal subunit namespace: cellular_component def: "The larger of the two subunits of an organellar ribosome. Two sites on the ribosomal large subunit are involved in translation: the aminoacyl site (A site) and peptidyl site (P site)." [GOC:mcc] is_a: GO:0015934 ! large ribosomal subunit relationship: part_of GO:0000313 ! organellar ribosome [Term] id: GO:0000316 name: sulfite transport namespace: biological_process def: "The directed movement of sulfite into, out of, within or between cells." [GOC:krc] exact_synonym: "sulphite transport" [] is_a: GO:0015698 ! inorganic anion transport [Term] id: GO:0000317 name: methionine-S-oxide reductase activity namespace: molecular_function def: "Catalysis of the reaction: L-methionine S-oxide + thioredoxin = L-methionine + thioredoxin disulfide. Thioredoxin disulfide is the oxidized form of thioredoxin. No reaction on oxidized methionine in peptide linkage." [EC:1.8.4.5, PMID:11169920] subset: gosubset_prok exact_synonym: "methionine sulfoxide reductase" [] xref_analog: EC:1.8.4.5 xref_analog: MetaCyc:METHIONINE-S-OXIDE-REDUCTASE-RXN is_a: GO:0016671 ! oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor [Term] id: GO:0000318 name: protein-methionine-R-oxide reductase activity namespace: molecular_function def: "Catalysis of the reaction: L-methionine R-oxide + thioredoxin = L-methionine + thioredoxin disulfide; can act on oxidized methionine in peptide linkage with specificity for the R enantiomer. Thioredoxin disulfide is the oxidized form of thioredoxin." [EC:1.8.4.-, PMID:11929995] subset: gosubset_prok exact_synonym: "(protein) methionine-R-sulfoxide reductase" [] xref_analog: EC:1.8.4.- is_a: GO:0016671 ! oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor [Term] id: GO:0000319 name: sulfite transporter activity namespace: molecular_function def: "Enables the directed movement of sulfite ions into, out of, within or between cells." [GOC:as] exact_synonym: "sulphite transporter activity" [] is_a: GO:0015103 ! inorganic anion transporter activity [Term] id: GO:0000320 name: re-entry into mitotic cell cycle namespace: biological_process def: "The resumption of the mitotic cell division cycle by cells that were in a quiescent or other non-dividing state." [GOC:krc] is_a: GO:0000074 ! regulation of progression through cell cycle [Term] id: GO:0000321 name: re-entry into mitotic cell cycle after pheromone arrest namespace: biological_process def: "The resumption of the mitotic cell division cycle by pheromone-arrested cells that have not mated." [GOC:krc, PMID:9927449] narrow_synonym: "re-entry into mitotic cell cycle after pheromone arrest (sensu Saccharomyces)" [] is_a: GO:0000320 ! re-entry into mitotic cell cycle is_a: GO:0000754 ! adaptation to pheromone during conjugation with cellular fusion [Term] id: GO:0000322 name: storage vacuole namespace: cellular_component def: "A vacuole that functions primarily in the storage of materials, including nutrients, pigments, waste products, and small molecules." [GOC:krc] is_a: GO:0005773 ! vacuole [Term] id: GO:0000323 name: lytic vacuole namespace: cellular_component def: "A vacuole that is maintained at an acidic pH and which contains degradative enzymes, including a wide variety of acid hydrolases." [GOC:krc] is_a: GO:0005773 ! vacuole [Term] id: GO:0000324 name: vacuole (sensu Fungi) namespace: cellular_component def: "The vacuole is a large, membrane-bound organelle that functions as a reservoir for the storage of small molecules (including polyphosphate, amino acids, several divalent cations (e.g. calcium), other ions, and other small molecules) as well as being the primary compartment for degradation. It is an acidic compartment, containing an ensemble of acid hydrolases. At least in S. cerevisiae, there are indications that the morphology of the vacuole is variable and correlated with the cell cycle, with logarithmically growing cells having a multilobed, reticulated vacuole, while stationary phase cells contain a single large structure. As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [ISBN:0879693649] is_a: GO:0000322 ! storage vacuole is_a: GO:0000323 ! lytic vacuole [Term] id: GO:0000325 name: vacuole (sensu Magnoliophyta) namespace: cellular_component def: "Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol. As in, but not restricted to, the flowering plants (Magnoliophyta, ncbi_taxonomy_id:3398)." [ISBN:0815316208] is_a: GO:0005773 ! vacuole [Term] id: GO:0000326 name: protein storage vacuole namespace: cellular_component def: "A compound organelle of plants where there is a lytic vacuole within a storage vacuole." [PMID:11739409] is_a: GO:0000322 ! storage vacuole is_a: GO:0000325 ! vacuole (sensu Magnoliophyta) [Term] id: GO:0000327 name: lytic vacuole within protein storage vacuole namespace: cellular_component def: "A membrane-bound compartment containing crystals of phytic acid and proteins characteristic of a lytic vacuole, found within a storage vacuole." [PMID:11739490] is_a: GO:0000323 ! lytic vacuole is_a: GO:0000326 ! protein storage vacuole [Term] id: GO:0000328 name: vacuolar lumen (sensu Fungi) namespace: cellular_component def: "The volume enclosed within the vacuolar membrane of the vacuole. As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [GOC:krc] is_a: GO:0005775 ! vacuolar lumen relationship: part_of GO:0000324 ! vacuole (sensu Fungi) [Term] id: GO:0000329 name: vacuolar membrane (sensu Fungi) namespace: cellular_component def: "The lipid bilayer separating the vacuole from the cytoplasm of the cell. As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [GOC:krc] is_a: GO:0005774 ! vacuolar membrane relationship: part_of GO:0000324 ! vacuole (sensu Fungi) [Term] id: GO:0000330 name: vacuolar lumen (sensu Magnoliophyta) namespace: cellular_component def: "The volume enclosed within the vacuolar membrane; as in, but not restricted to, the flowering plants (Magnoliophyta, ncbi_taxonomy_id:3398)." [GOC:krc] is_a: GO:0005775 ! vacuolar lumen relationship: part_of GO:0000325 ! vacuole (sensu Magnoliophyta) [Term] id: GO:0000331 name: contractile vacuole namespace: cellular_component def: "A specialized vacuole of eukaryotic cells, especially Protozoa, that fills with water from the cytoplasm and then discharges this externally by the opening of contractile vacuole pores. Its function is probably osmoregulatory." [GOC:jl, http://cancerweb.ncl.ac.uk/, PMID:10503189] is_a: GO:0005773 ! vacuole [Term] id: GO:0000332 name: template for synthesis of G-rich strand of telomere DNA activity namespace: molecular_function def: "Provision of the template used by reverse transcriptase to synthesize the G-rich strand of telomeric DNA." [PMID:11812242] exact_synonym: "telomerase RNA" [] exact_synonym: "telomerase, template" [] relationship: part_of GO:0003720 ! telomerase activity [Term] id: GO:0000333 name: telomerase catalytic core complex namespace: cellular_component def: "The minimal catalytic core of telomerase is a ribonucleoprotein complex composed of a catalytic reverse transcriptase subunit and an RNA subunit that provides the template for telomeric DNA addition." [PMID:11884619] is_a: GO:0005697 ! telomerase holoenzyme complex [Term] id: GO:0000334 name: 3-hydroxyanthranilate 3,4-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-hydroxyanthranilate + O2 = 2-amino-3-carboxymuconate semialdehyde." [EC:1.13.11.6] subset: gosubset_prok xref_analog: EC:1.13.11.6 xref_analog: MetaCyc:1.13.11.6-RXN xref_analog: Reactome:114531 xref_analog: Reactome:116930 xref_analog: Reactome:119687 xref_analog: Reactome:122124 xref_analog: Reactome:124157 xref_analog: Reactome:23302 xref_analog: Reactome:71096 is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0000335 name: negative regulation of DNA transposition namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA transposition." [GOC:krc] subset: gosubset_prok is_a: GO:0000337 ! regulation of DNA transposition is_a: GO:0045910 ! negative regulation of DNA recombination [Term] id: GO:0000336 name: positive regulation of DNA transposition namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA transposition." [GOC:krc] subset: gosubset_prok is_a: GO:0000337 ! regulation of DNA transposition is_a: GO:0045911 ! positive regulation of DNA recombination [Term] id: GO:0000337 name: regulation of DNA transposition namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA transposition, the process of transposing (moving to a different location) a segment of a chromosome or a piece of a DNA molecule." [GOC:krc] subset: gosubset_prok is_a: GO:0000018 ! regulation of DNA recombination relationship: part_of GO:0006313 ! transposition, DNA-mediated [Term] id: GO:0000338 name: protein deneddylation namespace: biological_process def: "The removal of a ubiquitin-like protein of the NEDD8 type from a protein." [GOC:krc] is_a: GO:0006464 ! protein modification [Term] id: GO:0000339 name: RNA cap binding namespace: molecular_function def: "Interacting selectively with a 7-methylguanosine (m7G) moiety or derivative located at the 5' end of an RNA molecule." [GOC:krc] narrow_synonym: "binding to mRNA cap" [] narrow_synonym: "mRNA cap binding" [] narrow_synonym: "snRNA cap binding" [] is_a: GO:0003723 ! RNA binding [Term] id: GO:0000340 name: RNA 7-methylguanosine cap binding namespace: molecular_function def: "Interacting selectively with the 7-methylguanosine moiety added cotranscriptionally to the 5' end of RNA molecules transcribed by polymerase II." [GOC:krc] exact_synonym: "RNA m7G cap binding" [] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000341 name: RNA trimethylguanosine cap binding namespace: molecular_function def: "Interacting selectively with the trimethylguanosine (m(3)(2,2,7)-GTP) moiety located at the 5' end of some RNA molecules. Such trimethylated cap structures, generally produced by posttranscriptional modification of a 7-methylguanosine cap, are often found on snRNAs and snoRNAs transcribed by RNA polymerase II, but have also be found on snRNAs transcribed by RNA polymerase III. They have also been found on a subset of the mRNA population in some species, e.g. C. elegans." [GOC:krc] exact_synonym: "RNA m2,2,7G cap binding" [] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000342 name: RNA cap 4 binding namespace: molecular_function def: "Interacting selectively with a hypermethylated cap structure consisting of 7-methylguanosine (m(7)G) followed by four methylated nucleotides (cap 4): 7-methylguanosine-ppp-N6, N6, 2'-O-trimethyladenosine-p-2'-O-methyladenosine-p-2'-O-methylcytosine-p-N3, 2'-O-dimethyluridine Such caps are known to be found at the 5' ends of SL RNAs of trypanosomatid protozoa." [GOC:krc, PMID:10880518, PMID:12121975] is_a: GO:0000339 ! RNA cap binding [Term] id: GO:0000343 name: plastid-encoded plastid RNA polymerase complex A namespace: cellular_component def: "The plastid-encoded plastid RNA polymerase A (PEP-A) is a plastid-encoded DNA-directed RNA polymerase that resembles eubacterial multisubunit RNA polymerases with a core composed of alpha, beta, and beta-prime subunits. An additional subunit, a sigma factor, is required for promoter recognition. PEP-A is generated from the PEP-B form during chloroplast maturation to generate a complex composed of at least thirteen polypeptides that is not sensitive to the antibiotic rifampicin, like its precursor form the PEP-B complex." [PMID:10946105] exact_synonym: "PEP-A" [] is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044435 ! plastid part [Term] id: GO:0000344 name: plastid-encoded plastid RNA polymerase complex B namespace: cellular_component def: "The plastid-encoded plastid RNA polymerase B (PEP-B) is a plastid-encoded DNA-directed RNA polymerase that resembles eubacterial multisubunit RNA polymerases with a core composed of alpha, beta, and beta-prime subunits. An additional subunit, a sigma factor, is required for promoter recognition. PEP-B is distinguished from PEP-A by its sensitivity to the antibiotic rifampicin. PEP-B is found in both etioplasts and chloroplasts, but is the predominate form in etioplasts. It forms the core of the PEP-A form; the conversion from PEP-B to PEP-A occurs during chloroplast maturation." [PMID:10946105] exact_synonym: "PEP-B" [] is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044435 ! plastid part [Term] id: GO:0000345 name: cytosolic DNA-directed RNA polymerase (sensu Bacteria) namespace: cellular_component def: "The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity. As in, but not restricted to, the taxon Bacteria (Bacteria, ncbi_taxonomy_id:2)." [PMID:11158566] subset: gosubset_prok is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000346 name: transcription export complex namespace: cellular_component def: "The transcription export (TREX) complex couples transcription elongation by RNA polymerase II to mRNA export. The complex associates with the polymerase and travels with it along the length of the transcribed gene. TREX is composed of the THO transcription elongation complex as well as other proteins that couple THO to mRNA export proteins. The TREX complex is known to be found in a wide range of eukaryotes, including S. cerevisiae and metazoans." [GOC:krc, PMID:11979277] exact_synonym: "TREX complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0000347 name: THO complex namespace: cellular_component def: "The THO complex is an oligomeric complex, primarily located in the nucleus, that is involved in transcription elongation by RNA polymerase II and is crucial for transcription of certain coding regions. The complex, though not each of the individual subunits, is found in a range of eukaryotic organisms, from S. cerevisiae to metazoans." [GOC:krc, PMID:11060033] is_a: GO:0043234 ! protein complex is_a: GO:0044428 ! nuclear part relationship: part_of GO:0000346 ! transcription export complex [Term] id: GO:0000348 name: nuclear mRNA branch site recognition namespace: biological_process def: "Recognition of the pre-mRNA branch site sequence by components of the assembling spliceosome." [GOC:krc, ISBN:0879695897] relationship: part_of GO:0000245 ! spliceosome assembly [Term] id: GO:0000349 name: formation of catalytic spliceosome for first transesterification step namespace: biological_process def: "Formation of a catalytic spliceosome complex ready to perform the first splicing reaction. This occurs by an ATP-dependent conformational change of the pre-catalytic spliceosome." [GOC:krc, ISBN:0879695897] relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000350 name: formation of catalytic spliceosome for second transesterification step namespace: biological_process def: "Conformational rearrangement of the spliceosomal complex containing the RNA products from the 1st step of splicing to form the catalytic site for the second step of splicing." [GOC:krc, ISBN:0879695897] related_synonym: "lariat formation, 5'-splice site cleavage" [] narrow_synonym: "formation of spliceosomal A2-2 complex" [] narrow_synonym: "formation of spliceosomal C1 complex" [] relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000351 name: assembly of spliceosomal tri-snRNP U4/U6.U5 namespace: biological_process def: "The formation of a tri-snRNP complex containing the U4, U6, and U5 snRNAs and associated proteins. This includes reannealing of U4 and U6 snRNAs released from previous rounds of splicing to reform the U4/U6 snRNP as well as the subsequent association of the U5 snRNP with the U4/U6 snRNP to form the tri-snRNP that is ready to reassemble into another U2-type spliceosome complex." [GOC:krc, ISBN:0879695897] exact_synonym: "snRNP recycling" [] is_a: GO:0000244 ! assembly of spliceosomal tri-snRNP relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000352 name: trans assembly of SL containing precatalytic spliceosome namespace: biological_process def: "Assembly of a spliceosomal complex containing the SL RNA and the pre-mRNA to be joined, as well as all the spliceosomal snRNPs involved in trans leader splicing. Formation of the trans leader spliceosome brings together the quadruple SL/U4/U5/U6 snRNP and the complex of the U2 snRNP with the splice site of the pre-mRNA." [GOC:krc, ISBN:0879695897] relationship: part_of GO:0000245 ! spliceosome assembly relationship: part_of GO:0045291 ! nuclear mRNA trans splicing, splice leader addition [Term] id: GO:0000353 name: formation of quadruple SL/U4/U5/U6 snRNP namespace: biological_process def: "Formation of a quadruple snRNP complex composed of the spliced leader (SL) RNA along with the U4/U6-U5 tri-snRNP complex. Interactions that may facilitate this include a duplex between the SL and U6 RNAs and interactions between the U5 RNA and the exon sequence at the 5' splice site within the SL RNA." [GOC:krc, ISBN:0879695897] comment: Note that this step is analogous to 5' splice site selection in cis-splicing. relationship: part_of GO:0045291 ! nuclear mRNA trans splicing, splice leader addition [Term] id: GO:0000354 name: cis assembly of pre-catalytic spliceosome namespace: biological_process def: "Assembly of a spliceosomal complex containing the intact pre-mRNA and all of the spliceosomal snRNPs. This occurs when the tri-snRNP associates with the pre-mRNA and associated snRNPs in an ATP-dependent manner." [GOC:krc, ISBN:0879695897] narrow_synonym: "formation of spliceosomal A2-1 complex" [] narrow_synonym: "formation of spliceosomal B1 complex" [] relationship: part_of GO:0000245 ! spliceosome assembly [Term] id: GO:0000355 name: assembly of spliceosomal tri-snRNP U4atac/U6atac.U5 namespace: biological_process def: "The formation of a tri-snRNP complex containing the U4atac, U6atac, and U5 snRNAs and associated proteins. This includes reannealing of U4atac and U6atac snRNAs released from previous rounds of splicing to reform the U4/U6 snRNP as well as the subsequent association of the U5 snRNP with the U4atac/U6atac snRNP to form a tri-snRNP that is ready to reassemble into another U12-type spliceosome complex." [GOC:krc, ISBN:0879695897] exact_synonym: "snRNP recycling" [] is_a: GO:0000244 ! assembly of spliceosomal tri-snRNP relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000356 name: U2-type catalytic spliceosome formation for first transesterification step namespace: biological_process def: "Formation of a catalytic U2-type spliceosome complex containing the pre-mRNA ready to perform the first splicing reaction." [GOC:krc, ISBN:0879695897] comment: Note that this step represents the formation of the A2-2 complex (yeast) or the C1 complex (mammalian). narrow_synonym: "spliceosomal A2-2 complex formation" [] narrow_synonym: "spliceosomal C1 complex formation" [] is_a: GO:0000349 ! formation of catalytic spliceosome for first transesterification step relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000357 name: U12-type catalytic spliceosome formation for first transesterification step namespace: biological_process def: "Formation of a catalytic U12-type spliceosome complex containing the pre-mRNA ready to perform the first splicing reaction." [GOC:krc, ISBN:0879695897] is_a: GO:0000349 ! formation of catalytic spliceosome for first transesterification step relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000358 name: formation of catalytic U2-type spliceosome for second transesterification step namespace: biological_process def: "Conformational rearrangement of the U2-type spliceosomal complex containing the RNA products of the first step of splicing to form the catalytic site for the second step of splicing." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the A2-3 complex (yeast) or the C2 complex (mammalian). narrow_synonym: "spliceosomal A2-3 complex formation" [] narrow_synonym: "spliceosomal C2 complex formation" [] is_a: GO:0000350 ! formation of catalytic spliceosome for second transesterification step relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000359 name: formation of catalytic U12-type spliceosome for second transesterification step namespace: biological_process def: "Conformational rearrangement of the U12-type spliceosomal complex containing the RNA products of the 1st step of splicing to form the catalytic site for the second step of splicing." [GOC:krc, ISBN:0879695897] is_a: GO:0000350 ! formation of catalytic spliceosome for second transesterification step relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000360 name: cis assembly of U2-type pre-catalytic spliceosome namespace: biological_process def: "Assembly of a U2-type spliceosomal complex containing the intact pre-mRNA and all of the spliceosomal snRNPs. This occurs when the U4-U6/U5 tri-snRNP associates with the pre-mRNA and associated snRNPs in an ATP-dependent manner." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the A2-1 complex (yeast) or the B1 complex (mammals). narrow_synonym: "spliceosomal A2-1 complex formation" [] narrow_synonym: "spliceosomal B1 complex formation" [] is_a: GO:0000354 ! cis assembly of pre-catalytic spliceosome relationship: part_of GO:0045292 ! nuclear mRNA cis splicing, via U2-type spliceosome [Term] id: GO:0000361 name: cis assembly of U12-type pre-catalytic spliceosome namespace: biological_process def: "Assembly of a U12-type spliceosomal complex containing the intact pre-mRNA and all of the spliceosomal snRNPs. This occurs when the U4atac-Uatac6/U5 tri-snRNP associates with the pre-mRNA and associated snRNPs in an ATP-dependent manner." [GOC:krc, ISBN:0879695897] is_a: GO:0000354 ! cis assembly of pre-catalytic spliceosome relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000362 name: first U2-type spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the first transesterification reaction of U2-type spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, which is still joined to the 3' exon. The catalytic site is thought to be formed by U6 and/or U2 snRNA, and/or associated proteins." [GOC:krc, ISBN:0879695897] broad_synonym: "lariat formation, 5'-splice site cleavage" [] is_a: GO:0000384 ! first spliceosomal transesterification activity [Term] id: GO:0000363 name: first U12-type spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the first transesterification reaction of U12-type spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, which is still joined to the 3' exon. The catalytic site is thought to be formed by U6atac snRNA and/or U2atac snRNA, and/or associated proteins." [GOC:krc, ISBN:0879695897] broad_synonym: "lariat formation, 5'-splice site cleavage" [] is_a: GO:0000384 ! first spliceosomal transesterification activity [Term] id: GO:0000364 name: second U2-type spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the second transesterification reaction of U2-type spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure. The catalytic site is thought to be formed by U6 and/or U2 snRNAs and/or associated proteins." [GOC:krc, ISBN:0879695897] broad_synonym: "3'-splice site cleavage, exon ligation" [] is_a: GO:0000386 ! second spliceosomal transesterification activity [Term] id: GO:0000365 name: nuclear mRNA trans splicing, via U2-type spliceosome namespace: biological_process def: "The joining together of exons from two different primary transcripts of messenger RNA (mRNA) via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0879695897] is_a: GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000366 name: intergenic nuclear mRNA trans splicing namespace: biological_process def: "The joining together of two independently transcribed RNAs from two different genes, each of which also produces mRNA(s) via cis-splicing." [GOC:krc, PMID:11726664, PMID:12110900] is_a: GO:0000365 ! nuclear mRNA trans splicing, via U2-type spliceosome is_a: GO:0000380 ! alternative nuclear mRNA splicing, via spliceosome [Term] id: GO:0000367 name: second U12-type spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the second transesterification reaction of U12-type spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure. The catalytic site is thought to be formed by U6 and/or U2 snRNAs and/or associated proteins." [GOC:krc, ISBN:0879695897] broad_synonym: "3'-splice site cleavage, exon ligation" [] is_a: GO:0000386 ! second spliceosomal transesterification activity [Term] id: GO:0000368 name: U2-type nuclear mRNA 5'-splice site recognition namespace: biological_process def: "Recognition of the intron 5'-splice site by components of the assembling U2-type spliceosome. This may involve binding of U1 snRNA and/or U6 snRNA to intron sequences." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the Commitment Complex (CC, in yeast) or the E complex (mammalian). exact_synonym: "U2-type nuclear mRNA 5' splice site recognition" [] narrow_synonym: "spliceosomal CC complex formation" [] narrow_synonym: "spliceosomal commitment complex formation" [] narrow_synonym: "spliceosomal E complex formation" [] is_a: GO:0000395 ! nuclear mRNA 5'-splice site recognition relationship: part_of GO:0045292 ! nuclear mRNA cis splicing, via U2-type spliceosome [Term] id: GO:0000369 name: U12-type nuclear mRNA 5'-splice site recognition namespace: biological_process def: "Recognition of the intron 5'-splice site by components of the assembling U12-type spliceosome. The U11 snRNP is thought to play a role in recognition of the U12-type 5'-splice site." [GOC:krc, ISBN:0879695897] exact_synonym: "U12-type nuclear mRNA 5' splice site recognition" [] is_a: GO:0000395 ! nuclear mRNA 5'-splice site recognition relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000370 name: U2-type nuclear mRNA branch site recognition namespace: biological_process def: "Recognition of the intron branch site sequence of a U2-type intron. This recognition may include an interaction between the U2 snRNA (as part of the U2 snRNP) and the branch site sequence of the pre-mRNA. In cis-splicing, the U1 snRNP, already associated with the 5'-splice site may also be involved in recruiting the U2 snRNP to the branch site." [GOC:krc, ISBN:0879695897] comment: Note that this step represents the formation of the B complex (yeast) or the A complex (mammalian). narrow_synonym: "spliceosomal A complex formation" [] narrow_synonym: "spliceosomal B complex formation" [] is_a: GO:0000348 ! nuclear mRNA branch site recognition relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000371 name: U12-type nuclear mRNA branch site recognition namespace: biological_process def: "Recognition of the intron branch site sequence of a U12-type intron. The U12 snRNP is thought to play a role in this via an interaction between the U12 snRNA and the branch site sequence of the pre-mRNA." [GOC:krc, ISBN:0879695897] is_a: GO:0000348 ! nuclear mRNA branch site recognition relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000372 name: Group I intron splicing namespace: biological_process def: "The splicing of Group I introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group I introns and involved in determining the locations of the splice sites (there do not appear to be consensus splice site sequences) as well as having a role in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions, generally with exogenous guanosine as the initiating nucleophile. The intron is excised as a linear piece (though it may subsequently circularize)." [GOC:krc, PMID:11377794] comment: Note that Group I introns are known to be found in a number of places: rRNA, mRNA, and tRNA in organelles of fungi, plants, and protists; tRNA and mRNA of bacteria and bacteriophage; rRNA of protists and fungi; and occasionally in mRNA of animal mitochondria (e.g. sea anemone). subset: gosubset_prok narrow_synonym: "mRNA splicing" [] is_a: GO:0000376 ! RNA splicing, via transesterification reactions with guanosine as nucleophile [Term] id: GO:0000373 name: Group II intron splicing namespace: biological_process def: "The splicing of Group II introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group II introns and containing splice site consensus sequences, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions (mechanistically similar to those for splicing of nuclear mRNAs) initiated by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat." [GOC:krc, PMID:11377794] comment: Note that Group II introns are known to be found in a number of places: rRNA, mRNA, and tRNA in organelles of fungi, plants, and protists; and mRNA of bacteria. subset: gosubset_prok narrow_synonym: "mRNA splicing" [] is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile [Term] id: GO:0000374 name: Group III intron splicing namespace: biological_process def: "The splicing of Group III introns. This occurs by a ribozymic mechanism where the intron sequence forms a distinct 3D structure, characteristic of Group III introns, that is involved in catalyzing the splicing reactions, though protein factors are also required in vivo. Splicing occurs by a series of two transesterification reactions begun by a bulged adenosine residue within the intron sequence as the initiating nucleophile. The intron is excised as a lariat. Though very similar in structure and mechanism to Group II introns, Group III introns are smaller and more streamlined and the splice site consensus sequences are not as well conserved." [GOC:krc, PMID:11377794] comment: Note that Group III introns are known to be found in mRNA of plastids of euglenoid protists. subset: gosubset_prok narrow_synonym: "mRNA splicing" [] is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile [Term] id: GO:0000375 name: RNA splicing, via transesterification reactions namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions." [GOC:krc] subset: gosubset_prok is_a: GO:0008380 ! RNA splicing [Term] id: GO:0000376 name: RNA splicing, via transesterification reactions with guanosine as nucleophile namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions with exogenous guanosine as the initiating nucleophile." [GOC:krc, ISBN:9999] subset: gosubset_prok is_a: GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000377 name: RNA splicing, via transesterification reactions with bulged adenosine as nucleophile namespace: biological_process def: "Splicing of RNA via a series of two transesterification reactions with a bulged adenosine residue from the intron branch point as the initiating nucleophile. When the initial RNA for the splicing reaction is a single molecule (cis splicing), the excised intron is released in a lariat structure." [GOC:krc, PMID:11377794] subset: gosubset_prok related_synonym: "lariat RNA formation" [] is_a: GO:0000375 ! RNA splicing, via transesterification reactions [Term] id: GO:0000378 name: RNA exon ligation namespace: biological_process def: "The process of joining two exons, each of which has free ends that were generated by endonucleolytic cleavages, by a ligation reaction." [GOC:krc, ISBN:0879695897] comment: Note that this is not a part of spliceosomal RNA splicing. subset: gosubset_prok relationship: part_of GO:0000394 ! RNA splicing, via endonucleolytic cleavage and ligation [Term] id: GO:0000379 name: tRNA-type intron splice site recognition and cleavage namespace: biological_process def: "The process of recognition of the tertiary structure of a tRNA type intron and the endonucleolytic cleavage of the RNA at both the 5' and 3' splice sites." [GOC:krc, ISBN:0879695897] subset: gosubset_prok relationship: part_of GO:0000394 ! RNA splicing, via endonucleolytic cleavage and ligation [Term] id: GO:0000380 name: alternative nuclear mRNA splicing, via spliceosome namespace: biological_process def: "The process of generating multiple mRNA molecules from a given set of exons by differential use of exons from the primary transcript(s) to form multiple mature mRNAs that vary in their exon composition." [GOC:krc, PMID:12110900] comment: Note that this process most commonly occurs in cis, selecting or skipping exons from the same primary transcript, but it has also been observed to occur in trans at low frequency, at least in some mammals. broad_synonym: "splice site selection" [] relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000381 name: regulation of alternative nuclear mRNA splicing, via spliceosome namespace: biological_process def: "Any process that modulates the frequency, rate or extent of alternative splicing of nuclear mRNAs." [GOC:krc] broad_synonym: "splice site selection" [] is_a: GO:0048024 ! regulation of nuclear mRNA splicing, via spliceosome relationship: part_of GO:0000380 ! alternative nuclear mRNA splicing, via spliceosome [Term] id: GO:0000382 name: U12-type nuclear mRNA 3'-splice site recognition namespace: biological_process def: "Recognition of the intron 3'-splice site by components of the assembling U12-type spliceosome." [GOC:krc, ISBN:0879695897] is_a: GO:0000389 ! nuclear mRNA 3'-splice site recognition relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000383 name: U2-type nuclear mRNA 3'-splice site recognition namespace: biological_process def: "Recognition of the intron 3'-splice site by components of the assembling U2-type spliceosome." [GOC:krc, ISBN:0879695897] is_a: GO:0000389 ! nuclear mRNA 3'-splice site recognition relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000384 name: first spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the first transesterification reaction of spliceosomal mRNA splicing. The intron branch site adenosine is the nucleophile attacking the 5' splice site, resulting in cleavage at this position. In cis splicing, this is the step that forms a lariat structure of the intron RNA, while it is still joined to the 3' exon." [GOC:krc, ISBN:0879695897] narrow_synonym: "lariat formation, 5'-splice site cleavage" [] is_a: GO:0000385 ! spliceosomal catalysis [Term] id: GO:0000385 name: spliceosomal catalysis namespace: molecular_function def: "Catalysis of a transesterification reaction that is part of spliceosomal mRNA splicing." [GOC:krc, ISBN:0879695897] is_a: GO:0003824 ! catalytic activity [Term] id: GO:0000386 name: second spliceosomal transesterification activity namespace: molecular_function def: "Catalysis of the second transesterification reaction of spliceosomal mRNA splicing. Ligation of the two exons occurs via a transesterification reaction where the free 3'-hydroxyl group of the 5' exon is the nucleophile attacking the 3' splice site. Non-expressed sequences are now detached from the exons. In cis splicing, the intron is in a lariat structure." [GOC:krc, ISBN:0879695897] narrow_synonym: "lariat formation, 5'-splice site cleavage" [] broad_synonym: "3'-splice site cleavage, exon ligation" [] is_a: GO:0000385 ! spliceosomal catalysis [Term] id: GO:0000387 name: spliceosomal snRNP biogenesis namespace: biological_process def: "The formation and assembly from one or more snRNA and multiple protein components of a ribonucleoprotein complex that in involved in formation of the spliceosome." [GOC:krc, ISBN:0879695897] relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000388 name: spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) namespace: biological_process def: "Rearrangement of the pre-catalytic spliceosome containing U4 (or U4atac) and U1 (or U11) snRNPs to unpair U4 (or U4atac) from U6 (or U6atac) and release it from the spliceosomal complex along with U1 (or U11)." [GOC:krc, ISBN:0879695897] broad_synonym: "3'-splice site cleavage, exon ligation" [] relationship: part_of GO:0000393 ! spliceosomal conformational changes to generate catalytic conformation [Term] id: GO:0000389 name: nuclear mRNA 3'-splice site recognition namespace: biological_process def: "Recognition of the intron 3'-splice site by components of the assembling U12-type spliceosome." [GOC:krc, ISBN:0879695897] relationship: part_of GO:0006376 ! mRNA splice site selection [Term] id: GO:0000390 name: spliceosome disassembly namespace: biological_process def: "Disassembly of the spliceosome with the ATP-dependent release of the product RNAs, one of which is composed of the joined exons. In cis splicing, the other product is the excised sequence, often a single intron, in a lariat structure." [GOC:krc, ISBN:0879695897] is_a: GO:0043241 ! protein complex disassembly relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000391 name: U2-type spliceosome disassembly namespace: biological_process def: "Disassembly of the U2-type spliceosome with the ATP-dependent release of the product RNAs, one of which is composed of the joined exons. The other product is the excised sequence. In cis splicing, this forms a lariat structure." [GOC:krc, ISBN:0879695897] is_a: GO:0000390 ! spliceosome disassembly relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000392 name: U12-type spliceosome disassembly namespace: biological_process def: "Disassembly of the U12-type spliceosome with the ATP-dependent release of the RNA composed of the joined exons and the lariat intron RNA." [GOC:krc, ISBN:0879695897] is_a: GO:0000390 ! spliceosome disassembly relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000393 name: spliceosomal conformational changes to generate catalytic conformation namespace: biological_process def: "Structural rearrangements of the spliceosome complex, containing RNA to be spliced, to generate a catalytic conformation." [GOC:krc] broad_synonym: "3'-splice site cleavage, exon ligation" [] relationship: part_of GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0000394 name: RNA splicing, via endonucleolytic cleavage and ligation namespace: biological_process def: "Splicing of RNA via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons." [GOC:krc, ISBN:0879695897] comment: Note that while typically associated with tRNA splicing, this mechanism of splicing is known to be used for some non-tRNA substrates, e.g. HAC1 (YFL031W) in S. cerevisiae and an intron in the 23S rRNA of the Archaeal species Desulfurococcus mobilis. subset: gosubset_prok broad_synonym: "mRNA splicing" [] is_a: GO:0008380 ! RNA splicing [Term] id: GO:0000395 name: nuclear mRNA 5'-splice site recognition namespace: biological_process def: "Recognition of the intron 5'-splice site by components of the assembling spliceosome." [GOC:krc, ISBN:0879695897] exact_synonym: "nuclear mRNA 5' splice site recognition" [] relationship: part_of GO:0006376 ! mRNA splice site selection [Term] id: GO:0000396 name: U2-type spliceosome conformational change to release U4 and U1 namespace: biological_process def: "Rearrangement of the pre-catalytic spliceosome containing U4 and U1 snRNPs to unpair U4 from U6 and release it from the spliceosomal complex along with U1." [GOC:krc, ISBN:0879695897] comment: Note that this step represents formation of the A1 complex (yeast) or the B2 complex (mammalian). narrow_synonym: "spliceosomal A1 complex formation" [] narrow_synonym: "spliceosomal B2 complex formation" [] is_a: GO:0000388 ! spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) relationship: part_of GO:0006374 ! nuclear mRNA splicing via U2-type spliceosome [Term] id: GO:0000397 name: U12-type spliceosome conformational change to release U4atac and U11 namespace: biological_process def: "Rearrangement of the pre-catalytic spliceosome containing U4atac and U11 snRNPs to unpair U4atac from U6atac and release it from the spliceosomal complex along with U11." [GOC:krc, ISBN:0879695897] is_a: GO:0000388 ! spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) relationship: part_of GO:0006375 ! nuclear mRNA splicing via U12-type spliceosome [Term] id: GO:0000398 name: nuclear mRNA splicing, via spliceosome namespace: biological_process def: "The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0198506732, ISBN:0879695897] broad_synonym: "mRNA splicing" [] broad_synonym: "pre-mRNA splicing" [] xref_analog: Reactome:72172 is_a: GO:0000377 ! RNA splicing, via transesterification reactions with bulged adenosine as nucleophile is_a: GO:0006397 ! mRNA processing [Term] id: GO:0000399 name: bud neck septin structure namespace: cellular_component def: "Any of a series of septin structures that are localized in the bud neck of a budding fungal cell during the cell cycle." [GOC:krc] is_a: GO:0032155 ! cell division site part relationship: part_of GO:0005935 ! bud neck [Term] id: GO:0000400 name: four-way junction DNA binding namespace: molecular_function def: "Interacting selectively with DNA containing four-way junctions, also known as Holliday junctions, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices." [GOC:krc, ISBN:0815332181, PMID:15563464] exact_synonym: "Holliday junction binding" [] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000401 name: open form four-way junction DNA binding namespace: molecular_function def: "Interacting selectively with DNA containing the open form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The open form of a four-way junction can be diagrammed without any of the strands crossing over." [GOC:krc, ISBN:0815332181, PMID:15563464] exact_synonym: "open form Holliday junction binding" [] is_a: GO:0000400 ! four-way junction DNA binding [Term] id: GO:0000402 name: crossed form four-way junction DNA binding namespace: molecular_function def: "Interacting selectively with DNA containing the crossed form of a four-way junction, also known as a Holliday junction, a structure where two DNA double strands are held together by reciprocal exchange of two of the four strands, one strand each from the two original helices. The crossed form of a four-way junction cannot be diagrammed without any of the strands crossing over, and instead contains a single crossover between two of the strands." [GOC:krc, ISBN:0815332181, PMID:15563464] exact_synonym: "crossed form Holliday junction binding" [] is_a: GO:0000400 ! four-way junction DNA binding [Term] id: GO:0000403 name: Y-form DNA binding namespace: molecular_function def: "Interacting selectively with segment of DNA shaped like a Y. This shape occurs when DNA contains a region of paired double-stranded DNA on one end and a region of unpaired DNA strands on the opposite end." [GOC:elh, PMID:16781730] exact_synonym: "slayed Y-form DNA binding" [] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000404 name: loop DNA binding namespace: molecular_function def: "Interacting selectively with DNA containing a loop. A loop occurs when DNA contains a large insertion or deletion that causes a region of unpaired single-stranded DNA to loop out, while the rest of the DNA is in a paired double-stranded configuration." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding is_a: GO:0032135 ! DNA insertion or deletion binding [Term] id: GO:0000405 name: bubble DNA binding namespace: molecular_function def: "Interacting selective with DNA that contains a bubble. A bubble occurs when DNA contains an region of unpaired, single-stranded DNA flanked on both sides by regions of paired, double-stranded DNA." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000406 name: double-strand/single-strand DNA junction binding namespace: molecular_function def: "Interacting selectively with a region of DNA that contains double-stranded DNA flanked by a region of single-stranded DNA." [GOC:elh, PMID:16781730] is_a: GO:0000217 ! DNA secondary structure binding [Term] id: GO:0000407 name: pre-autophagosomal structure namespace: cellular_component def: "A punctate structure localized in the vicinity of the vacuole that is required for the formation of autophagosomes." [GOC:elh, PMID:11689437, PMID:12048214, PMID:12554655] exact_synonym: "PAS" [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000408 name: EKC/KEOPS protein complex namespace: cellular_component def: "A protein complex proposed to be involved in transcription as well as promoting telomere uncapping and telomere elongation. For example, in Saccharomyces cerevisiae the complex contains Bud32p, Kae1p, Gon7p, Cgi121p, and Pcc1p." [GOC:elh, PMID:16564010, PMID:16874308] exact_synonym: "Endopeptidase-like Kinase Chromatin-associated protein complex" [] exact_synonym: "Kinase, putative Endopeptidase and Other Proteins of Small size protein complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000409 name: regulation of transcription by galactose namespace: biological_process def: "Any process involving galactose that modulates the frequency, rate or extent or transcription." [GOC:go_curators] subset: gosubset_prok is_a: GO:0045990 ! regulation of transcription by carbon catabolites [Term] id: GO:0000410 name: negative regulation of transcription by galactose namespace: biological_process is_a: GO:0000409 ! regulation of transcription by galactose is_a: GO:0045013 ! negative regulation of transcription by carbon catabolites [Term] id: GO:0000411 name: positive regulation of transcription by galactose namespace: biological_process def: "Any process involving galactose that activates or increases the rate of transcription." [GOC:go_curators] is_a: GO:0000409 ! regulation of transcription by galactose is_a: GO:0045991 ! positive regulation of transcription by carbon catabolites [Term] id: GO:0000500 name: RNA polymerase I upstream activating factor complex namespace: cellular_component def: "A complex required for the transcription of rDNA by RNA polymerase I. In yeast the complex consists of Rrrn5p, Rrn9p, Rrn10p, histones H3 and H4, and Uaf30p." [PMID:11500378] broad_synonym: "UAF" [] is_a: GO:0000120 ! RNA polymerase I transcription factor complex [Term] id: GO:0000501 name: flocculation via cell wall protein-carbohydrate interaction namespace: biological_process def: "Mannose-sensitive, nonsexual aggregation of cells mediated by protein-carbohydrate (flocculin-mannan) interaction present in the cell wall. This process is pH- and calcium-dependent and reversible." [DOI:10.1016/S0963-9969(99)00021-6, GOC:sgd_curators] narrow_synonym: "flocculation (sensu Saccharomyces)" [] is_a: GO:0000128 ! flocculation is_a: GO:0007157 ! heterophilic cell adhesion is_a: GO:0016339 ! calcium-dependent cell-cell adhesion [Term] id: GO:0000502 name: proteasome complex (sensu Eukaryota) namespace: cellular_component def: "A large multisubunit complex which catalyzes protein degradation. This complex consists of the barrel shaped proteasome core complex and the regulatory particle that caps the proteasome core complex. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:rb] narrow_synonym: "26S proteasome" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0000503 name: proteasome core complex (sensu Bacteria) namespace: cellular_component def: "A multisubunit, barrel shaped protease complex. This complex consists of fourteen subunits of two distinct but related polypeptides. As in, but not restricted to, the taxon Bacteria (Bacteria, ncbi_taxonomy_id:2)." [GOC:rb] subset: gosubset_prok narrow_synonym: "26S proteasome" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000504 name: proteasome regulatory particle (sensu Bacteria) namespace: cellular_component def: "A multisubunit complex that recognizes and unfolds ubiquitinated proteins, and translocates them to the core complex in an ATP dependent manner. As in, but not restricted to, the taxon Bacteria (Bacteria, ncbi_taxonomy_id:2)." [GOC:rb] subset: gosubset_prok narrow_synonym: "26S proteasome" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0000506 name: glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex namespace: cellular_component def: "An enzyme complex that catalyzes the transfer of GlcNAc from UDP-GlcNAc to an acceptor phosphatidylinositol, the first step in the production of GPI anchors for cell surface proteins. The complex contains PIG-A, PIG-C, PIG-H, PIG-Q, PIG-P, and DPM2 in human, and Eri1p, Gpi1p, Gpi2p, Gpi15p, Gpi19p, and Spt14p in budding yeast." [GOC:kp, GOC:rb, PMID:10944123, PMID:15163411] comment: Note that this term should not be confused with 'GPI-anchor transamidase complex ; GO:0042765', which represents a distinct complex with a different catalytic activity. exact_synonym: "GPI-GlcNAc transferase complex" [] exact_synonym: "GPI-GnT complex" [] exact_synonym: "GPI-N-acetylglucosaminyltransferase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044432 ! endoplasmic reticulum part [Term] id: GO:0000578 name: embryonic axis specification namespace: biological_process def: "Axis specification in the embryo." [GOC:go_curators] exact_synonym: "embryonic axis determination" [] is_a: GO:0009798 ! axis specification is_a: GO:0009880 ! embryonic pattern specification [Term] id: GO:0000700 name: mismatch base pair DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of single bases present in mismatches by the cleavage the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site." [GOC:elh, PMID:9224623] is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000701 name: purine-specific mismatch base pair DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of purines present in mismatches, especially opposite oxidized purines, by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic (AP) site." [GOC:elh, PMID:9224623] narrow_synonym: "A/G-specific adenine DNA glycosylase activity" [] is_a: GO:0000700 ! mismatch base pair DNA N-glycosylase activity [Term] id: GO:0000702 name: oxidized base lesion DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of oxidized bases by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic/apyrimidinic (AP) site." [GOC:elh, PMID:11554296] subset: gosubset_prok is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000703 name: pyrimidine-specific oxidized base lesion DNA N-glycosylase activity namespace: molecular_function alt_id: GO:0019004 def: "Catalysis of the formation of a covalent enzyme-pyrimidine base intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site. Enzymes with this activity recognize and remove oxidized pyrimidine bases by cleaving the N-C1' glycosidic bond between the oxidized pyrimidine and the deoxyribose sugar." [GOC:elh, PMID:11554296] subset: gosubset_prok related_synonym: "endodeoxyribonuclease III" [] related_synonym: "endonuclease III" [] related_synonym: "endonuclease VIII activity" [] broad_synonym: "bifunctional DNA glycosylase" [] broad_synonym: "DNA glycosylase/AP-lyase" [] broad_synonym: "DNA glycosylase/beta-lyase" [] xref_analog: Reactome:110222 xref_analog: Reactome:115170 xref_analog: Reactome:117673 xref_analog: Reactome:120320 xref_analog: Reactome:122679 xref_analog: Reactome:124731 xref_analog: Reactome:25087 is_a: GO:0000702 ! oxidized base lesion DNA N-glycosylase activity is_a: GO:0003906 ! DNA-(apurinic or apyrimidinic site) lyase activity is_a: GO:0004520 ! endodeoxyribonuclease activity [Term] id: GO:0000704 name: pyrimidine dimer DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the removal of pyrimidine dimers by removing the 5' pyrimidine of the dimer by cleaving the N-C1' glycosidic bond between the 5' pyrimidine of the dimer and the deoxyribose sugar. The reaction releases the 5' pyrimidine of the dimer and leaves an apurinic (AP) site. The reaction involves the formation of a covalent enzyme substrate intermediate. Release of the enzyme and free base by a beta-elimination or a beta, gamma-elimination mechanism results in the cleavage of the DNA backbone 3' of the apyrimidinic (AP) site." [GOC:elh, PMID:9224623] is_a: GO:0003906 ! DNA-(apurinic or apyrimidinic site) lyase activity is_a: GO:0004520 ! endodeoxyribonuclease activity is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0000705 name: achiasmate meiosis I namespace: biological_process def: "The first division of meiosis in which homologous chromosomes that do not undergo meiotic recombination or form chiasmata are paired and segregated from each other, producing two daughter cells." [GOC:elh, PMID:10690419] is_a: GO:0007127 ! meiosis I [Term] id: GO:0000706 name: meiotic DNA double-strand break processing namespace: biological_process def: "During meiosis, the 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang." [GOC:elh, PMID:9334324] is_a: GO:0000729 ! DNA double-strand break processing relationship: part_of GO:0006311 ! meiotic gene conversion relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000707 name: meiotic DNA recombinase assembly namespace: biological_process def: "During meiosis, the assembly of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA." [GOC:elh, PMID:11459983] is_a: GO:0000730 ! DNA recombinase assembly relationship: part_of GO:0006311 ! meiotic gene conversion relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000708 name: meiotic strand invasion namespace: biological_process def: "During meiosis, the process in which the nucleoprotein complex (composed of the broken single-strand DNA and the recombinase) searches and identifies a region of homology in intact duplex DNA. The broken single-strand DNA displaces the like strand and forms Watson-Crick base pairs with its complement, forming a duplex in which each strand is from one of the two recombining DNA molecules." [GOC:elh, PMID:10915877] related_synonym: "meiotic D-loop formation" [] is_a: GO:0042148 ! strand invasion relationship: part_of GO:0006311 ! meiotic gene conversion relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000709 name: meiotic joint molecule formation namespace: biological_process def: "The conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule. These joint molecules contain Holliday junctions on either side of heteroduplex DNA." [GOC:elh, PMID:8521495] relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000710 name: meiotic mismatch repair namespace: biological_process def: "A system for the identification and correction of base-base mismatches, small insertion-deletion loops, and regions of heterology that are present in duplex DNA formed with strands from two recombining molecules. Correction of the mismatch can result in non-Mendelian segregation of alleles following meiosis." [GOC:elh, PMID:10357855] is_a: GO:0006298 ! mismatch repair relationship: part_of GO:0006311 ! meiotic gene conversion relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000711 name: meiotic DNA repair synthesis namespace: biological_process def: "During meiosis, the synthesis of DNA proceeding from the broken 3' single-strand DNA end that uses the homologous intact duplex as the template." [GOC:elh, PMID:9334324] is_a: GO:0000731 ! DNA synthesis during DNA repair relationship: part_of GO:0006311 ! meiotic gene conversion relationship: part_of GO:0007131 ! meiotic recombination [Term] id: GO:0000712 name: resolution of meiotic joint molecules as recombinants namespace: biological_process def: "The cleavage and rejoining of Holliday junctions to produce two intact molecules in which genetic material has been exchanged." [GOC:elh, PMID:11733053] related_synonym: "meiotic homologous chromosome separation" [] exact_synonym: "homologous chromosome separation at meiosis I" [] narrow_synonym: "crossover formation" [] narrow_synonym: "formation of chiasmata" [] is_a: GO:0051307 ! meiotic chromosome separation relationship: part_of GO:0007131 ! meiotic recombination relationship: part_of GO:0045143 ! homologous chromosome segregation [Term] id: GO:0000713 name: meiotic heteroduplex formation namespace: biological_process def: "During meiosis, the formation of a stable duplex DNA that contains one strand from each of the two recombining DNA molecules." [GOC:elh, PMID:9334324] is_a: GO:0030491 ! heteroduplex formation relationship: part_of GO:0006311 ! meiotic gene conversion [Term] id: GO:0000714 name: meiotic strand displacement namespace: biological_process def: "During meiosis, the rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules." [GOC:elh, PMID:10357855] is_a: GO:0000732 ! strand displacement relationship: part_of GO:0006311 ! meiotic gene conversion [Term] id: GO:0000715 name: nucleotide-excision repair, DNA damage recognition namespace: biological_process def: "The identification of lesions in DNA, such as pyrimidine-dimers, intrastrand cross-links, and bulky adducts. The wide range of substrate specificity suggests the repair complex recognizes distortions in the DNA helix." [GOC:elh, PMID:10197977] subset: gosubset_prok narrow_synonym: "pyrimidine-dimer repair, DNA damage recognition" [] xref_analog: Reactome:73940 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000716 name: transcription-coupled nucleotide-excision repair, DNA damage recognition namespace: biological_process def: "The identification of lesions on the actively transcribed strand of the DNA duplex as well as a small subset of lesions not recognized by the general nucleotide-excision repair pathway." [GOC:elh, PMID:10197977] subset: gosubset_prok narrow_synonym: "pyrimidine-dimer repair, DNA damage recognition" [] xref_analog: Reactome:109972 xref_analog: Reactome:118771 is_a: GO:0000715 ! nucleotide-excision repair, DNA damage recognition relationship: part_of GO:0006283 ! transcription-coupled nucleotide-excision repair [Term] id: GO:0000717 name: nucleotide-excision repair, DNA duplex unwinding namespace: biological_process def: "The unwinding, or local denaturation, of the DNA duplex to create a bubble around the site of the DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref_analog: Reactome:120689 xref_analog: Reactome:170882 xref_analog: Reactome:177526 xref_analog: Reactome:73934 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000718 name: nucleotide-excision repair, DNA damage removal namespace: biological_process def: "The removal of the oligonucleotide that contains the DNA damage. The oligonucleotide is formed by dual incisions that flank the site of DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref_analog: Reactome:73941 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0000719 name: photoreactive repair namespace: biological_process def: "The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines." [GOC:elh, PMID:10915863] subset: gosubset_prok narrow_synonym: "pyrimidine-dimer repair by photolyase" [] is_a: GO:0006290 ! pyrimidine dimer repair [Term] id: GO:0000720 name: pyrimidine dimer repair via nucleotide-excision repair namespace: biological_process def: "The repair of UV-induced T-T, C-T, and C-C dimers by the recognition and removal of the damaged DNA strand from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase." [GOC:elh] comment: Note that the repair of pyrimidine dimers by nucleotide excision repair involves the same gene products that are involved in general nucleotide excision repair. Consider also annotating to the biological process term 'nucleotide-excision repair ; GO:0006289' and its children. subset: gosubset_prok is_a: GO:0006289 ! nucleotide-excision repair is_a: GO:0006290 ! pyrimidine dimer repair [Term] id: GO:0000721 name: (R,R)-butanediol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reversible reaction: (R,R)-butane-2,3-diol + NAD+ = (R)-acetoin + NADH + H+." [EC:1.1.1.4] subset: gosubset_prok exact_synonym: "D-aminopropanol dehydrogenase" [] xref_analog: EC:1.1.1.4 xref_analog: MetaCyc:(R,R)-BUTANEDIOL-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0000722 name: telomere maintenance via recombination namespace: biological_process def: "The maintenance of proper telomeric length by recombinational processes." [GOC:elh, PMID:11850777] related_synonym: "telomerase-independent telomere maintenance" [] is_a: GO:0000723 ! telomere maintenance is_a: GO:0006312 ! mitotic recombination [Term] id: GO:0000723 name: telomere maintenance namespace: biological_process def: "The maintenance of proper telomeric length and structure by processes that affect and monitor the activity of telomeric proteins and the length of telomeric DNA. These processes includes those that shorten and lengthen the telomeric DNA sequences." [GOC:elh, PMID:11092831] is_a: GO:0032200 ! telomere organization and biogenesis [Term] id: GO:0000724 name: double-strand break repair via homologous recombination namespace: biological_process def: "The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule." [GOC:elh, PMID:10357855] subset: gosubset_prok exact_synonym: "homologous recombinational repair" [] exact_synonym: "HRR" [] xref_analog: Reactome:73888 is_a: GO:0000725 ! recombinational repair is_a: GO:0006302 ! double-strand break repair [Term] id: GO:0000725 name: recombinational repair namespace: biological_process def: "The repair of damaged DNA that involves the exchange, reciprocal or nonreciprocal, of genetic material between the broken DNA molecule and a homologous region of DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0006281 ! DNA repair is_a: GO:0006310 ! DNA recombination [Term] id: GO:0000726 name: non-recombinational repair namespace: biological_process def: "The repair of damaged DNA that does not require the exchange of genetic material between the broken DNA molecule and a homologous region of DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0000727 name: double-strand break repair via break-induced replication namespace: biological_process def: "The error-free repair of a double-strand break in DNA in which the centromere-proximal end of a broken chromosome searches for a homologous region in an intact chromosome. DNA synthesis initiates from the 3' end of the invading DNA strand, using the intact chromosome as the template, and progresses to the end of the chromosome." [GOC:elh, PMID:10357855] subset: gosubset_prok is_a: GO:0000724 ! double-strand break repair via homologous recombination [Term] id: GO:0000728 name: gene conversion at mating-type locus, DNA double-strand break formation namespace: biological_process def: "The site-specific endonucleolytic cleavage of DNA at the mating-type locus which initiates the conversion of one mating-type allele to another." [GOC:elh, PMID:7646483] is_a: GO:0000737 ! DNA catabolism, endonucleolytic relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000729 name: DNA double-strand break processing namespace: biological_process def: "The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang." [PMID:10357855] xref_analog: Reactome:83897 is_a: GO:0000738 ! DNA catabolism, exonucleolytic relationship: part_of GO:0045002 ! double-strand break repair via single-strand annealing relationship: part_of GO:0045003 ! double-strand break repair via synthesis-dependent strand annealing [Term] id: GO:0000730 name: DNA recombinase assembly namespace: biological_process def: "The aggregation and bonding together of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA." [PMID:10357855] xref_analog: Reactome:76000 is_a: GO:0006461 ! protein complex assembly relationship: part_of GO:0007534 ! gene conversion at mating-type locus relationship: part_of GO:0045003 ! double-strand break repair via synthesis-dependent strand annealing [Term] id: GO:0000731 name: DNA synthesis during DNA repair namespace: biological_process def: "Synthesis of DNA that proceeds from the broken 3' single-strand DNA end uses the homologous intact duplex as the template." [PMID:10357855] subset: gosubset_prok broad_synonym: "DNA repair synthesis" [] xref_analog: Reactome:76011 is_a: GO:0006260 ! DNA replication relationship: part_of GO:0006281 ! DNA repair [Term] id: GO:0000732 name: strand displacement namespace: biological_process def: "The rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules." [PMID:10357855] subset: gosubset_prok xref_analog: Reactome:83663 relationship: part_of GO:0045003 ! double-strand break repair via synthesis-dependent strand annealing [Term] id: GO:0000733 name: DNA strand renaturation namespace: biological_process def: "The identification and annealing of complementary base pairs in single-strand DNA." [GOC:elh] subset: gosubset_prok relationship: part_of GO:0045002 ! double-strand break repair via single-strand annealing [Term] id: GO:0000734 name: gene conversion at mating-type locus, DNA repair synthesis namespace: biological_process def: "Synthesis of DNA that proceeds from the broken 3' single-strand DNA end uses the homologous intact duplex as the template during gene conversion at the mating-type locus." [GOC:elh] is_a: GO:0000731 ! DNA synthesis during DNA repair relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000735 name: removal of nonhomologous ends namespace: biological_process def: "The removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur." [PMID:10357855] relationship: part_of GO:0007534 ! gene conversion at mating-type locus [Term] id: GO:0000736 name: double-strand break repair via single-strand annealing, removal of nonhomologous ends namespace: biological_process def: "During DSBR via single-strand annealing, the removal of nonhomologous sequences at the broken 3' single-strand DNA end before DNA repair synthesis can occur." [PMID:10357855] subset: gosubset_prok relationship: part_of GO:0045002 ! double-strand break repair via single-strand annealing [Term] id: GO:0000737 name: DNA catabolism, endonucleolytic namespace: biological_process def: "The hydrolysis of internal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides." [GOC:elh] subset: gosubset_prok exact_synonym: "DNA breakdown, endonucleolytic" [] exact_synonym: "DNA degradation, endonucleolytic" [] exact_synonym: "endonucleolytic degradation of DNA" [] is_a: GO:0006308 ! DNA catabolism [Term] id: GO:0000738 name: DNA catabolism, exonucleolytic namespace: biological_process def: "The hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides." [GOC:elh] subset: gosubset_prok exact_synonym: "DNA breakdown, exonucleolytic" [] exact_synonym: "DNA degradation, exonucleolytic" [] exact_synonym: "exonucleolytic degradation of DNA" [] is_a: GO:0006308 ! DNA catabolism [Term] id: GO:0000739 name: DNA strand annealing activity namespace: molecular_function def: "Facilitates the base-pairing of complementary single-stranded DNA." [GOC:elh] is_a: GO:0003690 ! double-stranded DNA binding is_a: GO:0003697 ! single-stranded DNA binding [Term] id: GO:0000740 name: nuclear membrane fusion namespace: biological_process def: "The joining of 2 or more lipid bilayer membranes that surround the nucleus." [GOC:elh] is_a: GO:0006944 ! membrane fusion [Term] id: GO:0000741 name: karyogamy namespace: biological_process def: "The creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei." [GOC:elh] exact_synonym: "nuclear fusion during karyogamy" [] is_a: GO:0048284 ! organelle fusion relationship: part_of GO:0006997 ! nuclear organization and biogenesis [Term] id: GO:0000742 name: karyogamy during conjugation with cellular fusion namespace: biological_process def: "During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after cytogamy." [GOC:elh] is_a: GO:0000741 ! karyogamy relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000743 name: nuclear migration during conjugation with cellular fusion namespace: biological_process alt_id: GO:0006946 def: "The net movement of nuclei towards one another as a prelude to karyogamy in organisms undergoing conjugation with cellular fusion." [GOC:clt] broad_synonym: "nuclear congression" [] is_a: GO:0030473 ! nuclear migration, microtubule-mediated relationship: part_of GO:0000742 ! karyogamy during conjugation with cellular fusion [Term] id: GO:0000744 name: karyogamy during conjugation without cellular fusion namespace: biological_process def: "During sexual reproduction, the creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei. This occurs after the mutual exchange of nuclei." [GOC:elh] is_a: GO:0000741 ! karyogamy relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000745 name: nuclear exchange during conjugation without cellular fusion namespace: biological_process def: "The processes involved in bilateral transfer of genetic material in organisms undergoing conjugation without cellular fusion. Nuclear migration is included." [GOC:clt] relationship: part_of GO:0000744 ! karyogamy during conjugation without cellular fusion [Term] id: GO:0000746 name: conjugation namespace: biological_process def: "The union or introduction of genetic information from compatible mating types that results in a genetically different individual. Conjugation requires direct cellular contact between the organisms." [GOC:elh] subset: goslim_yeast subset: gosubset_prok is_a: GO:0007582 ! physiological process is_a: GO:0051704 ! interaction between organisms [Term] id: GO:0000747 name: conjugation with cellular fusion namespace: biological_process alt_id: GO:0007322 alt_id: GO:0007333 alt_id: GO:0030461 alt_id: GO:0030477 def: "The processes that result in the union of cellular and genetic information from compatible mating types." [GOC:elh] narrow_synonym: "cell fusion (mating sensu Saccharomyces)" [] narrow_synonym: "conjugation (sensu Fungi)" [] narrow_synonym: "conjugation (sensu Saccharomyces)" [] narrow_synonym: "mating (sensu Fungi)" [] narrow_synonym: "mating (sensu Saccharomyces)" [] is_a: GO:0000746 ! conjugation is_a: GO:0019953 ! sexual reproduction is_a: GO:0048610 ! reproductive cellular physiological process [Term] id: GO:0000748 name: conjugation with mutual genetic exchange namespace: biological_process def: "The processes that result in the mutual exchange and union of only genetic information between compatible mating types. Conjugation without cellular fusion requires direct cellular contact between the organisms without plasma membrane fusion. The organisms involved in conjugation without cellular fusion separate after nuclear exchange." [GOC:elh] exact_synonym: "conjugation without cellular fusion" [] is_a: GO:0000746 ! conjugation is_a: GO:0048610 ! reproductive cellular physiological process [Term] id: GO:0000749 name: response to pheromone during conjugation with cellular fusion namespace: biological_process alt_id: GO:0007328 alt_id: GO:0030434 def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pheromone stimulus during the process of conjugation with cellular fusion." [GOC:clt] narrow_synonym: "pheromone response (sensu Fungi)" [] narrow_synonym: "pheromone response (sensu Saccharomyces)" [] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000750 name: pheromone-dependent signal transduction during conjugation with cellular fusion namespace: biological_process alt_id: GO:0007330 alt_id: GO:0030454 def: "The processes involving the relay, amplification or dampening of a signal generated in response to pheromone exposure in organisms that undergo conjugation with cellular fusion." [GOC:clt] related_synonym: "activation of MAPK (mating sensu Fungi)" [] related_synonym: "activation of MAPK (mating sensu Saccharomyces)" [] related_synonym: "activation of MAPKK (mating sensu Fungi)" [] related_synonym: "activation of MAPKK (mating sensu Saccharomyces)" [] related_synonym: "activation of MAPKKK (mating sensu Fungi)" [] related_synonym: "activation of MAPKKK (mating sensu Saccharomyces)" [] related_synonym: "inactivation of MAPK (mating sensu Fungi)" [] related_synonym: "inactivation of MAPK (mating sensu Saccharomyces)" [] related_synonym: "MAPKKK cascade (mating sensu Fungi)" [] related_synonym: "MAPKKK cascade (mating sensu Saccharomyces)" [] related_synonym: "nuclear translocation of MAPK (mating sensu Fungi)" [] related_synonym: "nuclear translocation of MAPK (mating sensu Saccharomyces)" [] narrow_synonym: "signal transduction of mating signal (sensu Saccharomyces)" [] narrow_synonym: "transduction of mating signal (sensu Fungi)" [] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway is_a: GO:0032005 ! signal transduction during conjugation with cellular fusion relationship: part_of GO:0000749 ! response to pheromone during conjugation with cellular fusion [Term] id: GO:0000751 name: cell cycle arrest in response to pheromone namespace: biological_process alt_id: GO:0030571 def: "The processes that lead to a halt in cell cycle progression (cessation of cell cycle transitions) as a result of a pheromone stimulus." [GOC:clt] related_synonym: "cell cycle arrest (sensu Saccharomyces)" [] is_a: GO:0007050 ! cell cycle arrest relationship: part_of GO:0000749 ! response to pheromone during conjugation with cellular fusion [Term] id: GO:0000752 name: agglutination during conjugation with cellular fusion namespace: biological_process alt_id: GO:0007334 def: "During conjugation with cellular fusion, the aggregation or adhesion of compatible mating types via complementary cell-cell interactions." [GOC:elh] exact_synonym: "cell-cell adhesion during conjugation with cellular fusion" [] exact_synonym: "cell-cell adhesion during mating" [] narrow_synonym: "agglutination (sensu Saccharomyces)" [] is_a: GO:0000771 ! agglutination relationship: part_of GO:0000749 ! response to pheromone during conjugation with cellular fusion [Term] id: GO:0000753 name: cellular morphogenesis during conjugation with cellular fusion namespace: biological_process alt_id: GO:0007332 def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo conjugation cellular fusion." [GOC:clt] narrow_synonym: "shmoo orientation" [] narrow_synonym: "shmooing" [] is_a: GO:0000767 ! cellular morphogenesis during conjugation relationship: part_of GO:0000749 ! response to pheromone during conjugation with cellular fusion [Term] id: GO:0000754 name: adaptation to pheromone during conjugation with cellular fusion namespace: biological_process alt_id: GO:0007331 alt_id: GO:0030453 def: "In organisms that undergo conjugation with cellular fusion, the processes involved in desensitization following exposure to pheromone stimulus that act to down-regulate further stimulation or block initial conjugation responses." [GOC:clt] narrow_synonym: "adaptation to mating signal (sensu Fungi)" [] narrow_synonym: "adaptation to mating signal (sensu Saccharomyces)" [] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000755 name: cytogamy namespace: biological_process alt_id: GO:0000218 alt_id: GO:0030462 def: "During conjugation with cellular fusion, the processes involved in creating a single cell from complementary mating types. The localized remodeling and dissolution of external protective structures allow the fusion of the plasma membranes and cytoplasmic mixing." [GOC:elh] narrow_synonym: "zygote formation (sensu Fungi)" [] relationship: part_of GO:0000747 ! conjugation with cellular fusion [Term] id: GO:0000756 name: response to pheromone during conjugation without cellular fusion namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pheromone stimulus during the process of conjugation without cellular fusion." [GOC:clt] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000757 name: signal transduction during conjugation without cellular fusion namespace: biological_process def: "The processes involving the relay, amplification or dampening of a signal generated in response to pheromone exposure in organisms that undergo conjugation without cellular fusion." [GOC:clt] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway relationship: part_of GO:0000756 ! response to pheromone during conjugation without cellular fusion [Term] id: GO:0000758 name: agglutination during conjugation without cellular fusion namespace: biological_process def: "During conjugation without cellular fusion, the aggregation or adhesion of compatible mating types via complementary cell-cell interactions." [GOC:elh] is_a: GO:0000771 ! agglutination relationship: part_of GO:0000756 ! response to pheromone during conjugation without cellular fusion [Term] id: GO:0000759 name: cellular morphogenesis during conjugation without cellular fusion namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo conjugation without cellular fusion." [GOC:clt] is_a: GO:0000767 ! cellular morphogenesis during conjugation relationship: part_of GO:0000756 ! response to pheromone during conjugation without cellular fusion [Term] id: GO:0000760 name: adaptation to pheromone during conjugation without cellular fusion namespace: biological_process def: "In organisms that undergo conjugation without cellular fusion, the processes involved in desensitization following exposure to pheromone stimulus that act to down-regulate further stimulation or block initial conjugation responses." [GOC:clt] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000761 name: conjugant formation namespace: biological_process def: "During conjugation without cellular fusion, the processes involved in pairing complementary mating types. Localized morphological, cytological, and cytoskeletal changes connect the mating types without cytoplasmic mixing." [GOC:elh] relationship: part_of GO:0000748 ! conjugation with mutual genetic exchange [Term] id: GO:0000762 name: pheromone-induced unidirectional conjugation namespace: biological_process def: "The process of unidirectional (polarized) transfer of genetic information in response to a pheromone. It involves direct cellular contact between a donor and recipient cell; the contact is followed by the formation of a cellular bridge that physically connects the cells; some or all of the chromosome(s) of one cell ('male') is then transferred into the other cell ('female'); unidirectional conjugation occurs between cells of different mating types." [GOC:elh] is_a: GO:0009291 ! unidirectional conjugation [Term] id: GO:0000763 name: cellular morphogenesis during unidirectional conjugation namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo unidirectional conjugation." [GOC:clt] is_a: GO:0000767 ! cellular morphogenesis during conjugation relationship: part_of GO:0009291 ! unidirectional conjugation [Term] id: GO:0000764 name: cellular morphogenesis during pheromone-induced unidirectional conjugation namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types in organisms that undergo pheromone-induced unidirectional conjugation." [GOC:clt] is_a: GO:0000767 ! cellular morphogenesis during conjugation relationship: part_of GO:0000765 ! response to pheromone during pheromone-induced unidirectional conjugation [Term] id: GO:0000765 name: response to pheromone during pheromone-induced unidirectional conjugation namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pheromone stimulus during the process of pheromone-induced unidirectional conjugation." [GOC:clt] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000762 ! pheromone-induced unidirectional conjugation [Term] id: GO:0000766 name: adaptation to pheromone during pheromone-induced unidirectional conjugation namespace: biological_process def: "In organisms that undergo pheromone-induced unidirectional conjugation, the process involved in desensitization following exposure to pheromone stimulus that acts to down-regulate further stimulation or block initial conjugation responses." [GOC:clt] is_a: GO:0019236 ! response to pheromone relationship: part_of GO:0000762 ! pheromone-induced unidirectional conjugation [Term] id: GO:0000767 name: cellular morphogenesis during conjugation namespace: biological_process def: "The change in form (cell shape and size) that occurs during sexual reproduction in order to facilitate direct contact between the compatible mating types." [GOC:elh] is_a: GO:0000902 ! cellular morphogenesis [Term] id: GO:0000768 name: syncytium formation by plasma membrane fusion namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:tb] is_a: GO:0006949 ! syncytium formation is_a: GO:0045026 ! plasma membrane fusion [Term] id: GO:0000769 name: syncytium formation by mitosis without cell division namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by one or more rounds of nuclear division without cell division." [GOC:tb] is_a: GO:0006949 ! syncytium formation [Term] id: GO:0000770 name: peptide pheromone export namespace: biological_process alt_id: GO:0007325 def: "The directed movement of a peptide pheromone out of a cell by a secretion or export pathway used solely for the export of peptide pheromones." [GOC:elh] narrow_synonym: "a-factor export" [] is_a: GO:0015833 ! peptide transport [Term] id: GO:0000771 name: agglutination namespace: biological_process def: "The aggregation or adhesion of compatible mating types via complementary cell-cell interactions prior to the formation of irreversible cellular contacts during conjugation." [GOC:elh] is_a: GO:0007157 ! heterophilic cell adhesion relationship: part_of GO:0000746 ! conjugation [Term] id: GO:0000772 name: mating pheromone activity namespace: molecular_function def: "The activity of binding to and activating specific cell surface receptors, thereby inducing a behavioral or physiological response(s) from a responding organism or cell that leads to the transfer or union of genetic material between organisms or cells. The mating pheromone can either be retained on the cell surface or secreted." [GOC:clt, GOC:elh] is_a: GO:0005186 ! pheromone activity [Term] id: GO:0000773 name: phosphatidyl-N-methylethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + phosphatidyl-N-methylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-dimethylethanolamine." [EC:2.1.1.71] subset: gosubset_prok exact_synonym: "PLMT" [] xref_analog: EC:2.1.1.71 xref_analog: MetaCyc:2.1.1.71-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0000774 name: adenyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins." [GOC:kd] subset: gosubset_prok is_a: GO:0030554 ! adenyl nucleotide binding [Term] id: GO:0000775 name: chromosome, pericentric region namespace: cellular_component def: "The central region of a chromosome that includes the centromere and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. related_synonym: "centromere" [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000776 name: kinetochore namespace: cellular_component def: "A multisubunit complex that is located at the pericentric region of DNA and provides an attachment point for the spindle microtubules." [GOC:elh] related_synonym: "kinetochore motor activity" [] is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000775 ! chromosome, pericentric region [Term] id: GO:0000777 name: condensed chromosome kinetochore namespace: cellular_component def: "A multisubunit complex that is located at the pericentric region of a condensed chromosome and provides an attachment point for the spindle microtubules." [GOC:elh] is_a: GO:0000776 ! kinetochore relationship: part_of GO:0000779 ! condensed chromosome, pericentric region [Term] id: GO:0000778 name: condensed nuclear chromosome kinetochore namespace: cellular_component def: "A multisubunit complex that is located at the pericentric region of a condensed chromosome in the nucleus and provides an attachment point for the spindle microtubules." [GOC:elh] is_a: GO:0000777 ! condensed chromosome kinetochore is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000780 ! condensed nuclear chromosome, pericentric region [Term] id: GO:0000779 name: condensed chromosome, pericentric region namespace: cellular_component def: "The central region of a condensed chromosome that includes the centromere and associated proteins, including the kinetochore." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. related_synonym: "condensed chromosome, centromere" [] is_a: GO:0000775 ! chromosome, pericentric region relationship: part_of GO:0000793 ! condensed chromosome [Term] id: GO:0000780 name: condensed nuclear chromosome, pericentric region namespace: cellular_component def: "The central region of a condensed chromosome in the nucleus that includes the centromere and associated proteins, including the kinetochore." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'centromere ; GO:0005698'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. related_synonym: "condensed nuclear chromosome, centromere" [] is_a: GO:0000779 ! condensed chromosome, pericentric region is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000781 name: chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear chromosome that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. related_synonym: "telomere" [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000782 name: telomere cap complex namespace: cellular_component def: "A complex of DNA and protein located at the end of a linear chromosome that protects and stabilizes a linear chromosome." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific protein complex and not a region of the chromosome. related_synonym: "telomere" [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000781 ! chromosome, telomeric region [Term] id: GO:0000783 name: nuclear telomere cap complex namespace: cellular_component def: "A complex of DNA and protein located at the end of a linear chromosome in the nucleus that protects and stabilizes a linear chromosome." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific protein complex and not a region of the chromosome. is_a: GO:0000782 ! telomere cap complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000784 ! nuclear chromosome, telomeric region [Term] id: GO:0000784 name: nuclear chromosome, telomeric region namespace: cellular_component def: "The terminal region of a linear chromosome in the nucleus that includes the telomeric DNA repeats and associated proteins." [GOC:elh] comment: Note that this term can be used in place of the obsoleted cellular component term 'telomere ; GO:0005696'. Use with caution because this term refers to a specific region of the chromosome and not a protein complex. exact_synonym: "nuclear chromosome, telomere" [] is_a: GO:0000781 ! chromosome, telomeric region is_a: GO:0044454 ! nuclear chromosome part [Term] id: GO:0000785 name: chromatin namespace: cellular_component def: "The ordered and organized complex of DNA and protein that forms the chromosome." [GOC:elh] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000786 name: nucleosome namespace: cellular_component def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures." [GOC:elh] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000785 ! chromatin [Term] id: GO:0000787 name: cytoplasmic nucleosome namespace: cellular_component def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the cytoplasm into higher order structures." [GOC:elh] is_a: GO:0000786 ! nucleosome is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0000789 ! cytoplasmic chromatin [Term] id: GO:0000788 name: nuclear nucleosome namespace: cellular_component def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the nucleus into higher order structures." [GOC:elh] is_a: GO:0000786 ! nucleosome is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000790 ! nuclear chromatin [Term] id: GO:0000789 name: cytoplasmic chromatin namespace: cellular_component def: "The ordered and organized complex of DNA and protein that forms the chromosome in the cytoplasm." [GOC:elh] is_a: GO:0000785 ! chromatin is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0000229 ! cytoplasmic chromosome [Term] id: GO:0000790 name: nuclear chromatin namespace: cellular_component def: "The ordered and organized complex of DNA and protein that forms the chromosome in the nucleus." [GOC:elh] is_a: GO:0000785 ! chromatin is_a: GO:0044454 ! nuclear chromosome part [Term] id: GO:0000791 name: euchromatin namespace: cellular_component def: "A dispersed and relatively uncompacted form of chromatin." [GOC:elh] is_a: GO:0000785 ! chromatin [Term] id: GO:0000792 name: heterochromatin namespace: cellular_component def: "A compact and highly condensed form of chromatin." [GOC:elh] is_a: GO:0000785 ! chromatin [Term] id: GO:0000793 name: condensed chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure." [GOC:elh] comment: Note that this term can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes an 'open mitosis' in which the nuclear envelope breaks down during mitosis. related_synonym: "chromatid" [] related_synonym: "cytoplasmic mitotic chromosome" [] related_synonym: "metaphase chromosome" [] related_synonym: "mitotic chromosome" [] is_a: GO:0005694 ! chromosome [Term] id: GO:0000794 name: condensed nuclear chromosome namespace: cellular_component def: "A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure that remains in the nucleus." [GOC:elh] comment: Note that this term and its children can be used to annotate gene products that localize to a mitotic chromosome in an organism that undergoes a 'closed mitosis' in which the nuclear envelope does not break down during mitosis and for gene products that localize to a meiotic chromosome. related_synonym: "chromatid" [] related_synonym: "meiotic chromosome" [] related_synonym: "metaphase chromosome" [] related_synonym: "mitotic chromosome" [] related_synonym: "nuclear mitotic chromosome" [] is_a: GO:0000228 ! nuclear chromosome is_a: GO:0000793 ! condensed chromosome [Term] id: GO:0000795 name: synaptonemal complex namespace: cellular_component def: "A proteinaceous scaffold found between homologous chromosomes during meiosis." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000796 name: condensin complex namespace: cellular_component def: "A multisubunit protein complex that plays a central role in chromosome condensation." [GOC:elh] related_synonym: "SMC complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000793 ! condensed chromosome [Term] id: GO:0000797 name: condensin core heterodimer namespace: cellular_component def: "The core heterodimer of a condensin complex, a multisubunit protein complex that plays a central role in chromosome condensation." [GOC:elh] narrow_synonym: "Smc2-Smc4 complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000796 ! condensin complex [Term] id: GO:0000798 name: nuclear cohesin complex namespace: cellular_component def: "A protein complex required for cohesion between sister chromatids that remain in the nucleus." [GOC:elh] is_a: GO:0008278 ! cohesin complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000799 name: nuclear condensin complex namespace: cellular_component def: "A multisubunit protein complex that plays a central role in the condensation of chromosomes that remain in the nucleus." [GOC:elh] is_a: GO:0000796 ! condensin complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0000800 name: lateral element namespace: cellular_component def: "A proteinaceous core found between sister chromatids during meiotic prophase." [GOC:elh] related_synonym: "axial element" [] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000801 name: central element namespace: cellular_component def: "A structural unit of the synaptonemal complex found between the lateral elements." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000802 name: transverse filament namespace: cellular_component def: "A structural unit of the synaptonemal complex that spans the regions between the lateral elements and connects them." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000795 ! synaptonemal complex [Term] id: GO:0000803 name: sex chromosome namespace: cellular_component def: "A chromosome involved in sex determination." [GOC:elh] is_a: GO:0005694 ! chromosome [Term] id: GO:0000804 name: W chromosome namespace: cellular_component def: "The sex chromosome present in females of species in which the female is the heterogametic sex; generally, the sex chromosome that pairs with the Z chromosome in the heterogametic sex. The W chromosome is absent from the cells of males and present in one copy in the somatic cells of females." [GOC:mah, ISBN:0321000382] is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000805 name: X chromosome namespace: cellular_component def: "The sex chromosome present in both sexes of species in which the male is the heterogametic sex. Two copies of the X chromosome are present in each somatic cell of females and one copy is present in males." [GOC:mah, ISBN:0582227089] is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000806 name: Y chromosome namespace: cellular_component def: "The sex chromosome present in males of species in which the male is the heterogametic sex; generally, the sex chromosome that pairs with the X chromosome in the heterogametic sex. The Y chromosome is absent from the cells of females and present in one copy in the somatic cells of males." [GOC:mah, ISBN:0582227089] is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000807 name: Z chromosome namespace: cellular_component def: "The sex chromosome present in both sexes of species in which the female is the heterogametic sex. Two copies of the Z chromosome are present in each somatic cell of males and one copy is present in females." [GOC:mah, ISBN:0321000382] is_a: GO:0000803 ! sex chromosome [Term] id: GO:0000808 name: origin recognition complex namespace: cellular_component def: "A multisubunit complex that is located at the replication origins of a chromosome." [GOC:elh] subset: gosubset_prok exact_synonym: "ORC" [] exact_synonym: "origin of replication recognition complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part [Term] id: GO:0000809 name: cytoplasmic origin of replication recognition complex namespace: cellular_component def: "A multisubunit complex that is located at the replication origins of a chromosome in the cytoplasm." [GOC:elh] subset: gosubset_prok related_synonym: "prokaryotic ORC" [] exact_synonym: "cytoplasmic ORC" [] is_a: GO:0000808 ! origin recognition complex is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0000229 ! cytoplasmic chromosome [Term] id: GO:0000810 name: diacylglycerol pyrophosphate phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: diacylglycerol pyrophosphate + H20 = 3-sn-phosphatidate + phosphate." [EC:3.6.1.-, PMID:8567632, PMID:9452443] exact_synonym: "DGPP phosphatase" [] exact_synonym: "DGPP phosphohydrolase" [] is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0000811 name: GINS complex namespace: cellular_component def: "A multisubunit complex that associates with replication origins and is required for the initiation of DNA replication." [GOC:rn, PMID:12730134] exact_synonym: "Go, Ichi, Ni and San complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044454 ! nuclear chromosome part [Term] id: GO:0000812 name: SWR1 complex namespace: cellular_component def: "A multisubunit protein complex that is involved in chromatin remodeling. It is required for the incorporation of the histone variant H2AZ into chromatin. In S. cerevisiae, the complex contains Swr1p, a Swi2/Snf2-related ATPase, and 12 additional subunits." [PMID:14645854, PMID:14690608] exact_synonym: "SWR-C" [] is_a: GO:0016585 ! chromatin remodeling complex [Term] id: GO:0000813 name: ESCRT I complex namespace: cellular_component def: "An endosomal sorting complex required for transport. It consists of the class E vacuolar protein sorting (Vps) proteins and interacts with ubiquitinated cargoes." [GOC:rb, PMID:12892785, PMID:12900393] broad_synonym: "Endosomal Sorting Complex Required for Transport" [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000814 name: ESCRT II complex namespace: cellular_component def: "An endosomal sorting complex required for transport and functions downstream of ESCRT I complex. It consists of the class E vacuolar protein sorting (Vps) proteins and is required for the membrane recruitment of ESCRT III complex and binds to ubiquitinated cargoes." [GOC:rb, PMID:12892785, PMID:12900393] broad_synonym: "Endosomal Sorting Complex Required for Transport" [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000815 name: ESCRT III complex namespace: cellular_component def: "An endosomal sorting complex required for transport. Consists of two soluble subcomplexes of highly charged coiled-coil proteins and is required for sorting and/or concentration of multivesicular body (MVB) cargoes." [GOC:rb, PMID:12892785, PMID:12900393] broad_synonym: "Endosomal Sorting Complex Required for Transport" [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044440 ! endosomal part relationship: part_of GO:0010008 ! endosome membrane [Term] id: GO:0000816 name: nicotinamide riboside kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nicotinamide riboside = ADP + nicotinamide nucleotide (NMN)." [PMID:15137942] is_a: GO:0019206 ! nucleoside kinase activity [Term] id: GO:0000817 name: COMA complex namespace: cellular_component def: "A multiprotein complex in yeast consisting of Ctf1p, Okp1p, Mcm1p, Ame1p. This complex bridges the subunits that are in contact with centromeric DNA and the subunits bound to microtubules during kinetochore assembly." [GOC:se, PMID:14633972] exact_synonym: "Ctf1p-Okp1p-Mcm1p-Ame1p complex" [] is_a: GO:0005875 ! microtubule associated complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000818 name: MIND complex namespace: cellular_component def: "A multiprotein complex in yeast consisting of Mtw1p, Nnf1p, Nsl1p, and Dsn1. This complex bridges the subunits that are in contact with centromeric DNA and the subunits bound to microtubules during kinetochore assembly." [GOC:se, PMID:14633972] exact_synonym: "Mtw1p Including Nnf1p-Nsl1p-Dsn1p complex" [] is_a: GO:0005875 ! microtubule associated complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000819 name: sister chromatid segregation namespace: biological_process def: "The process by which sister chromatids are organized and then physically separated and apportioned to two or more sets." [GOC:ai, GOC:elh] relationship: part_of GO:0007059 ! chromosome segregation [Term] id: GO:0000900 name: translation repressor activity, nucleic acid binding namespace: molecular_function def: "Antagonizes the ribosome-mediated translation of mRNA into a polypeptide via direct binding to nucleic acid." [GOC:clt] is_a: GO:0008135 ! translation factor activity, nucleic acid binding is_a: GO:0030371 ! translation repressor activity [Term] id: GO:0000901 name: translation repressor activity, non-nucleic acid binding namespace: molecular_function def: "Antagonizes the ribosome-mediated translation of mRNA into a polypeptide but does not bind directly to nucleic acid." [GOC:clt] is_a: GO:0030371 ! translation repressor activity is_a: GO:0045183 ! translation factor activity, non-nucleic acid binding [Term] id: GO:0000902 name: cellular morphogenesis namespace: biological_process alt_id: GO:0007148 alt_id: GO:0045790 alt_id: GO:0045791 def: "Any process that modulates the mass, volume, or shape of a cell." [GOC:clt, GOC:go_curators] subset: gosubset_prok narrow_synonym: "negative regulation of cell shape and cell size" [] narrow_synonym: "positive regulation of cell shape and cell size" [] narrow_synonym: "regulation of cell shape and cell size" [] is_a: GO:0009653 ! morphogenesis is_a: GO:0016043 ! cell organization and biogenesis [Term] id: GO:0000903 name: cellular morphogenesis during vegetative growth namespace: biological_process def: "The change in form (cell shape and size) that occurs during the development of a cell as it progresses through a mitotic cell cycle when it is not undergoing terminal differentiation." [GOC:clt, GOC:go_curators] is_a: GO:0000902 ! cellular morphogenesis [Term] id: GO:0000904 name: cellular morphogenesis during differentiation namespace: biological_process def: "The change in form (cell shape and size) that occurs when relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:go_curators] is_a: GO:0000902 ! cellular morphogenesis relationship: part_of GO:0048468 ! cell development [Term] id: GO:0000905 name: fruiting body formation during asexual reproduction (sensu Fungi) namespace: biological_process def: "The formation of a spore-bearing structure by fungus where spores will arise from asexual reproduction. As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [GOC:clt] related_synonym: "haploid fruiting" [] related_synonym: "homokaryotic fruiting" [] related_synonym: "monokaryotic fruiting" [] is_a: GO:0019954 ! asexual reproduction is_a: GO:0030584 ! fruiting body formation (sensu Fungi) [Term] id: GO:0000906 name: 6,7-dimethyl-8-ribityllumazine synthase activity namespace: molecular_function def: "Catalysis of the reaction: 3,4-dihydroxy-2-butanone 4-phosphate + 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione = 6,7-dimethyl-8-ribityllumazine + phosphate." [EC:5.4.-.-, PMID:7559556] xref_analog: EC:5.4.-.- is_a: GO:0016867 ! intramolecular transferase activity, transferring acyl groups [Term] id: GO:0000907 name: sulfonate dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: sulfonate + 2-oxoglutarate + O2 = SO3(2-) (sulfite) + aminoacetaldehyde + succinate + CO2." [EC:1.14.11.-, GOC:clt, PMID:10482536] subset: gosubset_prok exact_synonym: "sulfonate/alpha-ketoglutarate dioxygenase" [] exact_synonym: "sulphonate dioxygenase activity" [] xref_analog: EC:1.14.11.- is_a: GO:0016706 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors [Term] id: GO:0000908 name: taurine dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: taurine + 2-oxoglutarate + O2 = SO3(2-) (sulfite) + aminoacetaldehyde + succinate + CO2." [EC:1.14.11.17, MetaCyc:RXN0-299] subset: gosubset_prok exact_synonym: "alpha-ketoglutarate-dependent taurine dioxygenase" [] xref_analog: EC:1.14.11.17 xref_analog: MetaCyc:RXN0-299 is_a: GO:0000907 ! sulfonate dioxygenase activity [Term] id: GO:0000909 name: fruiting body formation during sexual reproduction (sensu Fungi) namespace: biological_process def: "The formation of a spore-bearing structure by fungus where spores will arise from sexual reproduction. As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [GOC:clt] is_a: GO:0019953 ! sexual reproduction is_a: GO:0030584 ! fruiting body formation (sensu Fungi) [Term] id: GO:0000910 name: cytokinesis namespace: biological_process def: "The processes resulting in the division of the cytoplasm of a cell and its separation into two daughter cells. Cytokinesis usually occurs after growth, replication, and segregation of cellular components." [GOC:ai] subset: goslim_yeast subset: gosubset_prok broad_synonym: "cell division" [] xref_analog: Reactome:68884 is_a: GO:0051301 ! cell division [Term] id: GO:0000911 name: cytokinesis by cell plate formation namespace: biological_process def: "The process of dividing the cytoplasm of a parent cell where a structure forms in the cytoplasm and grows until reaching the plasma membrane, thereby completely separating the cytoplasms of adjacent progeny cells." [GOC:clt] narrow_synonym: "cytokinesis (sensu Viridiplantae)" [] is_a: GO:0000910 ! cytokinesis [Term] id: GO:0000912 name: cytokinesis, formation of actomyosin apparatus namespace: biological_process def: "The formation of an apparatus composed of actin, myosin, and associated proteins that will function in cytokinesis." [GOC:clt] is_a: GO:0031032 ! actomyosin structure organization and biogenesis relationship: part_of GO:0000910 ! cytokinesis [Term] id: GO:0000913 name: preprophase band formation namespace: biological_process def: "The process of marking the position in the cell where cytokinesis will occur in cells that perform cytokinesis by cell plate formation." [GOC:clt] is_a: GO:0007105 ! cytokinesis, site selection relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000914 name: phragmoplast formation namespace: biological_process def: "The formation of a structure composed of actin, myosin, and associated proteins that will function in cytokinesis in cells that perform cytokinesis by cell plate formation. The structure usually contains antiparallel microtubules and membrane (often visible as vesicles)." [GOC:clt] is_a: GO:0000912 ! cytokinesis, formation of actomyosin apparatus relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000915 name: cytokinesis, contractile ring formation namespace: biological_process alt_id: GO:0045573 def: "The process of formation of a ring composed of actin, myosin, and associated proteins that will function in cytokinesis." [GOC:clt] exact_synonym: "cytokinesis, actomyosin ring formation" [] narrow_synonym: "constriction ring assembly" [] narrow_synonym: "cytokinesis, contractile ring assembly" [] is_a: GO:0000912 ! cytokinesis, formation of actomyosin apparatus [Term] id: GO:0000916 name: cytokinesis, contractile ring contraction namespace: biological_process def: "The process of an actomyosin ring, which functions in cytokinesis, getting smaller in diameter." [GOC:clt] exact_synonym: "cytokinesis, actomyosin ring contraction" [] relationship: part_of GO:0000910 ! cytokinesis [Term] id: GO:0000917 name: barrier septum formation namespace: biological_process def: "The process of making a septum that spans the plasma membrane interface between progeny cells following cytokinesis. The progeny cells that form a barrier septum are not able to exchange intracellular material." [GOC:clt] related_synonym: "septin assembly and septum formation" [] exact_synonym: "formation of barrier septum" [] broad_synonym: "septation" [] relationship: part_of GO:0000910 ! cytokinesis [Term] id: GO:0000918 name: selection of site for barrier septum formation namespace: biological_process def: "The process of marking the site where a barrier septum will form." [GOC:clt] exact_synonym: "selection of site for barrier cell septum formation" [] exact_synonym: "septum positioning" [] broad_synonym: "septin assembly and septum formation" [] relationship: part_of GO:0000917 ! barrier septum formation [Term] id: GO:0000919 name: cell plate formation namespace: biological_process def: "The process of assembly, maturation, and growth of the cell plate to the cell periphery in cells that divide by cell plate formation; often involves deposition of cell wall material in and around the phragmoplast." [GOC:clt] relationship: part_of GO:0000911 ! cytokinesis by cell plate formation [Term] id: GO:0000920 name: cell separation during cytokinesis namespace: biological_process def: "The process of physically separating progeny cells during cytokinesis; this may involve enzymatic digestion of septum or cell wall components." [GOC:clt] narrow_synonym: "rotokinesis" [] relationship: part_of GO:0000910 ! cytokinesis [Term] id: GO:0000921 name: septin ring assembly namespace: biological_process def: "Assembly and organization of septins and associated proteins into a structure resembling a ring at the cell cortex." [GOC:clt] subset: gosubset_prok broad_synonym: "septin assembly and septum formation" [] relationship: part_of GO:0031106 ! septin ring organization [Term] id: GO:0000922 name: spindle pole namespace: cellular_component def: "Either of the ends of a spindle, where spindle microtubules are organized; usually contains a microtubule organizing center and accessory molecules, spindle microtubules and astral microtubules." [GOC:clt] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0005819 ! spindle [Term] id: GO:0000923 name: equatorial microtubule organizing center namespace: cellular_component def: "A microtubule organizing center formed by a band of gamma-tubulin that is recruited to a circumferential band of F-actin at the midpoint of a cell and which nucleates microtubules from the cell division site at the end of mitosis." [PMID:11792817] exact_synonym: "EMTOC" [] exact_synonym: "equatorial microtubule organising centre" [] is_a: GO:0005815 ! microtubule organizing center is_a: GO:0032155 ! cell division site part [Term] id: GO:0000924 name: gamma-tubulin ring complex, centrosomal namespace: cellular_component def: "A centrosome-localized multiprotein complex composed of gamma-tubulin and other non-tubulin proteins assembled into a ring structure that is thought to be the unit of nucleation at the minus end of a microtubule. Gamma-tubulin small complexes are thought to be the core repeating units of the ring." [GOC:clt, PMID:12134075] is_a: GO:0008274 ! gamma-tubulin ring complex [Term] id: GO:0000925 name: gamma-tubulin ring complex, centrosomal (sensu Metazoa) namespace: cellular_component def: "A multiprotein complex that composed of approximately 10-14 gamma-tubulin molecules and at least six other non-tubulin proteins assembled into a flexible open ring structure, which in animal cells has a diameter of around 25nm. It is thought to be the unit of nucleation at the minus end of a microtubule. As in, but not restricted to, the multicellular animals (Metazoa, ncbi_taxonomy_id:33208)." [PMID:12134075] is_a: GO:0000924 ! gamma-tubulin ring complex, centrosomal [Term] id: GO:0000926 name: gamma-tubulin large complex (sensu Metazoa) namespace: cellular_component def: "A complex thought to be formed by multimerization of gamma-tubulin small complexes. As in, but not restricted to, the multicellular animals (Metazoa, ncbi_taxonomy_id:33208)." [PMID:12134075] is_a: GO:0000931 ! gamma-tubulin large complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0000925 ! gamma-tubulin ring complex, centrosomal (sensu Metazoa) [Term] id: GO:0000927 name: gamma-tubulin small complex (sensu Metazoa) namespace: cellular_component def: "A complex usually comprising two gamma-tubulin molecules, at least two conserved non-tubulin proteins that multimerize along with additional non-tubulin proteins in animal cells into larger functional complexes. Gamma-tubulin small complexes are thought to be the repeating unit making up the core of the gamma-tubulin ring complex. As in, but not restricted to, the multicellular animals (Metazoa, ncbi_taxonomy_id:33208)." [PMID:12134075] is_a: GO:0008275 ! gamma-tubulin small complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0000925 ! gamma-tubulin ring complex, centrosomal (sensu Metazoa) [Term] id: GO:0000928 name: gamma-tubulin complex (sensu Saccharomyces) namespace: cellular_component def: "A complex composed of two gamma-tubulin molecules and conserved non-tubulin proteins isolated by fractionation from cells. The complex, approximately 6S-9S, is analogous to the small complex in animal cells but contains fewer subunits, and is not thought to multimerize into larger functional units, like complexes in those organisms. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:12134075] exact_synonym: "Tub4 complex" [] is_a: GO:0008275 ! gamma-tubulin small complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0000929 name: gamma-tubulin large complex (sensu Schizosaccharomyces) namespace: cellular_component def: "A multiprotein complex composed of gamma-tubulin and other conserved non-tubulin proteins. Complex size is heterogenous but is around 2000kDa (or greater than 20S) and is comparable to the vertebrate gamma-tubulin large complex. As in, but not restricted to, the taxon Schizosaccharomyces (Schizosaccharomyces, ncbi_taxonomy_id:4895)." [PMID:12134075] is_a: GO:0000931 ! gamma-tubulin large complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0000923 ! equatorial microtubule organizing center relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0000930 name: gamma-tubulin complex namespace: cellular_component def: "A multiprotein complex composed of gamma-tubulin and other non-tubulin proteins. Gamma-tubulin complexes are localized to microtubule organizing centers, and play an important role in the nucleation of microtubules. The number and complexity of non-tubulin proteins associated with these complexes varies between species." [GOC:clt, PMID:12134075] is_a: GO:0043234 ! protein complex is_a: GO:0044450 ! microtubule organizing center part [Term] id: GO:0000931 name: gamma-tubulin large complex namespace: cellular_component def: "A complex of gamma tubulin and associated proteins thought to be formed by multimerization of gamma-tubulin small complexes." [PMID:12134075] is_a: GO:0000930 ! gamma-tubulin complex [Term] id: GO:0000932 name: cytoplasmic mRNA processing body namespace: cellular_component def: "A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. mRNA processing and binding proteins are localized to these foci." [GOC:clt, PMID:12730603] exact_synonym: "P body" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0000933 name: adventitious septum namespace: cellular_component def: "A cell septum whose formation is independent of nuclear division." [GOC:clt, ISBN:0471940526] is_a: GO:0030428 ! cell septum [Term] id: GO:0000934 name: porous cell septum namespace: cellular_component def: "A septum or cross wall which does not entirely span the space between two portions of cell wall and may contain a specialized central pore structure. A porous septum allows the movement of organelles and/or cytoplasm between compartments." [GOC:clt] broad_synonym: "porous septum" [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000935 name: barrier septum namespace: cellular_component def: "A septum which spans a cell and does not allow exchange of organelles or cytoplasm between compartments." [GOC:clt] exact_synonym: "complete septum" [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000936 name: primary cell septum namespace: cellular_component def: "A cell septum that forms following nuclear division." [GOC:clt, ISBN:0471940526] broad_synonym: "primary septum" [] is_a: GO:0030428 ! cell septum [Term] id: GO:0000937 name: dolipore septum namespace: cellular_component def: "A septum, or cross-wall, between two portions of a cell or hypha; contains a central pore around which the septum is swollen to form a barrel-shaped structure; pore is covered on each side of the septum by a septal pore cap (parenthosome)." [GOC:clt] is_a: GO:0000934 ! porous cell septum [Term] id: GO:0000938 name: GARP complex namespace: cellular_component def: "A quatrefoil tethering complex required for retrograde traffic from the early endosome back to the late Golgi and biogenesis of cytoplasmic vesicles." [GOC:clt, GOC:rn, PMID:10637310, PMID:12077354, PMID:12446664] exact_synonym: "Golgi associated retrograde protein complex" [] exact_synonym: "VFT tethering complex" [] exact_synonym: "Vps fifty three tethering complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044431 ! Golgi apparatus part is_a: GO:0044433 ! cytoplasmic vesicle part relationship: part_of GO:0016023 ! cytoplasmic membrane-bound vesicle [Term] id: GO:0000939 name: inner kinetochore of condensed chromosome namespace: cellular_component def: "The region of a condensed chromosome kinetochore closest to centromeric DNA; in mammals the CREST antigens (CENP proteins) are found in this layer; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome." [GOC:clt, PMID:10619130, PMID:11483983] related_synonym: "inner centromere core complex" [] narrow_synonym: "inner kinetochore plate" [] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000777 ! condensed chromosome kinetochore [Term] id: GO:0000940 name: outer kinetochore of condensed chromosome namespace: cellular_component def: "The region of a condensed chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions." [GOC:clt, PMID:11483983] narrow_synonym: "outer kinetochore plate" [] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0000777 ! condensed chromosome kinetochore [Term] id: GO:0000941 name: inner kinetochore of condensed nuclear chromosome namespace: cellular_component def: "The region of a condensed nuclear chromosome kinetochore closest to centromeric DNA; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome." [GOC:clt, PMID:10619130, PMID:1148398] is_a: GO:0000939 ! inner kinetochore of condensed chromosome is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000942 name: outer kinetochore of condensed nuclear chromosome namespace: cellular_component def: "The region of a condensed nuclear chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions." [GOC:clt, PMID:1148398] is_a: GO:0000940 ! outer kinetochore of condensed chromosome is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000778 ! condensed nuclear chromosome kinetochore [Term] id: GO:0000943 name: retrotransposon nucleocapsid namespace: cellular_component def: "A complex of the retrotransposon RNA genome, reverse transcriptase, integrase, and associated molecules required for reproduction and integration of the retrotransposon into the host genome; the main structural molecule of the nucleocapsid is often a gag protein homolog." [GOC:clt, PMID:10861903] exact_synonym: "Virus-like particle" [] exact_synonym: "VLP" [] is_a: GO:0044428 ! nuclear part [Term] id: GO:0001100 name: negative regulation of exit from mitosis namespace: biological_process def: "Any process involved in the inhibition of progression from anaphase/telophase (high mitotic CDK activity) to G1 (low mitotic CDK activity)." [GOC:rn] is_a: GO:0007096 ! regulation of exit from mitosis [Term] id: GO:0001101 name: response to acid namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acid stimulus." [GOC:rn] is_a: GO:0042221 ! response to chemical stimulus [Term] id: GO:0001300 name: chronological cell aging namespace: biological_process def: "The process associated with progression of the cell from its inception to the end of its lifespan that occur when the cell is in a non-dividing, or quiescent, state." [GOC:jh, SGD:12044934] exact_synonym: "chronological cell ageing" [] is_a: GO:0007569 ! cell aging [Term] id: GO:0001301 name: progressive alteration of chromatin during cell aging namespace: biological_process def: "The process that occurs during the lifespan of the cell that results in changes in chromatin structure. Such changes may lead to gene dysregulation and ultimately to a loss in cell homeostasis, bringing about an aging phenotype." [GOC:jh, PMID:12044938] related_synonym: "age-dependent accumulation of genetic damage" [] exact_synonym: "progressive alteration of chromatin during cell ageing" [] relationship: part_of GO:0007569 ! cell aging [Term] id: GO:0001302 name: replicative cell aging namespace: biological_process def: "The process associated with progression of the cell from its inception to the end of its lifespan that occurs as the cell continues cycles of growth and division." [GOC:jh, PMID:12044934] exact_synonym: "replicative cell ageing" [] is_a: GO:0007569 ! cell aging [Term] id: GO:0001303 name: nucleolar fragmentation during replicative aging namespace: biological_process def: "Process of enlargement and fragmentation of the nucleolus into multiple rounded structures that occurs in conjunction with increasing age in dividing cells." [GOC:jh, PMID:9891807] exact_synonym: "nucleolar fragmentation during replicative ageing" [] is_a: GO:0007576 ! nucleolar fragmentation relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001304 name: progressive alteration of chromatin during replicative cell aging namespace: biological_process def: "The process that occurs in dividing cells as they age that results in changes to chromatin structure." [GOC:jh] exact_synonym: "progressive alteration of chromatin during replicative cell ageing" [] is_a: GO:0001301 ! progressive alteration of chromatin during cell aging relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001305 name: progressive alteration of chromatin during chronological cell aging namespace: biological_process def: "The process that occurs in non-dividing cells as they age that results in changes to chromatin structure." [GOC:jh] exact_synonym: "progressive alteration of chromatin during chronological cell ageing" [] is_a: GO:0001301 ! progressive alteration of chromatin during cell aging relationship: part_of GO:0001300 ! chronological cell aging [Term] id: GO:0001306 name: age-dependent response to oxidative stress namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh, PMID:12044938] is_a: GO:0006979 ! response to oxidative stress is_a: GO:0007571 ! age-dependent general metabolic decline [Term] id: GO:0001307 name: extrachromosomal circular DNA accumulation during replicative cell aging namespace: biological_process def: "Increase in abundance of circular DNA molecules in dividing cells as they age. These molecules originate in the chromosome but are excised and circularized, often by intramolecular homologous recombination between direct tandem repeats, and then replicated independently of chromosomal replication." [GOC:jh] exact_synonym: "extrachromosomal circular DNA accumulation during replicative cell ageing" [] is_a: GO:0001304 ! progressive alteration of chromatin during replicative cell aging is_a: GO:0007580 ! extrachromosomal circular DNA accumulation during cell aging [Term] id: GO:0001308 name: loss of chromatin silencing during replicative cell aging namespace: biological_process def: "The process, which occurs as a dividing cell ages, leading to expression of genes that are typically not expressed due to silencing by regulatory proteins." [GOC:jh, PMID:12044934] exact_synonym: "loss of chromatin silencing during replicative cell ageing" [] is_a: GO:0001304 ! progressive alteration of chromatin during replicative cell aging is_a: GO:0006345 ! loss of chromatin silencing [Term] id: GO:0001309 name: age-dependent telomere shortening namespace: biological_process def: "Progressive reduction in length of the telomeres, the termini of eukaryotic chromosomes, that occurs as part of the cellular aging process." [GOC:jh, PMID:9891807] is_a: GO:0001304 ! progressive alteration of chromatin during replicative cell aging [Term] id: GO:0001310 name: extrachromosomal rDNA circle accumulation during replicative cell aging namespace: biological_process def: "Increase in abundance of circular DNA molecules in dividing cells as they age. These molecules originate in the chromosome but are excised and circularized, often by intramolecular homologous recombination between direct tandem repeats, and then replicated independently of chromosomal replication." [GOC:jh, PMID:12044934] exact_synonym: "extrachromosomal rDNA circle accumulation during replicative cell ageing" [] exact_synonym: "extrachromosomal ribosomal DNA circle accumulation during replicative cell aging" [] is_a: GO:0001307 ! extrachromosomal circular DNA accumulation during replicative cell aging [Term] id: GO:0001311 name: formation of extrachromosomal circular rDNA by homologous recombination during replicative cell aging namespace: biological_process def: "Excision from the chromosome and circularization of DNA molecules encoding ribosomal RNA in dividing cells as they age." [GOC:jh, PMID:12044934] exact_synonym: "formation of extrachromosomal circular rDNA by homologous recombination during replicative cell ageing" [] exact_synonym: "formation of extrachromosomal circular ribosomal DNA by homologous recombination during replicative cell aging" [] is_a: GO:0001313 ! formation of extrachromosomal circular DNA during replicative cell aging relationship: part_of GO:0001310 ! extrachromosomal rDNA circle accumulation during replicative cell aging [Term] id: GO:0001312 name: replication of extrachromosomal rDNA circles during replicative cell aging namespace: biological_process def: "Replication of rDNA following its excision from the chromosome of dividing cells as they age. Extrachromosomal rDNA forms a circle that contains at least one autonomously replicating sequence (ARS), which supports replication independent of chromosomal replication." [GOC:jh, PMID:12044934] exact_synonym: "replication of extrachromosomal rDNA circles during replicative cell ageing" [] exact_synonym: "replication of extrachromosomal ribosomal DNA circles during replicative cell aging" [] is_a: GO:0001314 ! replication of extrachromosomal circular DNA during replicative cell aging relationship: part_of GO:0001310 ! extrachromosomal rDNA circle accumulation during replicative cell aging [Term] id: GO:0001313 name: formation of extrachromosomal circular DNA during replicative cell aging namespace: biological_process def: "Excision from the chromosome and circularization of a region of chromosomal DNA, generally, but not always, via homologous recombination between direct tandem repeats, in dividing cells as they age." [GOC:jh] exact_synonym: "formation of extrachromosomal circular DNA during replicative cell ageing" [] is_a: GO:0001325 ! formation of extrachromosomal circular DNA relationship: part_of GO:0001307 ! extrachromosomal circular DNA accumulation during replicative cell aging [Term] id: GO:0001314 name: replication of extrachromosomal circular DNA during replicative cell aging namespace: biological_process def: "Replication of circular DNA following excision from the chromosome of dividing cells as they age; replication of extrachromosomal circular DNA generally occurs independently of chromosomal replication." [GOC:jh] exact_synonym: "replication of extrachromosomal circular DNA during replicative cell ageing" [] is_a: GO:0001326 ! replication of extrachromosomal circular DNA relationship: part_of GO:0001307 ! extrachromosomal circular DNA accumulation during replicative cell aging [Term] id: GO:0001315 name: age-dependent response to reactive oxygen species namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh, PMID:12044938] subset: gosubset_prok is_a: GO:0000302 ! response to reactive oxygen species [Term] id: GO:0001316 name: age-dependent response to reactive oxygen species during replicative cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring during the process of replicative cell aging as a result of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh] exact_synonym: "age-dependent response to reactive oxygen species during replicative cell ageing" [] is_a: GO:0001315 ! age-dependent response to reactive oxygen species is_a: GO:0001322 ! age-dependent response to oxidative stress during replicative cell aging [Term] id: GO:0001317 name: accumulation of oxidatively modified proteins during replicative cell aging namespace: biological_process def: "Accumulation of proteins that have undergone reactions with reactive oxygen species in aging dividing cells and exhibit modifications such as increased protein carbonyl content, oxidized methionine, protein hydrophobicity, and cross-linking." [GOC:jh] exact_synonym: "accumulation of oxidatively modified proteins during replicative cell ageing" [] is_a: GO:0001316 ! age-dependent response to reactive oxygen species during replicative cell aging [Term] id: GO:0001318 name: formation of oxidatively modified proteins during replicative cell aging namespace: biological_process def: "Chemical reaction, between proteins and reactive oxygen species, that occurs in dividing cells as they age and leads to a variety of changes in the affected proteins, including increases in protein carbonyl content, oxidized methionine, protein hydrophobicity, and cross-linking." [GOC:jh] exact_synonym: "formation of oxidatively modified proteins during replicative cell ageing" [] relationship: part_of GO:0001317 ! accumulation of oxidatively modified proteins during replicative cell aging [Term] id: GO:0001319 name: inheritance of oxidatively modified proteins during replicative cell aging namespace: biological_process def: "Process by which progeny cells acquire, or are barred from acquiring, proteins that have been altered by reaction with reactive oxygen species in dividing aging cells." [GOC:jh] exact_synonym: "inheritance of oxidatively modified proteins during replicative cell ageing" [] relationship: part_of GO:0001317 ! accumulation of oxidatively modified proteins during replicative cell aging [Term] id: GO:0001320 name: age-dependent response to reactive oxygen species during chronological cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in non-dividing cells as they age as a result of reactive oxygen species, where the change varies according to the age of the cell or organism." [GOC:jh] exact_synonym: "age-dependent response to reactive oxygen species during chronological cell ageing" [] is_a: GO:0001315 ! age-dependent response to reactive oxygen species is_a: GO:0001324 ! age-dependent response to oxidative stress during chronological cell aging [Term] id: GO:0001321 name: age-dependent general metabolic decline during replicative cell aging namespace: biological_process def: "The process, arising in dividing cells as they age, that alters cellular metabolism and thus causes a decline in cell function." [GOC:jh] exact_synonym: "age-dependent general metabolic decline during replicative cell ageing" [] is_a: GO:0007571 ! age-dependent general metabolic decline relationship: part_of GO:0001302 ! replicative cell aging [Term] id: GO:0001322 name: age-dependent response to oxidative stress during replicative cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in dividing cells as they age as a result of oxidative stress, where the change varies according to the age of the cell or organism." [GOC:jh] exact_synonym: "age-dependent response to oxidative stress during replicative cell ageing" [] is_a: GO:0001306 ! age-dependent response to oxidative stress is_a: GO:0001321 ! age-dependent general metabolic decline during replicative cell aging [Term] id: GO:0001323 name: age-dependent general metabolic decline during chronological cell aging namespace: biological_process def: "The process, arising in non-dividing cells as they age, that alters cellular metabolism and thus causes a decline in cell function." [GOC:jh] exact_synonym: "age-dependent general metabolic decline during chronological cell ageing" [] is_a: GO:0007571 ! age-dependent general metabolic decline relationship: part_of GO:0001300 ! chronological cell aging [Term] id: GO:0001324 name: age-dependent response to oxidative stress during chronological cell aging namespace: biological_process def: "A change in state or activity of a cell or an organism occurring in non-dividing cells as they age as a result of oxidative stress, where the change varies according to the age of the cell or organism." [GOC:jh] exact_synonym: "age-dependent response to oxidative stress during chronological cell ageing" [] is_a: GO:0001306 ! age-dependent response to oxidative stress is_a: GO:0001323 ! age-dependent general metabolic decline during chronological cell aging [Term] id: GO:0001325 name: formation of extrachromosomal circular DNA namespace: biological_process def: "Excision from the chromosome and circularization of a region of chromosomal DNA, generally, but not always, via homologous recombination between direct tandem repeats." [GOC:jh, PMID:12044938] subset: gosubset_prok is_a: GO:0000737 ! DNA catabolism, endonucleolytic [Term] id: GO:0001326 name: replication of extrachromosomal circular DNA namespace: biological_process def: "Replication of circular DNA following excision from the chromosome; replication of extrachromosomal circular DNA generally occurs independently of chromosomal replication." [GOC:jh] subset: gosubset_prok is_a: GO:0006260 ! DNA replication [Term] id: GO:0001400 name: mating projection base namespace: cellular_component def: "The region where the mating projection meets the bulk of the cell, in unicellular fungi exposed to mating pheromone." [GOC:mcc] related_synonym: "shmoo" [] narrow_synonym: "base of shmoo tip" [] narrow_synonym: "conjugation tube base" [] is_a: GO:0044463 ! cell projection part relationship: part_of GO:0005937 ! mating projection [Term] id: GO:0001401 name: mitochondrial sorting and assembly machinery complex namespace: cellular_component def: "A large complex of the mitochondrial outer membrane that mediates sorting of some imported proteins to the outer membrane and their assembly in the membrane; functions after import of incoming proteins by the mitochondrial outer membrane translocase complex." [PMID:12891361] comment: See also the cellular component term 'mitochondrial outer membrane translocase complex ; GO:0005742'. exact_synonym: "SAM complex" [] exact_synonym: "TOB complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005741 ! mitochondrial outer membrane [Term] id: GO:0001402 name: signal transduction during filamentous growth namespace: biological_process def: "Relaying of environmental signals promoting filamentous growth." [GOC:mcc, PMID:9728395] related_synonym: "activation of MAPK (pseudohyphal growth)" [] related_synonym: "activation of MAPKK (pseudohyphal growth)" [] related_synonym: "activation of MAPKKK (pseudohyphal growth)" [] related_synonym: "inactivation of MAPK (pseudohyphal growth)" [] related_synonym: "MAPKKK cascade (pseudohyphal growth)" [] related_synonym: "nuclear translocation of MAPK (pseudohyphal growth)" [] is_a: GO:0007165 ! signal transduction relationship: part_of GO:0030447 ! filamentous growth [Term] id: GO:0001403 name: invasive growth (sensu Saccharomyces) namespace: biological_process def: "A growth pattern exhibited by haploid cells under certain growth conditions, in which cells retain the typical axial budding pattern of haploids, but become elongated and fail to separate after division; during growth on a solid substrate, this results in penetration of cells into the agar medium. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [GOC:mcc, PMID:9728395] comment: Note that this term should not be used to describe the invasion of host tissues by pathogenic organisms, which is described by the biological process term 'invasive growth', nor should it be used to describe growth of diseased cells of an organism into the surrounding normal tissue, which is outside of the scope of GO. related_synonym: "colony morphology" [] broad_synonym: "invasive growth" [] is_a: GO:0016049 ! cell growth is_a: GO:0030447 ! filamentous growth [Term] id: GO:0001404 name: invasive growth namespace: biological_process def: "OBSOLETE. Growth of a pathogenic organism that results in penetration into cells or tissues of the host organism. This often (but not necessarily) includes a filamentous growth form, and also can include secretion of proteases and lipases to break down host tissue." [GOC:mcc, PMID:9728395] comment: This term was made obsolete because more appropriate terms were created. To update annotations, consider the biological process terms 'entry into host ; GO:0044409' and 'growth within host ; GO:0044412'. exact_synonym: "tissue invasion" [] is_obsolete: true [Term] id: GO:0001405 name: presequence translocase-associated import motor namespace: cellular_component def: "Protein complex located on the matrix side of the mitochondrial inner membrane and associated with the presequence translocase complex; hydrolyzes ATP to provide the force to drive import of proteins into the mitochondrial matrix." [GOC:mcc, PMID:14517234, PMID:14638855] exact_synonym: "mitochondrial import motor" [] exact_synonym: "PAM complex" [] exact_synonym: "pre-sequence translocase-associated import motor" [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005744 ! mitochondrial inner membrane presequence translocase complex [Term] id: GO:0001406 name: glycerophosphodiester transporter activity namespace: molecular_function def: "Enables the directed movement of glycerophosphodiesters into, out of, within or between cells. Glycerophosphodiesters are small molecules composed of glycerol-3-phosphate and an alcohol, for example, glycerophosphoinositol." [GOC:mcc, PMID:12912892] is_a: GO:0015605 ! organophosphate ester transporter activity [Term] id: GO:0001407 name: glycerophosphodiester transport namespace: biological_process def: "The directed movement of glycerophosphodiesters into, out of, within or between cells. Glycerophosphodiesters are small molecules composed of glycerol-3-phosphate and an alcohol, for example, glycerophosphoinositol." [GOC:mcc, PMID:12912892] is_a: GO:0015748 ! organophosphate ester transport [Term] id: GO:0001408 name: guanine nucleotide transport namespace: biological_process def: "The directed movement of guanine nucleotides, GTP, GDP, and/or GMP, into, out of, within or between cells." [GOC:mcc] is_a: GO:0015865 ! purine nucleotide transport [Term] id: GO:0001409 name: guanine nucleotide transporter activity namespace: molecular_function def: "Transports guanine nucleotides (GMP, GDP, and GTP) across membranes." [GOC:mcc] is_a: GO:0015216 ! purine nucleotide transporter activity [Term] id: GO:0001410 name: chlamydospore formation (sensu Candida albicans) namespace: biological_process def: "Development of chlamydospores, which are thick-walled, spore-like cells borne on the ends of elongated cells attached to hyphae or pseudohyphae, seen in the species Candida albicans and Candida dubliniensis. Note that although these structures resemble the chlamydospores of other fungi, it is not known whether they are true spores, so this process is not currently considered an instance of spore formation. As in, but not restricted to, the taxon Candida albicans (Candida albicans, ncbi_taxonomy_id:5476)." [GOC:mcc, PMID:14663094] is_a: GO:0030154 ! cell differentiation [Term] id: GO:0001411 name: hyphal tip namespace: cellular_component def: "The end, or tip, of a fungal hypha, where polarized growth occurs during hyphal elongation." [GOC:mcc] is_a: GO:0030427 ! site of polarized growth [Term] id: GO:0001501 name: skeletal development namespace: biological_process def: "The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton)." [GOC:jic, http://www.stedmans.com/] is_a: GO:0048513 ! organ development [Term] id: GO:0001502 name: cartilage condensation namespace: biological_process def: "The condensation of mesenchymal cells that have been committed to differentiate into chondrocytes." [ISBN:0878932437] relationship: part_of GO:0051216 ! cartilage development [Term] id: GO:0001503 name: ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [http://cancerweb.ncl.ac.uk/] exact_synonym: "bone formation" [] exact_synonym: "osteogenesis" [] is_a: GO:0031214 ! biomineral formation relationship: part_of GO:0001501 ! skeletal development relationship: part_of GO:0046849 ! bone remodeling [Term] id: GO:0001504 name: neurotransmitter uptake namespace: biological_process def: "The directed movement of neurotransmitters into neurons or glial cells. This process leads to inactivation and recycling of neurotransmitters. It does not occur during cholinergic synaptic transmission. Instead, acetylcholine is enzymatically degraded in the synaptic cleft." [ISBN:0123668387] exact_synonym: "neurotransmitter reuptake" [] narrow_synonym: "neurotransmitter import into glial cell" [] narrow_synonym: "neurotransmitter import into neuron" [] broad_synonym: "neurotransmitter recycling" [] is_a: GO:0001505 ! regulation of neurotransmitter levels is_a: GO:0006836 ! neurotransmitter transport [Term] id: GO:0001505 name: regulation of neurotransmitter levels namespace: biological_process def: "Any process that modulates levels of neurotransmitter." [GOC:jl] relationship: part_of GO:0007268 ! synaptic transmission [Term] id: GO:0001506 name: neurotransmitter biosynthesis and storage namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways resulting in the formation of neurotransmitters and the storage of the synthesized molecules." [GOC:go_curators, ISBN:0123668387] comment: This term was made obsolete because it is an amalgamation of its two children. To update annotations, consider the biological process terms 'sequestering of neurotransmitter ; GO:0042137', 'neurotransmitter biosynthesis ; GO:0042136'. exact_synonym: "neurotransmitter anabolism and storage" [] exact_synonym: "neurotransmitter formation and storage" [] exact_synonym: "neurotransmitter synthesis and storage" [] is_obsolete: true [Term] id: GO:0001507 name: acetylcholine catabolism in synaptic cleft namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of acetylcholine that occurs in the synaptic cleft during synaptic transmission." [GOC:ai] exact_synonym: "acetylcholine breakdown in synaptic cleft" [] exact_synonym: "acetylcholine degradation in synaptic cleft" [] is_a: GO:0006581 ! acetylcholine catabolism relationship: part_of GO:0007271 ! synaptic transmission, cholinergic [Term] id: GO:0001508 name: regulation of action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination." [GOC:dph, GOC:go_curators] relationship: part_of GO:0019226 ! transmission of nerve impulse [Term] id: GO:0001509 name: legumain activity namespace: molecular_function def: "Catalysis of the hydrolysis of proteins and small-molecule substrates at Asn-Xaa bonds." [EC:3.4.22.34] xref_analog: EC:3.4.22.34 xref_analog: MetaCyc:3.4.22.34-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0001510 name: RNA methylation namespace: biological_process def: "Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in an polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor." [GOC:hjd] subset: gosubset_prok is_a: GO:0009451 ! RNA modification is_a: GO:0043414 ! biopolymer methylation [Term] id: GO:0001511 name: fibrillin namespace: molecular_function def: "OBSOLETE. Large glycoprotein that is a calcium binding component of connective tissue microfibrils containing 34 six-cysteine (EGF-like) repeats and five eight-cysteine (TGFbeta-1 binding protein-like) repeats. Defects associated with Marfan syndrome." [ISBN:0198506732] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'calcium ion binding ; GO:0005509' and the cellular component term 'microfibril ; GO:0001527'. is_obsolete: true [Term] id: GO:0001512 name: dihydronicotinamide riboside quinone reductase activity namespace: molecular_function is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0001514 name: selenocysteine incorporation namespace: biological_process def: "The incorporation of selenocysteine into a peptide; uses a special tRNA that recognizes the UGA codon as selenocysteine, rather than as a termination codon. Selenocysteine is synthesized from serine before its incorporation, it is not a posttranslational modification of peptidyl-cysteine." [RESID:AA0022] subset: gosubset_prok xref_analog: RESID:AA0022 is_a: GO:0006451 ! translational readthrough [Term] id: GO:0001515 name: opioid peptide activity namespace: molecular_function def: "Naturally occurring peptide that is an opioid (any non-alkaloid having an opiate-like effect that can be reversed by naloxone or other recognized morphine antagonist). These include Leu- and Met-enkephalin, dynorphin and neoendorphin, alpha, beta, gamma and delta endorphins formed from beta-lipotropin, various pronase-resistant peptides such as beta casamorphin, and other peptides whose opiate-like action seems to be indirect." [ISBN:0198506732] is_a: GO:0005102 ! receptor binding [Term] id: GO:0001516 name: prostaglandin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of prostaglandins, any of a group of biologically active metabolites which contain a cyclopentane ring." [GOC:ai] subset: gosubset_prok exact_synonym: "prostaglandin anabolism" [] exact_synonym: "prostaglandin formation" [] exact_synonym: "prostaglandin synthesis" [] is_a: GO:0006693 ! prostaglandin metabolism is_a: GO:0046457 ! prostanoid biosynthesis [Term] id: GO:0001517 name: N-acetylglucosamine 6-O-sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + N-acetyl-D-glucosamine = adenosine 3',5'-bisphosphate + N-acetyl-D-glucosamine 6-sulfate." [GOC:ai, GOC:hjd] exact_synonym: "N-acetylglucosamine 6-O-sulphotransferase activity" [] xref_analog: EC:2.8.2.- is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0001518 name: voltage-gated sodium channel complex namespace: cellular_component def: "A sodium channel in a cell membrane whose opening is governed by the membrane potential." [ISBN:0198506732] exact_synonym: "voltage gated sodium channel complex" [] exact_synonym: "voltage-dependent sodium channel complex" [] exact_synonym: "voltage-sensitive sodium channel complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0001519 name: peptide amidation namespace: biological_process def: "The posttranslational conversion of C-terminal glycine-extended peptides to C-terminal alpha-amidated peptides. Occurs to over half of all peptide hormones to give bioactive peptides. This is a two step process catalyzed by a peptidyl-glycine alpha-hydroxylating monooxygenase and a peptidyl-alpha-hydroxyglycine alpha-amidating lyase. In some organisms, this process is catalyzed by two separate enzymes, whereas in higher organisms, one polypeptide catalyzes both reactions." [PMID:11028916] subset: gosubset_prok is_a: GO:0031179 ! peptide modification [Term] id: GO:0001520 name: outer dense fiber namespace: cellular_component def: "Structure or material found in the flagella of mammalian sperm that surrounds each of the nine microtubule doublets, giving a 9 + 9 + 2 arrangement rather than the 9 + 2 pattern usually seen. These dense fibers are stiff and noncontractile." [ISBN:0824072820] exact_synonym: "outer dense fibre" [] is_a: GO:0044447 ! axoneme part [Term] id: GO:0001522 name: pseudouridine synthesis namespace: biological_process def: "The intramolecular conversion of uridine to pseudouridine within an RNA molecule. This posttranscriptional base modification occurs in tRNA, rRNA, and snRNAs." [GOC:hjd, GOC:mah] subset: gosubset_prok exact_synonym: "pseudouridylation" [] is_a: GO:0009451 ! RNA modification [Term] id: GO:0001523 name: retinoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving retinoids, any member of a class of isoprenoids that contain or are derived from four prenyl groups linked head-to-tail. Retinoids include retinol and retinal and structurally similar natural derivatives or synthetic compounds, but need not have vitamin A activity." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006720 ! isoprenoid metabolism [Term] id: GO:0001524 name: globin namespace: molecular_function def: "OBSOLETE. The colorless and basic protein moiety of hemoglobin and myoglobins." [GOC:ai, ISBN:0198506732] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'oxygen transporter activity ; GO:0005344'. is_obsolete: true [Term] id: GO:0001525 name: angiogenesis namespace: biological_process def: "Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels." [ISBN:0878932453] relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001526 name: proteoglycan sulfate transfer namespace: biological_process def: "OBSOLETE. Transfer of sulfate to a proteoglycan (a glycoprotein whose carbohydrate units are glycosaminoglycans) using 3'-phosphoadenyl sulfate." [GOC:hjd] comment: This term was made obsolete because it represents a group of molecular functions. To update annotations, consider the molecular function term 'proteoglycan sulfotransferase activity ; GO:0050698' and the biological process terms 'proteoglycan metabolism ; GO:0006029' and 'sulfur metabolism ; GO:0006790'. exact_synonym: "proteoglycan sulphate transfer" [] is_obsolete: true [Term] id: GO:0001527 name: microfibril namespace: cellular_component def: "Extracellular matrix components occurring independently or along with elastin. Thought to have force-bearing functions in tendon. In addition to fibrillins, microfibrils may contain other associated proteins." [http://www.xrefer.com/entry/490235] related_synonym: "fibrillin" [] exact_synonym: "extended fibrils" [] is_a: GO:0043205 ! fibril [Term] id: GO:0001528 name: elastin namespace: molecular_function def: "OBSOLETE. A major structural protein of mammalian connective tissues; composed of one third glycine, and also rich in proline, alanine, and valine. Chains are cross-linked together via lysine residues." [ISBN:0198506732] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'extracellular matrix constituent conferring elasticity ; GO:0030023'. is_obsolete: true [Term] id: GO:0001529 name: elastin namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'extracellular matrix constituent conferring elasticity ; GO:0030023'. is_obsolete: true [Term] id: GO:0001530 name: lipopolysaccharide binding namespace: molecular_function def: "Interacting selectively with lipopolysaccharide." [PMID:11079463] exact_synonym: "LPS binding" [] broad_synonym: "endotoxin binding" [] is_a: GO:0001871 ! pattern binding [Term] id: GO:0001531 name: interleukin-21 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-21 receptor." [GOC:ai] narrow_synonym: "IL-21" [] narrow_synonym: "interleukin-21 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0001532 name: interleukin-21 receptor activity namespace: molecular_function def: "Combining with interleukin-21 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-21R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019977 ! interleukin-21 binding [Term] id: GO:0001533 name: cornified envelope namespace: cellular_component def: "An insoluble protein structure formed under the plasma membrane of cornifying epithelial cells." [PMID:11112355] is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0001534 name: radial spoke namespace: cellular_component def: "Protein complex that links the outer microtubule doublet of the ciliary or flagellum axoneme with the sheath that surrounds the central pair of microtubules. Composed of a stalk that attaches to each doublet microtubule and a globular structure (spoke head) that projects toward the central pair of microtubules." [ISBN:0124325653, PMID:9450971] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part [Term] id: GO:0001535 name: radial spokehead namespace: cellular_component def: "Protein complex forming part of eukaryotic flagellar apparatus." [GOC:hjd] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part relationship: part_of GO:0001534 ! radial spoke [Term] id: GO:0001536 name: radial spoke stalk namespace: cellular_component def: "Globular portion of the radial spoke that projects towards the central pair of microtubules." [GOC:hjd] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part relationship: part_of GO:0001534 ! radial spoke [Term] id: GO:0001537 name: N-acetylgalactosamine 4-O-sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + N-acetyl-D-galactosamine = adenosine 3',5'-bisphosphate + N-acetyl-D-galactosamine 4-sulfate." [EC:2.8.2.-, GOC:ai] exact_synonym: "N-acetylgalactosamine 4-O-sulphotransferase activity" [] xref_analog: EC:2.8.2.- is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0001539 name: ciliary or flagellar motility namespace: biological_process def: "Locomotion due to movement of cilia or flagella." [GOC:hjd] subset: gosubset_prok exact_synonym: "ciliary/flagellar motility" [] is_a: GO:0006928 ! cell motility [Term] id: GO:0001540 name: beta-amyloid binding namespace: molecular_function def: "Interacting selectively with beta-amyloid peptide/protein and/or its precursor." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0001541 name: ovarian follicle development namespace: biological_process def: "The process whose specific outcome is the progression of the ovarian follicle over time, from its formation to the mature structure." [GOC:go_curators] related_synonym: "follicular phase" [] relationship: part_of GO:0008585 ! female gonad development relationship: part_of GO:0042698 ! menstrual cycle [Term] id: GO:0001542 name: ovulation (sensu Mammalia) namespace: biological_process def: "The process leading to the rupture of the follicle, releasing the centrally located oocyte. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [http://ovary.stanford.edu] is_a: GO:0008585 ! female gonad development is_a: GO:0030728 ! ovulation relationship: part_of GO:0042698 ! menstrual cycle [Term] id: GO:0001543 name: ovarian follicle rupture namespace: biological_process def: "Disruption of theca cell layer releasing follicular fluid and/or the oocyte." [http://ovary.stanford.edu] relationship: part_of GO:0001542 ! ovulation (sensu Mammalia) [Term] id: GO:0001544 name: initiation of primordial ovarian follicle growth namespace: biological_process def: "Increase in size of primordial follicles including proliferation and shape changes of granulosa and/or theca cells until oocyte is surrounded by one layer of cuboidal shaped granulosa cells (primary follicle)." [http://ovary.stanford.edu] relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001545 name: primary ovarian follicle growth namespace: biological_process def: "Increase in size of primary follicles including oocyte growth and granulosa and/or theca cell proliferation until more than one layer of granulosa cells is present (preantral follicle)." [http://ovary.stanford.edu] relationship: part_of GO:0001541 ! ovarian follicle development relationship: part_of GO:0048160 ! primary follicle stage oogenesis (sensu Mammalia) relationship: part_of GO:0048161 ! double layer follicle stage oogenesis (sensu Mammalia) [Term] id: GO:0001546 name: preantral ovarian follicle growth namespace: biological_process def: "Increase in size of follicles surrounded by two or more layers of granulosa cells up to the onset of antrum formation." [http://ovary.stanford.edu] relationship: part_of GO:0001541 ! ovarian follicle development relationship: part_of GO:0048162 ! multi-layer follicle stage oogenesis (sensu Mammalia) [Term] id: GO:0001547 name: antral ovarian follicle growth namespace: biological_process def: "Increase in size of antral follicles due to cell proliferation and/or growth of the antral cavity." [http://ovary.stanford.edu] relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001548 name: follicular fluid formation in ovarian follicle antrum namespace: biological_process def: "Formation of one central cavity separating the oocyte/cumulus complex from mural granulosa and theca cells." [http://ovary.stanford.edu] exact_synonym: "ovarian follicle antrum/follicular fluid formation" [] relationship: part_of GO:0001547 ! antral ovarian follicle growth relationship: part_of GO:0048163 ! scattered antral spaces stage oogenesis (sensu Mammalia) relationship: part_of GO:0048164 ! distinct antral spaces stage oogenesis (sensu Mammalia) relationship: part_of GO:0048165 ! fused antrum stage oogenesis (sensu Mammalia) [Term] id: GO:0001549 name: cumulus cell differentiation namespace: biological_process def: "The process whereby a subpopulation of granulosa cells surrounding the oocyte acquires the specialized features of an ovarian cumulus cell." [http://ovary.stanford.edu] exact_synonym: "ovarian cumulus cell differentiation" [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001547 ! antral ovarian follicle growth relationship: part_of GO:0048165 ! fused antrum stage oogenesis (sensu Mammalia) [Term] id: GO:0001550 name: ovarian cumulus expansion namespace: biological_process def: "Increase in size of the cumulus surrounding the oocyte including change in morphology due to proliferation and dispersion of cumulus cells." [http://ovary.stanford.edu] related_synonym: "ovarian cumulus growth" [] relationship: part_of GO:0001547 ! antral ovarian follicle growth relationship: part_of GO:0048165 ! fused antrum stage oogenesis (sensu Mammalia) [Term] id: GO:0001551 name: ovarian follicle endowment namespace: biological_process def: "Association of oocytes with supporting epithelial granulosa cells to form primordial follicles." [http://ovary.stanford.edu] relationship: part_of GO:0001541 ! ovarian follicle development [Term] id: GO:0001552 name: ovarian follicle atresia namespace: biological_process def: "Ovarian follicle demise mediated by apoptosis." [http://ovary.stanford.edu] relationship: part_of GO:0008585 ! female gonad development [Term] id: GO:0001553 name: luteinization namespace: biological_process def: "Differentiation of theca and granulosa cells into luteal cells. Also other processes involved in the formation of a corpus luteum after ovulation." [http://ovary.stanford.edu] related_synonym: "luteal phase" [] relationship: part_of GO:0008585 ! female gonad development relationship: part_of GO:0042698 ! menstrual cycle [Term] id: GO:0001554 name: luteolysis namespace: biological_process def: "Regression of ovarian corpora lutea." [http://ovary.stanford.edu] relationship: part_of GO:0008585 ! female gonad development relationship: part_of GO:0042703 ! menstruation [Term] id: GO:0001555 name: oocyte growth namespace: biological_process def: "The process by which an oocyte irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [http://ovary.stanford.edu] is_a: GO:0016049 ! cell growth relationship: part_of GO:0048601 ! oocyte morphogenesis [Term] id: GO:0001556 name: oocyte maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for an oocyte to attain its fully functional state. Oocyte maturation commences after reinitiation of meiosis commonly starting with germinal vesicle breakdown, and continues up to the second meiotic arrest prior to fertilization." [GOC:devbiol, http://ovary.stanford.edu] is_a: GO:0048469 ! cell maturation relationship: part_of GO:0048599 ! oocyte development [Term] id: GO:0001557 name: metabolism resulting in cell growth namespace: biological_process def: "OBSOLETE. The chemical reactions that occur in living organisms that result in an increase in the mass (size) of a cell." [GOC:dph] comment: This term was made obsolete because it is redundant with other terms; obsoleted as part of the metabolism rearrangements. To update annotations, use the biological process terms 'cell growth ; GO:0016049' and 'metabolism ; GO:0008152'. is_obsolete: true [Term] id: GO:0001558 name: regulation of cell growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell growth." [GOC:go_curators] subset: gosubset_prok related_synonym: "RAS small monomeric GTPase activity" [] related_synonym: "RHEB small monomeric GTPase activity" [] is_a: GO:0040008 ! regulation of growth is_a: GO:0051244 ! regulation of cellular physiological process relationship: part_of GO:0016049 ! cell growth [Term] id: GO:0001559 name: regulation of cell growth by detection of nuclear:cytoplasmic ratio namespace: biological_process def: "Any process whereby the size of the nucleus with respect to the cytoplasm modulates the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph] exact_synonym: "detection of nuclear:cytoplasmic ratio to regulate cell growth" [] exact_synonym: "interpretation of nuclear:cytoplasmic ratio to regulate cell growth" [] exact_synonym: "regulation of cell growth by nuclear:cytoplasmic ratio" [] exact_synonym: "regulation of cell growth by sensing of nuclear:cytoplasmic ratio" [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0016475 ! detection of nuclear:cytoplasmic ratio [Term] id: GO:0001560 name: regulation of cell growth by extracellular stimulus namespace: biological_process def: "Any process whereby external signals modulate the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph] exact_synonym: "interpretation of external signals that regulate cell growth" [] exact_synonym: "regulation of cell growth by detection of exogenous stimulus" [] exact_synonym: "regulation of cell growth by sensing of exogenous stimulus" [] exact_synonym: "regulation of growth by exogenous signal" [] exact_synonym: "regulation of growth by exogenous stimuli" [] exact_synonym: "regulation of growth by exogenous stimulus" [] exact_synonym: "regulation of growth by external signal" [] exact_synonym: "regulation of growth by external stimuli" [] exact_synonym: "regulation of growth by external stimulus" [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0007165 ! signal transduction relationship: part_of GO:0009991 ! response to extracellular stimulus [Term] id: GO:0001561 name: fatty acid alpha-oxidation namespace: biological_process def: "Pathway by which 3-methyl branched fatty acids are degraded. These compounds are not degraded by the normal peroxisomal beta-oxidation pathway, because the 3-methyl blocks the dehydrogenation of the hydroxyl group by hydroxyacyl-CoA dehydrogenase. The 3-methyl branched fatty acid is converted in several steps to pristenic acid, which can then feed into the beta-oxidative pathway." [http://www.peroxisome.org/Scientist/Biochemistry/alpha-oxidation.html] subset: gosubset_prok is_a: GO:0019395 ! fatty acid oxidation [Term] id: GO:0001562 name: response to protozoan namespace: biological_process alt_id: GO:0042833 def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a protozoan." [GOC:ai] related_synonym: "resistance to pathogenic protozoa" [] exact_synonym: "response to protozoa" [] exact_synonym: "response to protozoon" [] is_a: GO:0051707 ! response to other organism [Term] id: GO:0001563 name: detection of protozoan namespace: biological_process def: "The series of events in which a stimulus from a protozoan is received and converted into a molecular signal." [GOC:ai] related_synonym: "perception of protozoa" [] exact_synonym: "detection of protozoa" [] exact_synonym: "detection of protozoon" [] is_a: GO:0001562 ! response to protozoan is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0001564 name: resistance to pathogenic protozoa namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because 'resistance' implies a phenotype rather than a biological process. To update annotations, use the biological process term 'response to protozoa ; GO:0001562'. is_obsolete: true [Term] id: GO:0001565 name: phorbol ester receptor activity namespace: molecular_function def: "Combining with a phorbol ester to initiate a change in cell activity." [GOC:ai, PMID:10506570] is_a: GO:0004872 ! receptor activity [Term] id: GO:0001566 name: non-kinase phorbol ester receptor activity namespace: molecular_function def: "Phorbol ester/diacylglycerol binding proteins that do not have intrinsic kinase activity." [PMID:10506570] is_a: GO:0001565 ! phorbol ester receptor activity [Term] id: GO:0001567 name: cholesterol 25-hydroxylase activity namespace: molecular_function def: "Catalysis of the hydroxylation of cholesterol at position 25 of the side chain, to produce 25-hydroxycholesterol." [GOC:jl, PMID:12543708] is_a: GO:0008395 ! steroid hydroxylase activity [Term] id: GO:0001568 name: blood vessel development namespace: biological_process def: "The process whose specific outcome is the progression of the blood vessel over time, from its formation to the mature structure. The blood vessel is the vasculature carrying blood." [GOC:hjd] is_a: GO:0001944 ! vasculature development [Term] id: GO:0001569 name: patterning of blood vessels namespace: biological_process def: "The process that regulates the coordinated growth and sprouting of blood vessels giving rise to the organized vascular system." [GOC:dph] is_a: GO:0009880 ! embryonic pattern specification is_a: GO:0048754 ! branching morphogenesis of a tube relationship: part_of GO:0001525 ! angiogenesis [Term] id: GO:0001570 name: vasculogenesis namespace: biological_process def: "The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes." [PMID:8999798] exact_synonym: "vascular morphogenesis" [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001571 name: non-tyrosine kinase fibroblast growth factor receptor activity namespace: molecular_function def: "A receptor belonging to the FGFR family but lacking the tyrosine kinase domain." [PMID:11418238] exact_synonym: "non-tyrosine kinase FGF receptor activity" [] exact_synonym: "non-tyrosine kinase FGFR activity" [] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0001572 name: lactosylceramide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lactosylceramides, Gal beta(1,4)Glc beta(1,1') ceramides, any compound formed by the replacement of the glycosidic C1 hydroxyl group of lactose by a ceramide group. They are the precursors of both gangliosides and globosides." [ISBN:0198506732, ISBN:0471586501] subset: gosubset_prok exact_synonym: "lactosylceramide anabolism" [] exact_synonym: "lactosylceramide formation" [] exact_synonym: "lactosylceramide synthesis" [] is_a: GO:0046476 ! glycosylceramide biosynthesis is_a: GO:0046478 ! lactosylceramide metabolism relationship: part_of GO:0001574 ! ganglioside biosynthesis relationship: part_of GO:0001576 ! globoside biosynthesis [Term] id: GO:0001573 name: ganglioside metabolism namespace: biological_process def: "The chemical reactions and pathways involving ceramide oligosaccharides carrying in addition to other sugar residues, one or more sialic acid residues." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006672 ! ceramide metabolism is_a: GO:0006687 ! glycosphingolipid metabolism [Term] id: GO:0001574 name: ganglioside biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ceramide oligosaccharides carrying in addition to other sugar residues, one or more sialic acid residues." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "ganglioside anabolism" [] exact_synonym: "ganglioside formation" [] exact_synonym: "ganglioside synthesis" [] is_a: GO:0001573 ! ganglioside metabolism is_a: GO:0006688 ! glycosphingolipid biosynthesis [Term] id: GO:0001575 name: globoside metabolism namespace: biological_process def: "The chemical reactions and pathways involving globosides, globotetraosylceramides, ceramides containing a core structure of GalNAc-beta-(1,3)-Gal-alpha(1,4)Glc(I). Globosides are the major neutral glycosphingolipid in normal kidneys and erythrocytes." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006672 ! ceramide metabolism is_a: GO:0006687 ! glycosphingolipid metabolism [Term] id: GO:0001576 name: globoside biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a ceramide with a core structure of GalNAc-beta-(1,3)-Gal-alpha(1,4)Glc(I)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "globoside anabolism" [] exact_synonym: "globoside formation" [] exact_synonym: "globoside synthesis" [] is_a: GO:0001575 ! globoside metabolism is_a: GO:0006688 ! glycosphingolipid biosynthesis [Term] id: GO:0001577 name: galectin namespace: molecular_function def: "OBSOLETE. A lectin that exhibits calcium independent binding of beta-galactoside sugars." [PMID:9786891] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'galactoside binding ; GO:0016936' and the biological process term 'heterophilic cell adhesion ; GO:0007157'. exact_synonym: "S-type lectin" [] is_obsolete: true [Term] id: GO:0001578 name: microtubule bundle formation namespace: biological_process def: "A process that results in a parallel arrangement of microtubules." [GOC:dph] exact_synonym: "microtubule bundling" [] is_a: GO:0000226 ! microtubule cytoskeleton organization and biogenesis [Term] id: GO:0001579 name: medium-chain fatty acid transport namespace: biological_process def: "The directed movement of medium-chain fatty acids into, out of, within or between cells. Medium-chain fatty acids are fatty acids with a chain length of between 8 and 12 carbons." [GOC:ai] is_a: GO:0015908 ! fatty acid transport [Term] id: GO:0001580 name: detection of chemical stimulus during sensory perception of bitter taste namespace: biological_process def: "The series of events required for a bitter taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] exact_synonym: "bitter taste detection" [] exact_synonym: "perception of bitter taste, detection of chemical stimulus" [] exact_synonym: "perception of bitter taste, sensory transduction of chemical stimulus" [] exact_synonym: "sensory detection of bitter taste" [] exact_synonym: "sensory detection of chemical stimulus during perception of bitter taste" [] exact_synonym: "sensory transduction of bitter taste" [] exact_synonym: "sensory transduction of chemical stimulus during perception of bitter taste" [] is_a: GO:0050912 ! detection of chemical stimulus during sensory perception of taste relationship: part_of GO:0050913 ! sensory perception of bitter taste [Term] id: GO:0001581 name: detection of chemical stimulus during sensory perception of sour taste namespace: biological_process def: "The series of events required for a sour taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] exact_synonym: "perception of sour taste, detection of chemical stimulus" [] exact_synonym: "perception of sour taste, sensory transduction of chemical stimulus" [] exact_synonym: "sensory detection of chemical stimulus during perception of sour taste" [] exact_synonym: "sensory detection of sour taste" [] exact_synonym: "sensory transduction of chemical stimulus during perception of sour taste" [] exact_synonym: "sensory transduction of sour taste" [] exact_synonym: "sour taste detection" [] is_a: GO:0050912 ! detection of chemical stimulus during sensory perception of taste relationship: part_of GO:0050915 ! sensory perception of sour taste [Term] id: GO:0001582 name: detection of chemical stimulus during sensory perception of sweet taste namespace: biological_process def: "The series of events required for a sweet taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] exact_synonym: "perception of sweet taste, detection of chemical stimulus" [] exact_synonym: "perception of sweet taste, sensory transduction of chemical stimulus" [] exact_synonym: "sensory detection of chemical stimulus during perception of sweet taste" [] exact_synonym: "sensory detection of sweet taste" [] exact_synonym: "sensory transduction of chemical stimulus during perception of sweet taste" [] exact_synonym: "sensory transduction of sweet taste" [] exact_synonym: "sweet taste detection" [] is_a: GO:0050912 ! detection of chemical stimulus during sensory perception of taste relationship: part_of GO:0050916 ! sensory perception of sweet taste [Term] id: GO:0001583 name: detection of chemical stimulus during sensory perception of salty taste namespace: biological_process def: "The series of events required for a salty taste stimulus to be received and converted to a molecular signal." [GOC:go_curators] exact_synonym: "perception of salty taste, detection of chemical stimulus" [] exact_synonym: "perception of salty taste, sensory transduction of chemical stimulus" [] exact_synonym: "salty taste detection" [] exact_synonym: "sensory detection of chemical stimulus during perception of salty taste" [] exact_synonym: "sensory detection of salty taste" [] exact_synonym: "sensory transduction of chemical stimulus during perception of salty taste" [] exact_synonym: "sensory transduction of salty taste" [] is_a: GO:0050912 ! detection of chemical stimulus during sensory perception of taste relationship: part_of GO:0050914 ! sensory perception of salty taste [Term] id: GO:0001584 name: rhodopsin-like receptor activity namespace: molecular_function def: "The group of G-protein coupled receptors that are structurally/functionally related to the rhodopsin receptor." [IUPHAR:2.1] subset: gosubset_prok exact_synonym: "Class A G protein coupled receptor" [] exact_synonym: "Class A G-protein coupled receptor" [] exact_synonym: "Class A GPCR" [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001586 name: 5-HT1 receptor activity namespace: molecular_function is_a: GO:0004993 ! serotonin receptor activity [Term] id: GO:0001587 name: 5-HT2 receptor activity namespace: molecular_function is_a: GO:0004993 ! serotonin receptor activity [Term] id: GO:0001588 name: dopamine D1 receptor-like receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds the neurotransmitter dopamine and activates adenylate cyclase via coupling to Gs." [ISBN:0953351033] is_a: GO:0004952 ! dopamine receptor activity [Term] id: GO:0001589 name: dopamine D5 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D5 receptors." [IUPHAR:2.1 DA 5] is_a: GO:0001588 ! dopamine D1 receptor-like receptor activity [Term] id: GO:0001590 name: dopamine D1 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D1 receptors." [IUPHAR:21. DA 1] is_a: GO:0001588 ! dopamine D1 receptor-like receptor activity [Term] id: GO:0001591 name: dopamine D2 receptor-like receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds the neurotransmitter dopamine and inhibits adenylate cyclase via coupling to Gi/Go." [ISBN:0953351033] is_a: GO:0004952 ! dopamine receptor activity [Term] id: GO:0001592 name: dopamine D3 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D3 receptors." [IUPHAR:2.1 DA 3] is_a: GO:0001591 ! dopamine D2 receptor-like receptor activity [Term] id: GO:0001593 name: dopamine D4 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D4 receptors." [IUPHAR:2.1 DA 4] is_a: GO:0001591 ! dopamine D2 receptor-like receptor activity [Term] id: GO:0001594 name: trace-amine receptor activity namespace: molecular_function is_a: GO:0008227 ! amine receptor activity [Term] id: GO:0001595 name: angiotensin receptor activity namespace: molecular_function def: "Combining with angiotensin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001596 name: angiotensin type I receptor activity namespace: molecular_function is_a: GO:0001595 ! angiotensin receptor activity [Term] id: GO:0001597 name: apelin-like receptor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because the function it represents does not exist. To update annotations, consider the molecular function term 'apelin receptor binding ; GO:0031704'. exact_synonym: "APJ-like receptor" [] is_obsolete: true [Term] id: GO:0001598 name: chemokine receptor-like receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001599 name: endothelin-A receptor activity namespace: molecular_function def: "A G-protein coupled receptor that preferentially binds endothelin 1." [IUPHAR:2.1 ET ETA, PMID:8582288] is_a: GO:0004962 ! endothelin receptor activity [Term] id: GO:0001600 name: endothelin-B receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds all endothelin molecules with approximately equal affinity." [IUPHAR:2.1 ET ETAB, PMID:8582288] is_a: GO:0004962 ! endothelin receptor activity [Term] id: GO:0001601 name: peptide YY receptor activity namespace: molecular_function def: "Combining with gut peptide YY to initiate a change in cell activity." [PMID:9315606] is_a: GO:0004983 ! neuropeptide Y receptor activity [Term] id: GO:0001602 name: pancreatic polypeptide receptor activity namespace: molecular_function def: "Combining with pancreatic polypeptide PP to initiate a change in cell activity." [PMID:9315606] is_a: GO:0004983 ! neuropeptide Y receptor activity [Term] id: GO:0001603 name: vasopressin-like receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001604 name: urotensin II receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001605 name: adrenomedullin receptor activity namespace: molecular_function def: "Combining with adrenomedullin to initiate a change in cell activity." [GOC:ai] narrow_synonym: "G10D receptor" [] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001606 name: GPR37/endothelin B-like receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001607 name: neuromedin U receptor activity namespace: molecular_function def: "Combining with neuromedin U to initiate a change in cell activity." [GOC:ai] exact_synonym: "NMUR activity" [] is_a: GO:0008188 ! neuropeptide receptor activity is_a: GO:0042924 ! neuromedin U binding [Term] id: GO:0001608 name: nucleotide receptor activity, G-protein coupled namespace: molecular_function def: "A GPCR that binds a nucleotide or nucleotide derivative as its ligand." [GOC:dph, IUPHAR:2.1.NUCT] exact_synonym: "G protein coupled nucleotide receptor activity" [] exact_synonym: "G-protein-coupled nucleotide receptor activity" [] exact_synonym: "nucleotide receptor activity, G protein coupled" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0001609 name: adenosine receptor activity, G-protein coupled namespace: molecular_function alt_id: GO:0008501 exact_synonym: "adenosine receptor activity, G protein coupled" [] exact_synonym: "G protein coupled adenosine receptor activity" [] exact_synonym: "G-protein-coupled adenosine receptor activity" [] broad_synonym: "adenosine nucleotide receptor" [] is_a: GO:0045028 ! purinergic nucleotide receptor activity, G-protein coupled [Term] id: GO:0001610 name: A1 adenosine receptor activity, G-protein coupled namespace: molecular_function exact_synonym: "A1 adenosine receptor activity, G protein coupled" [] exact_synonym: "G protein coupled A1 adenosine receptor activity" [] exact_synonym: "G-protein-coupled A1 adenosine receptor activity" [] is_a: GO:0001609 ! adenosine receptor activity, G-protein coupled [Term] id: GO:0001611 name: A2A adenosine receptor activity, G-protein coupled namespace: molecular_function exact_synonym: "A2A adenosine receptor activity, G protein coupled" [] exact_synonym: "G protein coupled A2A adenosine receptor activity" [] exact_synonym: "G-protein-coupled A2A adenosine receptor activity" [] is_a: GO:0001609 ! adenosine receptor activity, G-protein coupled [Term] id: GO:0001612 name: A2B adenosine receptor activity, G-protein coupled namespace: molecular_function exact_synonym: "A2B adenosine receptor activity, G protein coupled" [] exact_synonym: "G protein coupled A2B adenosine receptor activity" [] exact_synonym: "G-protein-coupled A2B adenosine receptor activity" [] is_a: GO:0001609 ! adenosine receptor activity, G-protein coupled [Term] id: GO:0001613 name: A3 adenosine receptor activity, G-protein coupled namespace: molecular_function exact_synonym: "A3 adenosine receptor activity, G protein coupled" [] exact_synonym: "G protein coupled A3 adenosine receptor activity" [] exact_synonym: "G-protein-coupled A3 adenosine receptor activity" [] is_a: GO:0001609 ! adenosine receptor activity, G-protein coupled [Term] id: GO:0001614 name: purinergic nucleotide receptor activity namespace: molecular_function exact_synonym: "purinoceptor" [] narrow_synonym: "P2Y receptor" [] is_a: GO:0016502 ! nucleotide receptor activity [Term] id: GO:0001615 name: thyrotropin releasing hormone and secretagogue-like receptors activity namespace: molecular_function is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0001616 name: growth hormone secretagogue receptor activity namespace: molecular_function is_a: GO:0001615 ! thyrotropin releasing hormone and secretagogue-like receptors activity [Term] id: GO:0001617 name: growth hormone secretagogue-like receptor activity namespace: molecular_function is_a: GO:0001615 ! thyrotropin releasing hormone and secretagogue-like receptors activity [Term] id: GO:0001618 name: viral receptor activity namespace: molecular_function def: "Combining with a virus component to initiate a change in cell activity." [GOC:dph] is_a: GO:0004872 ! receptor activity [Term] id: GO:0001619 name: lysosphingolipid and lysophosphatidic acid receptor activity namespace: molecular_function def: "Combining with lysosphingolipid or lysophosphatidic acid to initiate a change in cell activity." [GOC:dph] is_a: GO:0001584 ! rhodopsin-like receptor activity is_a: GO:0045125 ! bioactive lipid receptor activity [Term] id: GO:0001620 name: class A orphan receptor activity namespace: molecular_function def: "A G-protein coupled receptor that is structurally and functionally related to the rhodopsin receptor, but whose ligand is unknown." [GOC:dph] is_a: GO:0001584 ! rhodopsin-like receptor activity is_a: GO:0016526 ! G-protein coupled receptor activity, unknown ligand [Term] id: GO:0001621 name: platelet ADP receptor activity namespace: molecular_function narrow_synonym: "K101 receptor" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0001622 name: super conserved receptor expressed in brain receptor activity namespace: molecular_function exact_synonym: "SREB receptor" [] is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001623 name: Mas proto-oncogene receptor activity namespace: molecular_function is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001624 name: RDC1 receptor activity namespace: molecular_function is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001625 name: Epstein-Barr Virus-induced receptor activity namespace: molecular_function exact_synonym: "EBV-induced receptor" [] is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001626 name: nociceptin/orphanin-FQ receptor activity namespace: molecular_function exact_synonym: "ORPH receptor" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0001627 name: leucine-rich G-protein receptor-like receptor activity namespace: molecular_function exact_synonym: "leucine-rich G protein receptor-like receptor activity" [] exact_synonym: "LGR-like receptor" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0001628 name: gastropyloric receptor activity namespace: molecular_function exact_synonym: "GPR receptor" [] is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001629 name: G-protein receptor 45-like receptor activity namespace: molecular_function exact_synonym: "G protein receptor 45-like receptor activity" [] exact_synonym: "GPR45-like receptor" [] is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001630 name: GP40-like receptor activity namespace: molecular_function is_a: GO:0001620 ! class A orphan receptor activity [Term] id: GO:0001631 name: cysteinyl leukotriene receptor activity namespace: molecular_function def: "Combining with a cysteinyl leukotriene to initiate a change in cell activity. Cysteinyl leukotrienes are leukotrienes that contain a peptide moiety based on cysteine." [GOC:ai, ISBN:0198506732] exact_synonym: "CysLT receptor" [] is_a: GO:0004974 ! leukotriene receptor activity [Term] id: GO:0001632 name: leukotriene B4 receptor activity namespace: molecular_function def: "Combining with leukotriene B4, LTB4, to initiate a change in cell activity. Leukotriene B4 is also known as (6Z, 8E, 10E, 14Z)-(5S, 12R)-5,12-dihydroxyicosa-6,8,10,14-tetraen-1-oate." [GOC:ai, ISBN:0198506732] narrow_synonym: "BLT receptor" [] is_a: GO:0004974 ! leukotriene receptor activity [Term] id: GO:0001633 name: secretin-like receptor activity namespace: molecular_function def: "The group of G-protein coupled receptors that are structurally/functionally related to the secretin receptor." [IUPHAR:2.2] exact_synonym: "class B G protein coupled receptor" [] exact_synonym: "class B G-protein coupled receptor" [] exact_synonym: "class B GPCR" [] is_a: GO:0004930 ! G-protein coupled receptor activity [Term] id: GO:0001634 name: pituitary adenylate cyclase activating protein receptor activity namespace: molecular_function alt_id: GO:0016522 exact_synonym: "PACAP receptor" [] exact_synonym: "pituitary adenylate cyclase activating polypeptide receptor" [] exact_synonym: "pituitary adenylyl cyclase activating protein receptor activity" [] is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0001635 name: calcitonin gene-related polypeptide receptor activity namespace: molecular_function exact_synonym: "CGRP receptor" [] is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0001636 name: corticotrophin-releasing factor gastric inhibitory peptide-like receptor activity namespace: molecular_function is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0001637 name: G-protein chemoattractant receptor activity namespace: molecular_function exact_synonym: "G protein chemoattractant receptor activity" [] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001638 name: class B orphan receptor activity namespace: molecular_function is_a: GO:0001633 ! secretin-like receptor activity is_a: GO:0016526 ! G-protein coupled receptor activity, unknown ligand [Term] id: GO:0001639 name: PLC activating metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds glutamate and is linked to the inositol 1,4,5-trisphosphate/calcium signaling system." [PMID:9016303] related_synonym: "Group I metabotropic glutamate receptor" [] related_synonym: "group I metabotropic glutamate receptor activity" [] exact_synonym: "phospholipase C activating metabotropic glutamate receptor activity" [] is_a: GO:0008067 ! metabotropic glutamate, GABA-B-like receptor activity [Term] id: GO:0001640 name: adenylate cyclase inhibiting metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds glutamate and inhibits adenylate cyclase activity." [GOC:dph] exact_synonym: "adenylyl cyclase inhibiting metabotropic glutamate receptor activity" [] is_a: GO:0008067 ! metabotropic glutamate, GABA-B-like receptor activity [Term] id: GO:0001641 name: group II metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that is activated by trans-1-aminocyclopentane-1,3-dicarboxylic acid (t-ACPD) and inhibits adenylate cyclase activity." [GOC:dph] is_a: GO:0001640 ! adenylate cyclase inhibiting metabotropic glutamate receptor activity [Term] id: GO:0001642 name: group III metabotropic glutamate receptor activity namespace: molecular_function def: "A G-protein coupled receptor that is activated by L-AP-4 and inhibits adenylate cyclase activity." [PMID:9016303] is_a: GO:0001640 ! adenylate cyclase inhibiting metabotropic glutamate receptor activity [Term] id: GO:0001645 name: class C orphan receptor activity namespace: molecular_function alt_id: GO:0001643 def: "A G-protein coupled receptor that is structurally/functionally related to the metabotropic glutamate receptors and binds an unknown ligand." [GOC:dph] is_a: GO:0008067 ! metabotropic glutamate, GABA-B-like receptor activity is_a: GO:0016526 ! G-protein coupled receptor activity, unknown ligand [Term] id: GO:0001646 name: cAMP receptor activity namespace: molecular_function alt_id: GO:0001644 def: "Combining with cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate) to initiate a change in cell activity." [GOC:pg] exact_synonym: "3',5' cAMP receptor activity" [] exact_synonym: "3',5'-cAMP receptor activity" [] exact_synonym: "adenosine 3',5'-cyclophosphate receptor activity" [] exact_synonym: "cyclic AMP receptor activity" [] broad_synonym: "class E G protein coupled receptor" [] broad_synonym: "class E G-protein coupled receptor" [] broad_synonym: "class E GPCR" [] is_a: GO:0016502 ! nucleotide receptor activity is_a: GO:0030552 ! cAMP binding [Term] id: GO:0001647 name: G-protein coupled cytokinin receptor activity namespace: molecular_function def: "Combining with a cytokinin to initiate a change in cell activity. The receptor is G-protein coupled." [GOC:dph] exact_synonym: "G protein coupled cytokinin receptor activity" [] exact_synonym: "G-protein-coupled cytokinin receptor activity" [] is_a: GO:0004930 ! G-protein coupled receptor activity is_a: GO:0009884 ! cytokinin receptor activity [Term] id: GO:0001648 name: proteinase activated receptor activity namespace: molecular_function is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0001649 name: osteoblast differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an osteoblast, the mesodermal cell that gives rise to bone." [GOC:jic, http://cancerweb.ncl.ac.uk] exact_synonym: "osteoblast cell differentiation" [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001503 ! ossification [Term] id: GO:0001650 name: fibrillar center namespace: cellular_component def: "A structure found most metazoan nucleoli, but not usually found in lower eukaryotes; surrounded by the dense fibrillar component; the zone of transcription from multiple copies of the pre-rRNA genes is in the border region between these two structures." [PMID:10754561] exact_synonym: "fibrillar centre" [] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001651 name: dense fibrillar component namespace: cellular_component def: "A structure found in the nucleolus, which contains newly synthesized preribosomal RNA (pre-rRNA) and a collection of proteins." [PMID:10754561] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001652 name: granular component namespace: cellular_component def: "A structure found in the nucleolus, which contains nearly completed preribosomal particles destined for the cytoplasm." [PMID:10754561] is_a: GO:0044452 ! nucleolar part [Term] id: GO:0001653 name: peptide receptor activity namespace: molecular_function def: "Combining with an extracellular or intracellular peptide to initiate a change in cell activity." [GOC:jl] narrow_synonym: "endogenous peptide receptor activity" [] narrow_synonym: "exogenous peptide receptor activity" [] is_a: GO:0004872 ! receptor activity is_a: GO:0042277 ! peptide binding [Term] id: GO:0001654 name: eye development namespace: biological_process alt_id: GO:0042460 def: "The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. The eye is the organ of sight." [GOC:jic, GOC:jl] is_a: GO:0007423 ! sensory organ development [Term] id: GO:0001655 name: urogenital system development namespace: biological_process def: "The process whose specific outcome is the progression of the urogenital system over time, from its formation to the mature structure." [GOC:go_curators] is_a: GO:0048731 ! system development [Term] id: GO:0001656 name: metanephros development namespace: biological_process def: "The process whose specific outcome is the progression of the metanephros over time, from its formation to the mature structure. The metanephros is the excretory organ of the fetus which develops into the kidney and is formed from the rear portion of the nephrogenic cord." [ISBN:0192800752] is_a: GO:0001822 ! kidney development [Term] id: GO:0001657 name: ureteric bud development namespace: biological_process def: "The process whose specific outcome is the progression of the ureteric bud over time, from its formation to the mature structure." [GOC:go_curators] relationship: part_of GO:0001656 ! metanephros development [Term] id: GO:0001658 name: ureteric bud branching namespace: biological_process def: "Branching of the ureteric bud." [GOC:dph] is_a: GO:0048754 ! branching morphogenesis of a tube relationship: part_of GO:0001657 ! ureteric bud development [Term] id: GO:0001659 name: thermoregulation namespace: biological_process def: "The processes by which an organism modulates its internal body temperature." [GOC:jl] is_a: GO:0042592 ! homeostasis is_a: GO:0050874 ! organismal physiological process [Term] id: GO:0001660 name: fever namespace: biological_process def: "A rise in body temperature above the normal, often as a response to infection." [GOC:jl] broad_synonym: "pyrexia" [] is_a: GO:0006953 ! acute-phase response is_a: GO:0031649 ! heat generation [Term] id: GO:0001661 name: conditioned taste aversion namespace: biological_process def: "A conditioned aversion to a specific chemical compound as a result of that compound being coupled with a noxious stimulus." [GOC:dph, PMID:9920659] is_a: GO:0007631 ! feeding behavior is_a: GO:0008306 ! associative learning [Term] id: GO:0001662 name: behavioral fear response namespace: biological_process def: "An acute behavioral change resulting from a perceived external threat." [GOC:dph, PMID:9920659] exact_synonym: "behavioural fear response" [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0042596 ! fear response [Term] id: GO:0001663 name: physiological fear response namespace: biological_process def: "An acute physiological change resulting from a perceived external threat." [GOC:dph] is_a: GO:0042596 ! fear response [Term] id: GO:0001664 name: G-protein-coupled receptor binding namespace: molecular_function def: "Interacting selectively with a G-protein-coupled receptor." [GOC:ceb, GOC:dph] exact_synonym: "G protein coupled receptor binding" [] narrow_synonym: "G protein coupled receptor ligand" [] narrow_synonym: "G-protein-coupled receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0001665 name: alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + glycano-1,3-(N-acetyl-alpha-D-galactosaminyl)-glycoprotein = CMP + glycano-(2,6-alpha-N-acetylneuraminyl)-(N-acetyl-D-galactosaminyl)-glycoprotein." [EC:2.4.99.3] xref_analog: EC:2.4.99.3 xref_analog: MetaCyc:2.4.99.3-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0001666 name: response to hypoxia namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension." [GOC:hjd] exact_synonym: "response to hypoxic stress" [] exact_synonym: "response to lowered oxygen tension" [] is_a: GO:0006950 ! response to stress [Term] id: GO:0001667 name: ameboidal cell migration namespace: biological_process def: "Cell migration that is accomplished by extension and retraction of a pseudopodium." [GOC:dph] exact_synonym: "ameboidal cell migration" [] exact_synonym: "amoeboid cell migration" [] exact_synonym: "amoeboidal cell migration" [] is_a: GO:0016477 ! cell migration [Term] id: GO:0001668 name: phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: phosphatidylinositol-4,5-bisphosphate + H2O = phosphatidyl inositol-4-phosphate + phosphate." [MGD:ajp] xref_analog: EC:3.1.3.- is_a: GO:0004437 ! inositol or phosphatidylinositol phosphatase activity is_a: GO:0042577 ! lipid phosphatase activity [Term] id: GO:0001669 name: acrosome namespace: cellular_component def: "A structure in the head of a spermatozoon that contains acid hydrolases, and is concerned with the breakdown of the outer membrane of the ovum during fertilization. It lies just beneath the plama membrane and is derived from the lysosome." [ISBN:0124325653, ISBN:0198506732] is_a: GO:0005764 ! lysosome [Term] id: GO:0001670 name: dopamine D2 receptor activity namespace: molecular_function def: "A G-protein coupled receptor that binds dopamine and has the pharmacological characteristics of classic D2 receptors." [IUPHAR:2.1 DA 2] is_a: GO:0001591 ! dopamine D2 receptor-like receptor activity [Term] id: GO:0001671 name: ATPase stimulator activity namespace: molecular_function def: "Functions to increase the rate of ATP hydrolysis." [GOC:ajp] is_a: GO:0008047 ! enzyme activator activity [Term] id: GO:0001672 name: regulation of chromatin assembly or disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromatin assembly or disassembly." [GOC:go_curators] exact_synonym: "regulation of chromatin assembly/disassembly" [] is_a: GO:0051052 ! regulation of DNA metabolism is_a: GO:0051128 ! regulation of cell organization and biogenesis relationship: part_of GO:0006333 ! chromatin assembly or disassembly [Term] id: GO:0001673 name: male germ cell nucleus namespace: cellular_component def: "The nucleus of a male germ cell, a cell specialized to produce haploid gametes, and its descendents." [GOC:hjd, http://cancerweb.ncl.ac.uk] exact_synonym: "male germ-cell nucleus" [] is_a: GO:0043073 ! germ cell nucleus [Term] id: GO:0001674 name: female germ cell nucleus namespace: cellular_component def: "The nucleus of the female germ cell, a cell specialized to produce haploid gametes, and its descendents." [GOC:hjd, http://cancerweb.ncl.ac.uk] exact_synonym: "female germ-cell nucleus" [] is_a: GO:0043073 ! germ cell nucleus [Term] id: GO:0001675 name: acrosome formation namespace: biological_process def: "The formation of the acrosome from the spermatid Golgi." [GOC:hjd] relationship: part_of GO:0007286 ! spermatid development [Term] id: GO:0001676 name: long-chain fatty acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving long-chain fatty acids, aliphatic compounds having a terminal carboxyl group and with a chain length of C12-18." [GOC:ajp] subset: gosubset_prok is_a: GO:0006631 ! fatty acid metabolism [Term] id: GO:0001677 name: formation of translation initiation ternary complex namespace: biological_process def: "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:hjd] subset: gosubset_prok relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001678 name: cell glucose homeostasis namespace: biological_process def: "Any of the processes involved in the maintenance of an internal equilibrium of glucose within a cell or between a cell and its external environment." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019725 ! cell homeostasis is_a: GO:0042593 ! glucose homeostasis [Term] id: GO:0001680 name: tRNA 3'-terminal CCA addition namespace: biological_process def: "Post-transcriptional addition of the terminal 3' CCA sequence to a tRNA which does not encode this sequence within the primary transcript." [GOC:go_curators] subset: gosubset_prok is_a: GO:0042780 ! tRNA 3'-processing [Term] id: GO:0001681 name: sialate O-acetylesterase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-O-acetylneuraminate (free or glycosidically bound) + H2O = N-acetylneuraminate + acetate." [EC:3.1.1.53, PMID:1991039] subset: gosubset_prok exact_synonym: "sialate 9(4)-O-acetylesterase" [] xref_analog: EC:3.1.1.53 xref_analog: MetaCyc:SIALATE-O-ACETYLESTERASE-RXN is_a: GO:0008126 ! acetylesterase activity [Term] id: GO:0001682 name: tRNA 5'-leader removal namespace: biological_process def: "Generation of the mature 5'-end of the tRNA, usually via an endonucleolytic cleavage by RNase P." [PMID:11592395] subset: gosubset_prok exact_synonym: "tRNA 5' leader removal" [] is_a: GO:0008033 ! tRNA processing [Term] id: GO:0001683 name: axonemal dynein heavy chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'axonemal dynein complex ; GO:0005858'. is_obsolete: true [Term] id: GO:0001684 name: axonemal dynein intermediate chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'axonemal dynein complex ; GO:0005858'. is_obsolete: true [Term] id: GO:0001685 name: axonemal dynein intermediate light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'axonemal dynein complex ; GO:0005858'. is_obsolete: true [Term] id: GO:0001686 name: axonemal dynein light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'axonemal dynein complex ; GO:0005858'. is_obsolete: true [Term] id: GO:0001687 name: cytoplasmic dynein heavy chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'cytoplasmic dynein complex ; GO:0005868'. is_obsolete: true [Term] id: GO:0001688 name: cytoplasmic dynein intermediate chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'cytoplasmic dynein complex ; GO:0005868'. is_obsolete: true [Term] id: GO:0001689 name: cytoplasmic dynein intermediate light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'cytoplasmic dynein complex ; GO:0005868'. is_obsolete: true [Term] id: GO:0001690 name: cytoplasmic dynein light chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'cytoplasmic dynein complex ; GO:0005868'. is_obsolete: true [Term] id: GO:0001691 name: pseudophosphatase activity namespace: molecular_function def: "Maintains the phosphorylation state of certain molecules by associating with them and preventing them from associating with active phosphatases, and thus inhibiting the enzyme activity without interacting with the enzyme. Often pertains to proteins belonging to dual-specificity phosphatase family but lacking critical active site residues." [GOC:ajp] is_a: GO:0019212 ! phosphatase inhibitor activity [Term] id: GO:0001692 name: histamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] is_a: GO:0006576 ! biogenic amine metabolism is_a: GO:0042133 ! neurotransmitter metabolism is_a: GO:0046483 ! heterocycle metabolism [Term] id: GO:0001694 name: histamine biosynthesis namespace: biological_process alt_id: GO:0001693 def: "The chemical reactions and pathways resulting in the formation of histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] exact_synonym: "histamine anabolism" [] exact_synonym: "histamine formation" [] exact_synonym: "histamine synthesis" [] is_a: GO:0001692 ! histamine metabolism is_a: GO:0018130 ! heterocycle biosynthesis is_a: GO:0042136 ! neurotransmitter biosynthesis is_a: GO:0042401 ! biogenic amine biosynthesis [Term] id: GO:0001695 name: histamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of histamine, a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:jl, ISBN:0395825172] exact_synonym: "histamine breakdown" [] exact_synonym: "histamine degradation" [] is_a: GO:0001692 ! histamine metabolism is_a: GO:0042135 ! neurotransmitter catabolism is_a: GO:0042402 ! biogenic amine catabolism is_a: GO:0046700 ! heterocycle catabolism [Term] id: GO:0001696 name: gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:hjd] narrow_synonym: "hydrochloric acid secretion" [] is_a: GO:0046717 ! acid secretion relationship: part_of GO:0007586 ! digestion [Term] id: GO:0001697 name: histamine-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid induced by the interaction of histamine with H2 type receptor receptors with subsequent activation of adenylate cyclase and elevation of intracellular cyclic AMP." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001698 name: gastrin-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid induced by the interaction of gastrin with its receptor." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001699 name: acetylcholine-induced gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid by parietal cells in response to acetylcholine." [GOC:hjd] is_a: GO:0001696 ! gastric acid secretion [Term] id: GO:0001700 name: embryonic development (sensu Insecta) namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from zygote formation to the hatching of the first instar larva. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." [GOC:go_curators] is_a: GO:0009792 ! embryonic development (sensu Metazoa) [Term] id: GO:0001701 name: embryonic development (sensu Mammalia) namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from formation of the zygote to birth. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:go_curators] is_a: GO:0043009 ! embryonic development (sensu Vertebrata) [Term] id: GO:0001702 name: gastrulation (sensu Deuterostomia) namespace: biological_process def: "Gastrulation, as in, but not restricted to, the taxon Deuterostomia (Deuterostomia, ncbi_taxonomy_id:33511)." [GOC:go_curators] is_a: GO:0007369 ! gastrulation [Term] id: GO:0001703 name: gastrulation (sensu Protostomia) namespace: biological_process def: "Gastrulation, as in, but not restricted to, the taxon Protostomia (Protostomia, ncbi_taxonomy_id:33317)." [GOC:go_curators] is_a: GO:0007369 ! gastrulation [Term] id: GO:0001704 name: formation of primary germ layer namespace: biological_process def: "The formation of the ectoderm, mesoderm and endoderm during gastrulation." [GOC:go_curators] is_a: GO:0048646 ! anatomical structure formation relationship: part_of GO:0007369 ! gastrulation [Term] id: GO:0001705 name: ectoderm formation namespace: biological_process def: "The formation of ectoderm during gastrulation." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007398 ! ectoderm development [Term] id: GO:0001706 name: endoderm formation namespace: biological_process def: "The formation of the endoderm during gastrulation." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0007492 ! endoderm development [Term] id: GO:0001707 name: mesoderm formation namespace: biological_process def: "The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer relationship: part_of GO:0048332 ! mesoderm morphogenesis [Term] id: GO:0001708 name: cell fate specification namespace: biological_process def: "The process involved in the specification of cell identity. Once specification has taken place, a cell will be committed to differentiate down a specific pathway if left in its normal environment." [GOC:go_curators] relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0001709 name: cell fate determination namespace: biological_process def: "Process involved in cell fate commitment. Once determination has taken place, a cell becomes committed to differentiate down a particular pathway regardless of its environment." [ISBN:0878932437] relationship: part_of GO:0045165 ! cell fate commitment [Term] id: GO:0001710 name: mesodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the mesoderm." [GOC:go_curators, ISBN:0878932437] exact_synonym: "mesoderm cell fate commitment" [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0048333 ! mesodermal cell differentiation [Term] id: GO:0001711 name: endodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the endoderm." [GOC:go_curators, ISBN:0878932437] exact_synonym: "endoderm cell fate commitment" [] is_a: GO:0045165 ! cell fate commitment [Term] id: GO:0001712 name: ectodermal cell fate commitment namespace: biological_process def: "The process by which a cell becomes committed to become part of the ectoderm." [GOC:go_curators, ISBN:0878932437] exact_synonym: "ectoderm cell fate commitment" [] is_a: GO:0045165 ! cell fate commitment [Term] id: GO:0001713 name: ectodermal cell fate determination namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an ectoderm cell regardless of its environment; upon determination, the cell fate cannot be reversed." [GOC:go_curators, ISBN:0878932437] exact_synonym: "ectoderm cell fate determination" [] is_a: GO:0001709 ! cell fate determination relationship: part_of GO:0001705 ! ectoderm formation relationship: part_of GO:0001712 ! ectodermal cell fate commitment [Term] id: GO:0001714 name: endodermal cell fate specification namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an endoderm cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed." [GOC:go_curators] exact_synonym: "endoderm cell fate specification" [] is_a: GO:0001708 ! cell fate specification relationship: part_of GO:0001711 ! endodermal cell fate commitment [Term] id: GO:0001715 name: ectodermal cell fate specification namespace: biological_process def: "Process by which a cell becomes capable of differentiating autonomously into an ectoderm cell in an environment that is neutral with respect to the developmental pathway; upon specification, the cell fate can be reversed." [GOC:go_curators] exact_synonym: "ectoderm cell fate specification" [] is_a: GO:0001708 ! cell fate specification relationship: part_of GO:0001712 ! ectodermal cell fate commitment [Term] id: GO:0001716 name: L-amino-acid oxidase activity namespace: molecular_function def: "Catalysis of the reaction: a L-amino acid + H2O + O2 = a 2-oxo acid + NH3 + H2O2." [EC:1.4.3.2] subset: gosubset_prok xref_analog: EC:1.4.3.2 xref_analog: MetaCyc:L-AMINO-ACID-OXIDASE-RXN is_a: GO:0016641 ! oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor [Term] id: GO:0001717 name: conversion of seryl-tRNAsec to selenocys-tRNAsec namespace: biological_process def: "Process whereby serine carried by a specialized tRNA(ser) (which can read a UGA anticodon) is converted to selenocysteine." [ISBN:155581073X] subset: gosubset_prok is_a: GO:0019988 ! charged-tRNA modification [Term] id: GO:0001718 name: conversion of met-tRNAf to fmet-tRNA namespace: biological_process def: "The process whereby methionine carried by an initiator methionine tRNA is N-formylated." [ISBN:155581073X] subset: gosubset_prok is_a: GO:0019988 ! charged-tRNA modification relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001720 name: conversion of lysyl-tRNA to pyrrolysyl-tRNA namespace: biological_process def: "Process whereby lysine carried by a specialized lysine-accepting tRNA (possessing a CUA anticodon) is converted to pyrrolysine (a lysine with an amide linkage to a (4R,5R)-4-substituted pyrroline-5-carboxylate)." [PMID:12029131, PMID:12029132, PMID:12121639] subset: gosubset_prok is_a: GO:0019988 ! charged-tRNA modification [Term] id: GO:0001721 name: intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Proteins that associate with intermediate filaments and function in the supramolecular organization of cellular intermediate filament networks." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'intermediate filament ; GO:0005882'. exact_synonym: "IFAP" [] is_obsolete: true [Term] id: GO:0001722 name: type I intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Low molecular weight (10-45 kDa) proteins that associate with intermediate filaments by lateral binding of the filaments and have the effect of creating tight macrofilament aggregates." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'intermediate filament ; GO:0005882'. is_obsolete: true [Term] id: GO:0001723 name: type II intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. High molecular weight (100-300 kDa) proteins that associate with intermediate filaments to cross-link them into loose networks." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'intermediate filament ; GO:0005882'. is_obsolete: true [Term] id: GO:0001724 name: type III intermediate filament associated protein namespace: cellular_component def: "OBSOLETE. Proteins that associate with the ends of intermediate filaments and couple the intermediate filaments to the plasma membrane." [GOC:ajp, PMID:9484600] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'type III intermediate filament ; GO:0045098'. is_obsolete: true [Term] id: GO:0001725 name: stress fiber namespace: cellular_component def: "Bundle of microfilaments and other proteins found in fibroblasts." [ISBN:0124325653] exact_synonym: "stress fibre" [] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0001726 name: ruffle namespace: cellular_component def: "Projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork." [ISBN:0124325653] related_synonym: "membrane ruffle" [] is_a: GO:0042995 ! cell projection relationship: part_of GO:0031252 ! leading edge [Term] id: GO:0001727 name: lipid kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of a simple or complex lipid." [GOC:hjd] subset: gosubset_prok is_a: GO:0016301 ! kinase activity [Term] id: GO:0001729 name: ceramide kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + ceramide = ADP + ceramide 1-phosphate." [EC:2.7.1.138] exact_synonym: "acylsphingosine kinase" [] xref_analog: EC:2.7.1.138 xref_analog: MetaCyc:CERAMIDE-KINASE-RXN is_a: GO:0001727 ! lipid kinase activity [Term] id: GO:0001730 name: 2'-5'-oligoadenylate synthetase activity namespace: molecular_function def: "Catalysis of the reaction: ATP = pppA(2'p5'A)n oligomers. Requires binding of double-stranded RNA." [ISBN:0198506732] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. exact_synonym: "(2-5')oligo(A) synthetase" [] exact_synonym: "2'-5' oligoadenylate synthetase activity" [] exact_synonym: "2-5A synthetase" [] exact_synonym: "oligo-2',5'-adenylate synthetase" [] is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0001731 name: formation of translation preinitiation complex namespace: biological_process def: "The joining of the small ribosomal subunit, ternary complex, and mRNA." [GOC:hjd] comment: See also the cellular component terms 'eukaryotic 43S preinitiation complex ; GO:0016282', 'eukaryotic 48S initiation complex ; GO:0016283', and their children. subset: gosubset_prok exact_synonym: "formation of translation pre-initiation complex" [] relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001732 name: formation of translation initiation complex namespace: biological_process def: "Joining of the large subunit, with release of IF2/eIF2 and IF3/eIF3. This leaves the functional ribosome at the AUG, with the methionyl/formyl-methionyl-tRNA positioned at the P site." [GOC:hjd] subset: gosubset_prok relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0001733 name: galactosylceramide sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + a galactosylceramide = adenosine 3',5'-bisphosphate + a galactosylceramidesulfate." [EC:2.8.2.11, PMID:10727929] exact_synonym: "cerebroside sulfotransferase activity" [] exact_synonym: "galactosylceramide sulphotransferase activity" [] xref_analog: EC:2.8.2.11 xref_analog: MetaCyc:GALACTOSYLCERAMIDE-SULFOTRANSFERASE-RXN is_a: GO:0050694 ! galactose 3-O-sulfotransferase activity [Term] id: GO:0001734 name: mRNA (N6-adenosine)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + RRACH = S-adenosyl-L-homocysteine + RRm6ACH; R = purine, and H = C, A, or U." [GOC:hjd] xref_analog: Reactome:118319 xref_analog: Reactome:2399 xref_analog: Reactome:72094 is_a: GO:0008174 ! mRNA methyltransferase activity [Term] id: GO:0001735 name: prenylcysteine oxidase activity namespace: molecular_function def: "Catalysis of the reaction: S-prenyl-L-cysteine + O2 + H20 = a prenal + L-cysteine + H202." [GOC:hjd] exact_synonym: "prenylcysteine lyase" [] xref_analog: EC:1.8.3.5 xref_analog: MetaCyc:1.8.3.5-RXN is_a: GO:0016670 ! oxidoreductase activity, acting on sulfur group of donors, oxygen as acceptor [Term] id: GO:0001736 name: establishment of planar polarity namespace: biological_process def: "Coordinated organization of groups of cells in the plane of an epithelium, such that they all orient to similar coordinates." [GOC:dph] narrow_synonym: "establishment of planar cell polarity" [] is_a: GO:0007164 ! establishment of tissue polarity relationship: part_of GO:0001738 ! morphogenesis of a polarized epithelium [Term] id: GO:0001737 name: establishment of wing hair orientation namespace: biological_process def: "Orientation of hairs in the wing along a proximal-distal axis, such that each cell of the wing produces one wing hair which points in a distal direction." [PMID:11239465] is_a: GO:0001736 ! establishment of planar polarity relationship: part_of GO:0035317 ! wing hair organization and biogenesis [Term] id: GO:0001738 name: morphogenesis of a polarized epithelium namespace: biological_process def: "The process by which the anatomical structures of polarized epithelium are generated and organized. Morphogenesis pertains to the creation of form. A polarized epithelium is an epithelium where the epithelial sheet is oriented with respect to the planar axis." [GOC:dph] is_a: GO:0002009 ! morphogenesis of an epithelium [Term] id: GO:0001739 name: sex chromatin namespace: cellular_component def: "A condensed mass of chromatin that represents an inactivated X chromosome." [ISBN:0198506732] is_a: GO:0005720 ! nuclear heterochromatin relationship: part_of GO:0000803 ! sex chromosome [Term] id: GO:0001740 name: Barr body namespace: cellular_component def: "A structure found in a female mammalian cell containing an unpaired X chromosome that has become densely heterochromatic, silenced and localized at the nuclear periphery." [GOC:hjd] is_a: GO:0000805 ! X chromosome is_a: GO:0001739 ! sex chromatin [Term] id: GO:0001741 name: XY body namespace: cellular_component def: "A structure found in a male mammalian spermatocyte containing an unpaired X chromosome that has become densely heterochromatic, silenced and localized at the nuclear periphery." [GOC:hjd] is_a: GO:0001739 ! sex chromatin [Term] id: GO:0001742 name: oenocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an oenocyte. Oenocytes are large secretory cells found in clusters underlying the epidermis of larval abdominal segments." [GOC:go_curators] exact_synonym: "oenocyte cell differentiation" [] is_a: GO:0030154 ! cell differentiation [Term] id: GO:0001743 name: optic placode formation namespace: biological_process def: "The initial developmental process that will lead to the formation of an eye." [GOC:dph] is_a: GO:0048598 ! embryonic morphogenesis is_a: GO:0048646 ! anatomical structure formation [Term] id: GO:0001744 name: optic placode formation (sensu Endopterygota) namespace: biological_process alt_id: GO:0007457 def: "Establishment of the optic placode, a thickened area of densely packed ectoderm cells directly overlying the optic vesicle in the early embryo. In Droosphila for example, the placode appears in the dorsolateral region of the head in late stage 11 embryos and is the precursor to the larval visual system. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [PMID:8402833] exact_synonym: "optic lobe placode development (sensu Drosophila)" [] is_a: GO:0001743 ! optic placode formation is_a: GO:0048049 ! embryonic eye morphogenesis (sensu Endopterygota) [Term] id: GO:0001745 name: compound eye morphogenesis (sensu Endopterygota) namespace: biological_process def: "The process by which the anatomical structures of the compound eye are generated and organized. Morphogenesis pertains to the creation of form. The adult compound eye is a precise assembly of 700-800 ommatidia. Each ommatidia is composed of 20 cells, identified by cell type and position. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [GOC:dph] is_a: GO:0048748 ! eye morphogenesis (sensu Endopterygota) relationship: part_of GO:0007455 ! eye-antennal disc morphogenesis relationship: part_of GO:0048749 ! compound eye development (sensu Endopterygota) [Term] id: GO:0001746 name: Bolwig's organ morphogenesis namespace: biological_process def: "The process by which the anatomical structures of the larval eye in Drosophila are generated and organized. Morphogenesis pertains to the creation of form. The larval eye in Drosophila is a relatively simple sensory system composed of Bolwig's organs: two clusters, each composed of 12 photoreceptor cells from which axons extend in a single fascicle to the brain." [http://sdb.bio.purdue.edu/fly/torstoll/tailess.htm#bolwigs, PMID:6185380] exact_synonym: "Bolwig's organ development" [] is_a: GO:0048748 ! eye morphogenesis (sensu Endopterygota) [Term] id: GO:0001747 name: eye development (sensu Mammalia) namespace: biological_process def: "The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:dph] is_a: GO:0043010 ! eye development (sensu Vertebrata) [Term] id: GO:0001748 name: optic placode development (sensu Endopterygota) namespace: biological_process def: "The process whose specific outcome is the progression of the optic placode over time, from its formation to the mature structure. During embryonic stage 12 the placode starts to invaginate, forming a pouch. Cells that will form Bolwig's organ segregate from the ventral lip of this pouch, remaining in the head epidermis. The remainder of the invagination loses contact with the outer surface and becomes the optic lobe. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [PMID:8402833] relationship: part_of GO:0001746 ! Bolwig's organ morphogenesis [Term] id: GO:0001749 name: non-eye photoreceptor development (sensu Endopterygota) namespace: biological_process def: "The process whose specific outcome is the progression of the non-eye photoreceptor over time, from its formation to the mature structure. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [GOC:go_curators] is_a: GO:0008594 ! photoreceptor cell morphogenesis (sensu Endopterygota) is_a: GO:0042463 ! non-eye photoreceptor cell development [Term] id: GO:0001750 name: photoreceptor outer segment namespace: cellular_component def: "The outer segment of a vertebrate photoreceptor that contains discs of photoreceptive membranes." [ISBN:0824072820] is_a: GO:0031513 ! nonmotile primary cilium [Term] id: GO:0001751 name: eye photoreceptor cell differentiation (sensu Endopterygota) namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of an eye photoreceptor cell. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [GOC:go_curators] is_a: GO:0001754 ! eye photoreceptor cell differentiation is_a: GO:0007467 ! photoreceptor cell differentiation (sensu Endopterygota) relationship: part_of GO:0001745 ! compound eye morphogenesis (sensu Endopterygota) [Term] id: GO:0001752 name: eye photoreceptor fate commitment (sensu Endopterygota) namespace: biological_process def: "Cell commitment of the eye photoreceptors in the fly. As in, but not restricted to, the Holometabola (Endopterygota, ncbi_taxonomy_id:33392)." [GOC:go_curators] is_a: GO:0007459 ! photoreceptor fate commitment (sensu Endopterygota) is_a: GO:0042706 ! eye photoreceptor cell fate commitment relationship: part_of GO:0001751 ! eye photoreceptor cell differentiation (sensu Endopterygota) [Term] id: GO:0001753 name: adult eye photoreceptor development (sensu Drosophila) namespace: biological_process def: "OBSOLETE. Development of a photoreceptor, a receptor that responds to light, in the adult Drosophila eye." [GOC:go_curators] comment: This term was made obsolete because eye photoreceptors have completed their development by the time the adult phase begins. To update annotations, consider the biological process term 'eye photoreceptor development (sensu Endopterygota) ; GO:0042051'. is_obsolete: true [Term] id: GO:0001754 name: eye photoreceptor cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a photoreceptor cell, as found in the eye, the primary visual organ of most organisms." [GOC:go_curators] is_a: GO:0046530 ! photoreceptor cell differentiation relationship: part_of GO:0048592 ! eye morphogenesis [Term] id: GO:0001755 name: neural crest cell migration namespace: biological_process def: "The characteristic movement of cells from the dorsal ridge of the neural tube to a variety of locations in a vertebrate embryo." [ISBN:0878932437] is_a: GO:0016477 ! cell migration relationship: part_of GO:0014032 ! neural crest cell development [Term] id: GO:0001756 name: somitogenesis namespace: biological_process def: "The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." [ISBN:0721662544] is_a: GO:0009952 ! anterior/posterior pattern formation is_a: GO:0035282 ! segmentation relationship: part_of GO:0043009 ! embryonic development (sensu Vertebrata) [Term] id: GO:0001757 name: somite specification namespace: biological_process def: "The process by which individual somites establish identity during embryogenesis." [GOC:dph] is_a: GO:0007379 ! segment specification relationship: part_of GO:0001756 ! somitogenesis [Term] id: GO:0001758 name: retinal dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: retinal + NAD+ + H2O = retinoate + NADH. Acts on both 11-trans and 13-cis forms of retinal." [EC:1.2.1.36] xref_analog: EC:1.2.1.36 xref_analog: MetaCyc:RETINAL-DEHYDROGENASE-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0001759 name: induction of an organ namespace: biological_process def: "The close range interaction of two or more cells or tissues that causes them to change their fates and specify the development of an organ." [ISBN:0878932437] is_a: GO:0010092 ! specification of organ identity is_a: GO:0031128 ! induction [Term] id: GO:0001760 name: aminocarboxymuconate-semialdehyde decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: 2-amino-3-(3-oxoprop-2-enyl)-but-2-enedioate = 2-aminomuconate semialdehyde + CO2." [EC:4.1.1.45] subset: gosubset_prok exact_synonym: "picolinic acid decarboxylase" [] xref_analog: EC:4.1.1.45 xref_analog: MetaCyc:4.1.1.45-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0001761 name: beta-alanine transporter activity namespace: molecular_function def: "Enables the directed movement of beta-alanine, 3-aminopropanoic acid, into, out of, within or between cells." [GOC:hjd] is_a: GO:0015175 ! neutral amino acid transporter activity [Term] id: GO:0001762 name: beta-alanine transport namespace: biological_process def: "The directed movement of beta-alanine, 3-aminopropanoic acid, into, out of, within or between cells." [GOC:hjd] is_a: GO:0015804 ! neutral amino acid transport [Term] id: GO:0001763 name: morphogenesis of a branching structure namespace: biological_process def: "The process by which the anatomical structures of branches are generated and organized. Morphogenesis pertains to the creation of form. A branch is a division or offshoot from a main stem. Examples in animals would include blood vessels, nerves, lymphatics and other endothelial or epithelial tubes." [ISBN:0721662544] is_a: GO:0009653 ! morphogenesis [Term] id: GO:0001764 name: neuron migration namespace: biological_process def: "The characteristic movement of immature neurons from germinal zones to specific positions where they will reside as they mature." [GOC:go_curators] exact_synonym: "neuronal migration" [] is_a: GO:0016477 ! cell migration relationship: part_of GO:0048699 ! generation of neurons [Term] id: GO:0001765 name: lipid raft formation namespace: biological_process def: "Formation of tightly-packed gel-like membrane microdomains enriched in sphingolipids and cholesterol." [PMID:12648772, PMID:12803918] is_a: GO:0031579 ! lipid raft organization and biogenesis [Term] id: GO:0001766 name: lipid raft polarization namespace: biological_process def: "The clustering and aggregation of lipid rafts at a single cellular pole during activation of particular cell types, such as lymphocytes." [PMID:12615889] is_a: GO:0031580 ! lipid raft distribution [Term] id: GO:0001767 name: establishment of lymphocyte polarity namespace: biological_process def: "The directed orientation of lymphocyte signaling molecules and associated lipid rafts towards a chemokine gradient or a contact point with an appropriate activating cell." [GOC:mgi_curators, PMID:11244041, PMID:12615889] is_a: GO:0030010 ! establishment of cell polarity relationship: part_of GO:0046649 ! lymphocyte activation [Term] id: GO:0001768 name: establishment of T cell polarity namespace: biological_process def: "The directed orientation of T cell signaling molecules and associated lipid rafts towards a chemokine gradient or a contact point with antigen presenting cell." [GOC:mgi_curators, PMID:11244041, PMID:12615889] exact_synonym: "establishment of T lymphocyte polarity" [] exact_synonym: "establishment of T-cell polarity" [] exact_synonym: "establishment of T-lymphocyte polarity" [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0042110 ! T cell activation [Term] id: GO:0001769 name: establishment of B cell polarity namespace: biological_process def: "The directed orientation of B cell signaling molecules and associated lipid rafts towards a chemokine gradient of a contact point with an antigen displaying cell." [GOC:mgi_curators, PMID:12615889, PMID:9692889] comment: Note that 'antigen displaying cell' in this term encompasses cell types such as follicular dendritic cells which display the unprocessed antigens of a B cell, leading to activation of the B cells and antigen uptake and processing by the B cells. exact_synonym: "establishment of B lymphocyte polarity" [] exact_synonym: "establishment of B-cell polarity" [] exact_synonym: "establishment of B-lymphocyte polarity" [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0042113 ! B cell activation [Term] id: GO:0001770 name: establishment of natural killer cell polarity namespace: biological_process def: "The directed orientation of natural killer cell signaling molecules and associated lipid rafts towards a chemokine gradient or a contact point with a cell displaying natural killer cell activating ligands." [GOC:mgi_curators, PMID:12615886, PMID:9759849] exact_synonym: "establishment of NK cell polarity" [] is_a: GO:0001767 ! establishment of lymphocyte polarity relationship: part_of GO:0030101 ! natural killer cell activation [Term] id: GO:0001771 name: formation of immunological synapse namespace: biological_process def: "The formation of an area of close contact between a lymphocyte (T-, B-, or natural killer cell) and a target cell through the clustering of particular signaling and adhesion molecules and their associated lipid rafts on both the lymphocyte and target cell, which facilitates activation of the lymphocyte, transfer of membrane from the target cell to the lymphocyte, and in some situations killing of the target cell through release of secretory granules and/or death-pathway ligand-receptor interaction." [GOC:mgi_curators, PMID:11244041, PMID:11376330] is_a: GO:0009988 ! cell-cell recognition relationship: part_of GO:0046649 ! lymphocyte activation [Term] id: GO:0001772 name: immunological synapse namespace: cellular_component def: "An area of close contact between a lymphocyte (T-, B-, or natural killer cell) and a target cell formed through the clustering of particular signaling and adhesion molecules and their associated lipid rafts on both the lymphocyte and the target cell and facilitating activation of the lymphocyte, transfer of membrane from the target cell to the lymphocyte, and in some situations killing of the target cell through release of secretory granules and/or death-pathway ligand-receptor interaction." [GOC:mgi_curators, PMID:11244041, PMID:11376300] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0001773 name: myeloid dendritic cell activation namespace: biological_process def: "The change in morphology and behavior of a dendritic cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, ISBN:0781735149] is_a: GO:0002274 ! myeloid leukocyte activation [Term] id: GO:0001774 name: microglial cell activation namespace: biological_process def: "The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, PMID:10626665, PMID:10695728, PMID:12580336, PMID:9893949] is_a: GO:0042116 ! macrophage activation [Term] id: GO:0001775 name: cell activation namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:mgi_curators] is_a: GO:0050874 ! organismal physiological process [Term] id: GO:0001776 name: leukocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of cells of the immune system such that the total number of cells of a particular cell type within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, ISBN:0781735149] comment: Note that this term represents the return of immune system cell levels to stable numbers following an immune response as well as the proliferation and elimination of cells of the immune system required to maintain stable numbers in the absence of an outside stimulus. exact_synonym: "immune cell homeostasis" [] exact_synonym: "leucocyte homeostasis" [] is_a: GO:0001894 ! tissue homeostasis is_a: GO:0002376 ! immune system process [Term] id: GO:0001777 name: T cell homeostatic proliferation namespace: biological_process def: "The non-specific expansion of T cell populations within a whole or part of an organism to reach to a total number of T cells which will then remain stable over time in the absence of an external stimulus." [GOC:mgi_curators, ISBN:0781735149] exact_synonym: "resting T cell proliferation" [] exact_synonym: "resting T-cell proliferation" [] exact_synonym: "T lymphocyte homeostatic proliferation" [] exact_synonym: "T-cell homeostatic proliferation" [] exact_synonym: "T-lymphocyte homeostatic proliferation" [] is_a: GO:0042098 ! T cell proliferation relationship: part_of GO:0043029 ! T cell homeostasis [Term] id: GO:0001778 name: plasma membrane repair namespace: biological_process def: "The resealing of a cell plasma membrane after cellular wounding due to, for instance, mechanical stress." [GOC:add, PMID:12925704] is_a: GO:0007009 ! plasma membrane organization and biogenesis relationship: part_of GO:0042060 ! wound healing [Term] id: GO:0001779 name: natural killer cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a natural killer cell." [GOC:add, ISBN:0781735149] exact_synonym: "NK cell differentiation" [] is_a: GO:0030098 ! lymphocyte differentiation is_a: GO:0030101 ! natural killer cell activation [Term] id: GO:0001780 name: neutrophil homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of neutrophils such that the total number of neutrophils within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:12752675, PMID:12960266] comment: Note that this term represents the return of neutrophil levels to stable numbers following an immune response as well as the proliferation and elimination of neutrophils required to maintain stable numbers in the absence of an outside stimulus. is_a: GO:0002262 ! myeloid cell homeostasis [Term] id: GO:0001781 name: neutrophil apoptosis namespace: biological_process def: "The process of apoptosis in neutrophils." [GOC:add, PMID:12752675, PMID:12960266] exact_synonym: "apoptosis of neutrophils" [] exact_synonym: "neutrophil programmed cell death by apoptosis" [] exact_synonym: "programmed cell death of neutrophils by apoptosis" [] exact_synonym: "programmed cell death, neutrophils" [] is_a: GO:0006915 ! apoptosis relationship: part_of GO:0001780 ! neutrophil homeostasis [Term] id: GO:0001782 name: B cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of B cells such that the total number of B cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, ISBN:0781735149, PMID:12956429] comment: Note that this term represents the return of B cell levels to stable numbers following an immune response as well as the proliferation and elimination of B cells required to maintain stable numbers in the absence of an outside stimulus. exact_synonym: "B lymphocyte homeostasis" [] exact_synonym: "B-cell homeostasis" [] exact_synonym: "B-lymphocyte homeostasis" [] is_a: GO:0002260 ! lymphocyte homeostasis [Term] id: GO:0001783 name: B cell apoptosis namespace: biological_process def: "The process of apoptosis in B cells." [GOC:add, ISBN:0781735149] exact_synonym: "apoptosis of B cells" [] exact_synonym: "apoptosis of B lymphocytes" [] exact_synonym: "apoptosis of B-cells" [] exact_synonym: "apoptosis of B-lymphocytes" [] exact_synonym: "B cell programmed cell death by apoptosis" [] exact_synonym: "B lymphocyte apoptosis" [] exact_synonym: "B lymphocyte programmed cell death by apoptosis" [] exact_synonym: "B-cell apoptosis" [] exact_synonym: "B-cell programmed cell death by apoptosis" [] exact_synonym: "B-lymphocyte apoptosis" [] exact_synonym: "B-lymphocyte programmed cell death by apoptosis" [] exact_synonym: "programmed cell death of B cells by apoptosis" [] exact_synonym: "programmed cell death of B lymphocytes by apoptosis" [] exact_synonym: "programmed cell death of B-cells by apoptosis" [] exact_synonym: "programmed cell death of B-lymphocytes by apoptosis" [] exact_synonym: "programmed cell death, B cells" [] exact_synonym: "programmed cell death, B lymphocytes" [] exact_synonym: "programmed cell death, B-cells" [] exact_synonym: "programmed cell death, B-lymphocytes" [] is_a: GO:0006915 ! apoptosis [Term] id: GO:0001784 name: phosphotyrosine binding namespace: molecular_function def: "Interacting selectively with a phosphorylated tyrosine residue within a protein." [PMID:14636584] is_a: GO:0045309 ! protein phosphorylated amino acid binding [Term] id: GO:0001785 name: prostaglandin J receptor activity namespace: molecular_function def: "Combining with prostaglandin J (PGJ(2)), a metabolite of prostaglandin D (PGD(2)) to initiate a change in cell activity." [PMID:12878180] related_synonym: "PGJ receptor activity" [] exact_synonym: "PGJ(2) receptor activity" [] is_a: GO:0004955 ! prostaglandin receptor activity [Term] id: GO:0001786 name: phosphatidylserine binding namespace: molecular_function def: "Interacting selectively with phosphatidylserine, a class of glycophospholipids in which a phosphatidyl group is esterified to the hydroxyl group of L-serine." [ISBN:0198506732, PMID:12000961] is_a: GO:0005543 ! phospholipid binding [Term] id: GO:0001787 name: natural killer cell proliferation namespace: biological_process def: "The rapid expansion of a natural killer cell population by cell division." [GOC:add, ISBN:0781735149] exact_synonym: "NK cell proliferation" [] is_a: GO:0030101 ! natural killer cell activation is_a: GO:0046651 ! lymphocyte proliferation [Term] id: GO:0001788 name: antibody-dependent cellular cytotoxicity namespace: biological_process def: "Cytolysis of target cells by natural killer cells, eosinophils, neutrophils, monocytes, or macrophages following engagement of antibodies bound to the target cells by Fc receptors on the effector cells." [ISBN:0781735149, PMID:11677095, PMID:9581795] exact_synonym: "ADCC" [] exact_synonym: "antibody dependent cell death" [] exact_synonym: "antibody dependent cell killing" [] exact_synonym: "antibody-dependent cell death" [] exact_synonym: "antibody-dependent cell killing" [] exact_synonym: "type VI hypersensitivity" [] is_a: GO:0001794 ! type IIa hypersensitivity is_a: GO:0001909 ! leukocyte mediated cytotoxicity is_a: GO:0006917 ! induction of apoptosis [Term] id: GO:0001789 name: G-protein signaling, coupled to S1P second messenger (sphingosine kinase activating) namespace: biological_process def: "A G-protein coupled signaling pathway that results in the activation of sphingosine kinase, causing an increase in cellular levels of sphingosine-1-phosphate." [GOC:dph, PMID:14592418] exact_synonym: "G protein signaling, coupled to S1P second messenger (sphingosine kinase activating)" [] exact_synonym: "G protein signalling, coupled to S1P second messenger (sphingosine kinase activating)" [] exact_synonym: "G-protein signalling, coupled to S1P second messenger (sphingosine kinase activating)" [] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway [Term] id: GO:0001790 name: polymeric immunoglobulin binding namespace: molecular_function def: "Interacting selectively with a J-chain-containing polymeric immunoglobulin of the IgA or IgM isotypes." [GOC:add, ISBN:0781735149] is_a: GO:0019865 ! immunoglobulin binding [Term] id: GO:0001791 name: IgM binding namespace: molecular_function def: "Interacting selectively with an immunoglobulin of the IgM isotype." [GOC:add, ISBN:0781735149] is_a: GO:0019865 ! immunoglobulin binding [Term] id: GO:0001792 name: polymeric immunoglobulin receptor activity namespace: molecular_function def: "Combining with a J-chain-containing polymeric immunoglobulin of the IgA or IgM isotypes via the Fc region to initiate a change in cell activity." [GOC:add, ISBN:0781735149] broad_synonym: "immunoglobulin receptor activity" [] is_a: GO:0001790 ! polymeric immunoglobulin binding is_a: GO:0019763 ! immunoglobulin receptor activity [Term] id: GO:0001793 name: IgM receptor activity namespace: molecular_function def: "Combining with an immunoglobulin of the IgM isotype via the Fc region to initiate a change in cell activity." [GOC:add, ISBN:0781735149] is_a: GO:0001791 ! IgM binding is_a: GO:0019763 ! immunoglobulin receptor activity [Term] id: GO:0001794 name: type IIa hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death mediated by activation of the classical complement pathway or induction of effector cell phagocytosis or cytolysis mechanisms via complement or Fc receptors following the binding of antibodies to cell surface antigens on a target cell." [GOC:add, ISBN:0781735149] comment: Note that some type IIb hypersensitivity responses (GO:0001795) are referred to simply as type II hypersensitivity in the earlier literature, but are mechanistically distinct from type IIa hypersensitivity. broad_synonym: "type II hypersensitivity" [] is_a: GO:0002445 ! type II hypersensitivity [Term] id: GO:0001795 name: type IIb hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death or dysfunction mediated by the direct binding of antibody to cellular receptors." [GOC:add, ISBN:0781735149] comment: Note that some type IIa hypersensitivity response (GO:0001794) are referred to simply as type II hypersensitivity in the earlier literature, but are mechanistically distinct from type IIb hypersensitivity. exact_synonym: "type V hypersensitivity" [] broad_synonym: "type II hypersensitivity" [] is_a: GO:0002445 ! type II hypersensitivity [Term] id: GO:0001796 name: regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002892 ! regulation of type II hypersensitivity relationship: part_of GO:0001794 ! type IIa hypersensitivity [Term] id: GO:0001797 name: negative regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001796 ! regulation of type IIa hypersensitivity is_a: GO:0002893 ! negative regulation of type II hypersensitivity [Term] id: GO:0001798 name: positive regulation of type IIa hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IIa hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001796 ! regulation of type IIa hypersensitivity is_a: GO:0002894 ! positive regulation of type II hypersensitivity [Term] id: GO:0001799 name: regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002892 ! regulation of type II hypersensitivity relationship: part_of GO:0001795 ! type IIb hypersensitivity [Term] id: GO:0001800 name: negative regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001799 ! regulation of type IIb hypersensitivity is_a: GO:0002893 ! negative regulation of type II hypersensitivity [Term] id: GO:0001801 name: positive regulation of type IIb hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IIb hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001799 ! regulation of type IIb hypersensitivity is_a: GO:0002894 ! positive regulation of type II hypersensitivity [Term] id: GO:0001802 name: type III hypersensitivity namespace: biological_process def: "An inflammatory response resulting from recognition of immune complexes via complement or Fc receptors on effector cells leading to activation of neutrophils and other leukocytes and damage to bystander tissue." [GOC:add, ISBN:0781735149] comment: Note that the Arthus reaction is an example of type III hypersensitivity. is_a: GO:0002444 ! myeloid leukocyte mediated immunity is_a: GO:0002524 ! hypersensitivity is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0001803 name: regulation of type III hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002883 ! regulation of hypersensitivity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response relationship: part_of GO:0001802 ! type III hypersensitivity [Term] id: GO:0001804 name: negative regulation of type III hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001803 ! regulation of type III hypersensitivity is_a: GO:0002884 ! negative regulation of hypersensitivity is_a: GO:0002887 ! negative regulation of myeloid leukocyte mediated immunity is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response [Term] id: GO:0001805 name: positive regulation of type III hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type III hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001803 ! regulation of type III hypersensitivity is_a: GO:0002885 ! positive regulation of hypersensitivity is_a: GO:0002888 ! positive regulation of myeloid leukocyte mediated immunity is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response [Term] id: GO:0001806 name: type IV hypersensitivity namespace: biological_process alt_id: GO:0016069 def: "An inflammatory response driven by T cell recognition of processed soluble or cell-associated antigens leading to cytokine release and leukocyte activation." [GOC:add, ISBN:0781735149] exact_synonym: "delayed hypersensitivity response" [] exact_synonym: "delayed-type hypersensitivity" [] is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0002524 ! hypersensitivity [Term] id: GO:0001807 name: regulation of type IV hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002883 ! regulation of hypersensitivity relationship: part_of GO:0001806 ! type IV hypersensitivity [Term] id: GO:0001808 name: negative regulation of type IV hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001807 ! regulation of type IV hypersensitivity is_a: GO:0002710 ! negative regulation of T cell mediated immunity is_a: GO:0002884 ! negative regulation of hypersensitivity [Term] id: GO:0001809 name: positive regulation of type IV hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type IV hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001807 ! regulation of type IV hypersensitivity is_a: GO:0002711 ! positive regulation of T cell mediated immunity is_a: GO:0002885 ! positive regulation of hypersensitivity [Term] id: GO:0001810 name: regulation of type I hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type I hypersensitivity, a type of inflammatory response." [ISBN:0781735149] is_a: GO:0002883 ! regulation of hypersensitivity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response relationship: part_of GO:0016068 ! type I hypersensitivity [Term] id: GO:0001811 name: negative regulation of type I hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of type I hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001810 ! regulation of type I hypersensitivity is_a: GO:0002884 ! negative regulation of hypersensitivity is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response [Term] id: GO:0001812 name: positive regulation of type I hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of type I hypersensitivity, a type of inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001810 ! regulation of type I hypersensitivity is_a: GO:0002885 ! positive regulation of hypersensitivity is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response [Term] id: GO:0001813 name: regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149] exact_synonym: "regulation of antibody dependent cell death" [] exact_synonym: "regulation of antibody dependent cell killing" [] exact_synonym: "regulation of antibody-dependent cell death" [] exact_synonym: "regulation of antibody-dependent cell killing" [] is_a: GO:0001796 ! regulation of type IIa hypersensitivity relationship: part_of GO:0001788 ! antibody-dependent cellular cytotoxicity [Term] id: GO:0001814 name: negative regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149] exact_synonym: "negative regulation of antibody dependent cell death" [] exact_synonym: "negative regulation of antibody dependent cell killing" [] exact_synonym: "negative regulation of antibody-dependent cell death" [] exact_synonym: "negative regulation of antibody-dependent cell killing" [] is_a: GO:0001797 ! negative regulation of type IIa hypersensitivity is_a: GO:0001813 ! regulation of antibody-dependent cellular cytotoxicity [Term] id: GO:0001815 name: positive regulation of antibody-dependent cellular cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of antibody-dependent cellular cytotoxicity." [GOC:add, ISBN:0781735149] exact_synonym: "positive regulation of antibody dependent cell death" [] exact_synonym: "positive regulation of antibody dependent cell killing" [] exact_synonym: "positive regulation of antibody-dependent cell death" [] exact_synonym: "positive regulation of antibody-dependent cell killing" [] is_a: GO:0001798 ! positive regulation of type IIa hypersensitivity is_a: GO:0001813 ! regulation of antibody-dependent cellular cytotoxicity [Term] id: GO:0001816 name: cytokine production namespace: biological_process def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] comment: Note that this term is intended for use when a gene product is seen to cause apparent increases in intracellular or extracellular cytokine levels, without specific regard as to whether the increase is due to increased biosynthesis, increased secretion of preexisting cytokine molecules, or increased conversion from precursor molecules. is_a: GO:0050874 ! organismal physiological process [Term] id: GO:0001817 name: regulation of cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of production of a cytokine." [GOC:add, ISBN:0781735149] relationship: part_of GO:0001816 ! cytokine production [Term] id: GO:0001818 name: negative regulation of cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of production of a cytokine." [GOC:add, ISBN:0781735149] is_a: GO:0001817 ! regulation of cytokine production [Term] id: GO:0001819 name: positive regulation of cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of production of a cytokine." [GOC:add, ISBN:0781735149] is_a: GO:0001817 ! regulation of cytokine production [Term] id: GO:0001820 name: serotonin secretion namespace: biological_process def: "The regulated release of serotonin by a cell or group of cells. Serotonin (5-hydroxytryptamine, or 5-HT) is a monoamine neurotransmitter synthesised in serotonergic neurons in the central nervous system and enterochromaffin cells in the gastrointestinal tract." [GOC:ef, ISBN:0198506732, ISBN:0781735149] exact_synonym: "5-HT secretion" [] exact_synonym: "5-hydroxytryptamine secretion" [] is_a: GO:0007269 ! neurotransmitter secretion is_a: GO:0046879 ! hormone secretion [Term] id: GO:0001821 name: histamine secretion namespace: biological_process def: "The regulated release of histamine by a cell or group of cells. It is formed by decarboxylation of histidine and it acts through receptors in smooth muscle and in secretory systems." [ISBN:0198506732, ISBN:0781735149] is_a: GO:0007269 ! neurotransmitter secretion is_a: GO:0046879 ! hormone secretion [Term] id: GO:0001822 name: kidney development namespace: biological_process def: "The process whose specific outcome is the progression of the kidney over time, from its formation to the mature structure. The kidney is an organ that filters the blood and excretes the end products of body metabolism in the form of urine." [GOC:dph, ISBN:0124020607, ISBN:0721662544] is_a: GO:0048513 ! organ development relationship: part_of GO:0001655 ! urogenital system development [Term] id: GO:0001823 name: mesonephros development namespace: biological_process def: "The process whose specific outcome is the progression of the mesonephros over time, from its formation to the mature structure. The mesonephros is a transient excretory organ of the embryo." [GOC:dph, ISBN:0124020607, ISBN:0721662544] is_a: GO:0001822 ! kidney development [Term] id: GO:0001824 name: blastocyst development namespace: biological_process def: "The process whose specific outcome is the progression of the blastocyst over time, from its formation to the mature structure. The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS5, embryo ; EMAP:23', 'TS5, inner cell mass ; EMAP:24' and 'TS5, trophectoderm; EMAP:28'. relationship: part_of GO:0001701 ! embryonic development (sensu Mammalia) [Term] id: GO:0001825 name: blastocyst formation namespace: biological_process def: "The initial formation of a blastocyst from a solid ball of cells known as a morula." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology term 'TS3, compacted morula ; EMAP:9'. is_a: GO:0048646 ! anatomical structure formation relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001826 name: inner cell mass cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of an inner cell mass cell." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14'. is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001825 ! blastocyst formation [Term] id: GO:0001827 name: inner cell mass cell fate commitment namespace: biological_process def: "The cell fate commitment of precursor cells that will become inner cell mass cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, compacted morula ; EMAP:13' and 'TS4, inner cell mass ; EMAP:14'. is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001826 ! inner cell mass cell differentiation [Term] id: GO:0001828 name: inner cell mass cellular morphogenesis namespace: biological_process def: "The morphogenesis of cells in the inner cell mass." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14' and 'TS5, inner cell mass ; EMAP:24'. is_a: GO:0000904 ! cellular morphogenesis during differentiation relationship: part_of GO:0001826 ! inner cell mass cell differentiation [Term] id: GO:0001829 name: trophectodermal cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires the specialized features of a trophectoderm cell." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19'. exact_synonym: "trophectoderm cell differentiation" [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0001825 ! blastocyst formation [Term] id: GO:0001830 name: trophectodermal cell fate commitment namespace: biological_process def: "The cell fate commitment of precursor cells that will become trophectoderm cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19'. exact_synonym: "trophectoderm cell fate commitment" [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001829 ! trophectodermal cell differentiation [Term] id: GO:0001831 name: trophectodermal cellular morphogenesis namespace: biological_process def: "The morphogenesis of trophectoderm cells." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'. exact_synonym: "trophectoderm cellular morphogenesis" [] is_a: GO:0000904 ! cellular morphogenesis during differentiation relationship: part_of GO:0001829 ! trophectodermal cell differentiation [Term] id: GO:0001832 name: blastocyst growth namespace: biological_process def: "An increase in size of a blastocyst due to expansion of the blastocoelic cavity cell shape changes and cell proliferation." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, blastocoelic cavity ; EMAP:17', 'TS5, blastocoelic cavity ; EMAP:27' and 'TS6, blastocoelic cavity ; EMAP:36'. is_a: GO:0048589 ! developmental growth relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001833 name: inner cell mass cell proliferation namespace: biological_process def: "The proliferation of cells in the inner cell mass." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, inner cell mass ; EMAP:14' and 'TS5, inner cell mass ; EMAP:24'. is_a: GO:0008283 ! cell proliferation relationship: part_of GO:0001832 ! blastocyst growth [Term] id: GO:0001834 name: trophectodermal cell proliferation namespace: biological_process def: "The proliferation of cells in the trophectoderm." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, trophectoderm ; EMAP:19', 'TS5, trophectoderm ; EMAP:28' and 'TS6, trophectoderm ; EMAP:39'. exact_synonym: "trophectoderm cell proliferation" [] is_a: GO:0008283 ! cell proliferation relationship: part_of GO:0001832 ! blastocyst growth [Term] id: GO:0001835 name: blastocyst hatching namespace: biological_process def: "The hatching of the cellular blastocyst from the zona pellucida." [GOC:dph, ISBN:0124020607, ISBN:0198542771] comment: See also the Anatomical Dictionary for Mouse Development ontology terms 'TS4, zona pellucida ; EMAP:22' and 'TS5, embryo ; EMAP:23'. relationship: part_of GO:0001824 ! blastocyst development [Term] id: GO:0001836 name: release of cytochrome c from mitochondria namespace: biological_process def: "The process by which cytochrome c is enabled to move from the mitochondrial intermembrane space into the cytosol, which is an early step in apoptosis and leads to caspase activation." [GOC:add, GOC:mah, ISBN:0721639976, PMID:12925707, PMID:9560217] is_a: GO:0008637 ! apoptotic mitochondrial changes [Term] id: GO:0001837 name: epithelial to mesenchymal transition namespace: biological_process def: "A transition where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes migratory." [GOC:dph, PMID:14701881] relationship: part_of GO:0014031 ! mesenchymal cell development [Term] id: GO:0001838 name: embryonic epithelial tube formation namespace: biological_process def: "The morphogenesis of an embryonic epithelium into a tube-shaped structure." [GOC:dph, ISBN:0824072820] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0035239 ! tube morphogenesis [Term] id: GO:0001839 name: neural plate morphogenesis namespace: biological_process def: "The process by which the anatomical structures of the neural plate are generated and organized. Morphogenesis pertains to the creation of form. The neural plate is a specialized region of columnar epithelial cells in the dorsal ectoderm that will give rise to nervous system tissue." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium [Term] id: GO:0001840 name: neural plate development namespace: biological_process def: "The process whose specific outcome is the progression of the neural plate over time, from its formation to the mature structure. The neural plate is a flat, thickened layer of ectodermal cells. The underlying dorsal mesoderm signals the ectodermal cells above it to elongate into columnar neural plate cells. The neural plate subsequently develops into the neural tube, which gives rise to the central nervous system." [GOC:dph, GOC:ef, ISBN:0878932437, ISBN:0878932585] is_a: GO:0007399 ! nervous system development is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0048646 ! anatomical structure formation relationship: part_of GO:0001839 ! neural plate morphogenesis [Term] id: GO:0001841 name: neural tube formation namespace: biological_process alt_id: GO:0001679 def: "The formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GOC:dph, ISBN:0878932437] exact_synonym: "neural tube morphogenesis" [GOC:dph] exact_synonym: "neurulation" [] is_a: GO:0001838 ! embryonic epithelial tube formation relationship: part_of GO:0001839 ! neural plate morphogenesis relationship: part_of GO:0021915 ! neural tube development [Term] id: GO:0001842 name: neural fold formation namespace: biological_process def: "The process by which the edges of the neural plate thicken and move up to form a U-shaped structure called the neural groove." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0014020 ! primary neural tube formation [Term] id: GO:0001843 name: neural tube closure namespace: biological_process def: "The last step in the formation of the neural tube, where the paired neural folds are brought together and fuse at the dorsal midline." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0014020 ! primary neural tube formation [Term] id: GO:0001844 name: protein insertion into mitochondrial membrane during induction of apoptosis namespace: biological_process def: "The process by which a protein is incorporated into a mitochondrial membrane as an early step in apoptosis." [GOC:add, PMID:12952892] comment: Note that this term is intended to cover the insertion of pro-apoptotic proteins such as Bax or its homologs into mitochondrial membranes which occurs as an early step in the apoptotic program. exact_synonym: "insertion of proteins into mitochondrial membranes during the induction of apoptosis" [] exact_synonym: "protein insertion into mitochondrion membrane during induction of apoptosis" [] xref_analog: Reactome:114264 xref_analog: Reactome:139905 xref_analog: Reactome:139909 xref_analog: Reactome:139914 xref_analog: Reactome:139919 xref_analog: Reactome:140216 xref_analog: Reactome:168220 xref_analog: Reactome:168221 xref_analog: Reactome:168222 xref_analog: Reactome:168224 xref_analog: Reactome:168240 xref_analog: Reactome:172161 xref_analog: Reactome:172163 xref_analog: Reactome:172164 xref_analog: Reactome:172166 xref_analog: Reactome:175202 xref_analog: Reactome:175206 xref_analog: Reactome:178688 xref_analog: Reactome:178690 xref_analog: Reactome:181410 xref_analog: Reactome:181412 is_a: GO:0008637 ! apoptotic mitochondrial changes is_a: GO:0051204 ! protein insertion into mitochondrial membrane relationship: part_of GO:0006917 ! induction of apoptosis [Term] id: GO:0001845 name: phagolysosome formation namespace: biological_process def: "The process by which a phagosome, a vesicle formed by phagocytosis, fuses with a lysosome." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] related_synonym: "late phagosome formation" [] is_a: GO:0006909 ! phagocytosis [Term] id: GO:0001846 name: opsonin binding namespace: molecular_function def: "Interacting selectively with an opsonin, such as a complement component or antibody, deposited on the surface of a bacteria, virus, immune complex, or other particulate material." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that an opsonin is a blood serum protein or fragment which when deposited on the surface of a bacteria, virus, immune complex, or other particulate material acts a signal for phagocytosis to cells bearing the appropriate receptors. Not all complement components or fragments and not all antibodies have opsonic properties. is_a: GO:0005515 ! protein binding [Term] id: GO:0001847 name: opsonin receptor activity namespace: molecular_function def: "Combining with an opsonin to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0001848 name: complement binding namespace: molecular_function def: "Interacting selectively with any component or product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that the complement cascade includes all of the components involved in the classical complement pathway, the alternative complement pathway, and the lectin complement pathway, as well as the common components of all three pathways. is_a: GO:0005515 ! protein binding [Term] id: GO:0001849 name: complement component C1q binding namespace: molecular_function def: "Interacting selectively with the C1q component of the classical complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001850 name: complement component C3a binding namespace: molecular_function def: "Interacting selectively with the C3a product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001851 name: complement component C3b binding namespace: molecular_function def: "Interacting selectively with the C3b product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001852 name: complement component iC3b binding namespace: molecular_function def: "Interacting selectively with the iC3b product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001853 name: complement component C3dg binding namespace: molecular_function def: "Interacting selectively with the C3dg product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001854 name: complement component C3d binding namespace: molecular_function def: "Interacting selectively with the C3d product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001855 name: complement component C4b binding namespace: molecular_function def: "Interacting selectively with the C4b product of the classical complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001846 ! opsonin binding is_a: GO:0001848 ! complement binding [Term] id: GO:0001856 name: complement component C5a binding namespace: molecular_function def: "Interacting selectively with the C5a product of the complement cascade." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001848 ! complement binding [Term] id: GO:0001857 name: complement component C1q receptor activity namespace: molecular_function def: "Combining with the C1q component of the classical complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001849 ! complement component C1q binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001858 name: complement component iC3b receptor activity namespace: molecular_function def: "Combining with the iC3b product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001852 ! complement component iC3b binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001859 name: complement component C3dg receptor activity namespace: molecular_function def: "Combining with the C3dg product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001860 name: complement component C3d receptor activity namespace: molecular_function def: "Combining with the C3d product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001861 name: complement component C4b receptor activity namespace: molecular_function def: "Combining with the C4b product of the classical complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001855 ! complement component C4b binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0001862 name: collectin binding namespace: molecular_function def: "Interacting selectively with a collectin, a member of a group of structurally related pattern recognition molecules characterized by having a carbohydrate recognition domain of the C-type lectin family at the C-terminus and a collagenous domain at the N-terminus." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that collectins include such proteins as mannose-binding lectins (MBL) and surfactant proteins A and D (SP-A and SP-D). is_a: GO:0001846 ! opsonin binding [Term] id: GO:0001863 name: collectin receptor activity namespace: molecular_function def: "Combining with a collectin to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that collectins include such proteins as mannose-binding lectin (MBL) and surfactant proteins A and D (SP-A and SP-D). is_a: GO:0001847 ! opsonin receptor activity [Term] id: GO:0001864 name: pentraxin binding namespace: molecular_function def: "Interacting selectively with a pentraxin, a member of a family of inflammatory proteins with a radially symmetric arrangement of five identical, noncovalently linked chains in a pentagonal array." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that pentraxins include such proteins as serum amyloid P component (SAP) and C-reactive protein (CRP). is_a: GO:0001846 ! opsonin binding [Term] id: GO:0001865 name: NK T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a NK T cell." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:10704459] comment: Note that NK T cells are a distinct lineage of T cells expressing natural killer cell markers and having T cell receptors characterized by the usage of a restricted repertoire of variable region gene segments. exact_synonym: "natural killer T cell differentiation" [] exact_synonym: "natural T cell differentiation" [] exact_synonym: "NK T cell differentiation" [] exact_synonym: "NK T lymphocyte differentiation" [] exact_synonym: "NK T-cell differentiation" [] exact_synonym: "NK T-lymphocyte differentiation" [] exact_synonym: "NKT cell differentiation" [] exact_synonym: "NT cell differentiation" [] is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0001866 name: NK T cell proliferation namespace: biological_process def: "The expansion of a NK T cell population by cell division." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:10704459] comment: Note that NK T cells are a distinct lineage of T cells expressing natural killer cell markers and having T cell receptors characterized by the usage of a restricted repertoire of variable region gene segments. exact_synonym: "natural killer T cell proliferation" [] exact_synonym: "natural T cell proliferation" [] exact_synonym: "NK T cell proliferation" [] exact_synonym: "NK T lymphocyte proliferation" [] exact_synonym: "NK T-cell proliferation" [] exact_synonym: "NK T-lymphocyte proliferation" [] exact_synonym: "NKT cell proliferation" [] exact_synonym: "NT cell proliferation" [] is_a: GO:0046633 ! alpha-beta T cell proliferation [Term] id: GO:0001867 name: complement activation, lectin pathway namespace: biological_process def: "Processes involved in the activation of any of the steps of the lectin pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that proteins such as mannose-binding lectin (MBL) and certain serum ficolins can activate the lectin complement pathway. is_a: GO:0006956 ! complement activation is_a: GO:0045087 ! innate immune response [Term] id: GO:0001868 name: regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the lectin pathway of complement activation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0030449 ! regulation of complement activation relationship: part_of GO:0001867 ! complement activation, lectin pathway [Term] id: GO:0001869 name: negative regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of complement activation by the lectin pathway." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001868 ! regulation of complement activation, lectin pathway is_a: GO:0045916 ! negative regulation of complement activation [Term] id: GO:0001870 name: positive regulation of complement activation, lectin pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of complement activation by the lectin pathway." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001868 ! regulation of complement activation, lectin pathway is_a: GO:0045917 ! positive regulation of complement activation [Term] id: GO:0001871 name: pattern binding namespace: molecular_function def: "Interacting selectively with a repeating or polymeric structure, such as a polysaccharide or peptidoglycan." [PMID:12072369, PMID:12225919, PMID:12507420, PMID:12925128, PMID:14523544] comment: Note that this term and its child terms are intended for annotation of gene products which function to recognize (bind) the repeating structural units such as polysaccharides or peptidoglycans commonly found in microbial cell walls and virions. If such binding is coupled to signal transduction, use 'pattern recognition receptor activity ; GO:0008329' instead. subset: gosubset_prok broad_synonym: "pattern recognition activity" [] is_a: GO:0005488 ! binding [Term] id: GO:0001872 name: zymosan binding namespace: molecular_function def: "Interacting selectively with zymosan." [PMID:14707091] is_a: GO:0030247 ! polysaccharide binding [Term] id: GO:0001873 name: polysaccharide receptor activity namespace: molecular_function def: "Combining with a polysaccharide to initiate a change in cell activity." [PMID:14707091] is_a: GO:0008329 ! pattern recognition receptor activity is_a: GO:0030247 ! polysaccharide binding [Term] id: GO:0001874 name: zymosan receptor activity namespace: molecular_function def: "Combining with zymosan to initiate a change in cell activity." [PMID:14707091] is_a: GO:0001872 ! zymosan binding is_a: GO:0001873 ! polysaccharide receptor activity [Term] id: GO:0001875 name: lipopolysaccharide receptor activity namespace: molecular_function def: "Combining with lipopolysaccharide to initiate a change in cell activity." [PMID:14609719] exact_synonym: "LPS receptor activity" [] broad_synonym: "endotoxin receptor activity" [] is_a: GO:0001530 ! lipopolysaccharide binding is_a: GO:0008329 ! pattern recognition receptor activity [Term] id: GO:0001876 name: lipoarabinomannan binding namespace: molecular_function def: "Interacting selectively with lipoarabinomannan." [PMID:10586073] exact_synonym: "LAM binding" [] is_a: GO:0001871 ! pattern binding [Term] id: GO:0001877 name: lipoarabinomannan receptor activity namespace: molecular_function def: "Combining with lipoarabinomannan to initiate a change in cell activity." [PMID:10586073] exact_synonym: "LAM receptor activity" [] is_a: GO:0001876 ! lipoarabinomannan binding is_a: GO:0008329 ! pattern recognition receptor activity [Term] id: GO:0001878 name: response to yeast namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a yeast species." [PMID:14707091] is_a: GO:0009620 ! response to fungus [Term] id: GO:0001879 name: detection of yeast namespace: biological_process def: "The series of events in which a stimulus from a yeast is received and converted into a molecular signal." [PMID:14707091] is_a: GO:0001878 ! response to yeast is_a: GO:0016046 ! detection of fungus [Term] id: GO:0001880 name: Mullerian duct regression namespace: biological_process def: "The process by which the Mullerian ducts, primordia of the oviducts, uterus and upper vagina, undergo regression in male embryos." [GOC:dph, PMID:12368913] relationship: part_of GO:0046661 ! male sex differentiation [Term] id: GO:0001881 name: receptor recycling namespace: biological_process def: "The process by which receptor molecules are returned to an active state and in an active cellular location after they have been stimulated by a ligand. An active state is when the receptor is ready to receive a signal." [GOC:dph] is_a: GO:0043112 ! receptor metabolism relationship: part_of GO:0007165 ! signal transduction [Term] id: GO:0001882 name: nucleoside binding namespace: molecular_function def: "Interacting selectively with a nucleoside, a compound consisting of a purine or pyrimidine nitrogenous base linked either to ribose or deoxyribose." [GOC:hjd] is_a: GO:0005488 ! binding [Term] id: GO:0001883 name: purine nucleoside binding namespace: molecular_function def: "Interacting selectively with a purine nucleoside." [GOC:hjd] is_a: GO:0001882 ! nucleoside binding [Term] id: GO:0001884 name: pyrimidine nucleoside binding namespace: molecular_function def: "Interacting selectively with pyrimidine nucleoside." [GOC:hjd] is_a: GO:0001882 ! nucleoside binding [Term] id: GO:0001885 name: endothelial cell development namespace: biological_process def: "The progression of an endothelial cell over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0045446 ! endothelial cell differentiation [Term] id: GO:0001886 name: endothelial cell morphogenesis namespace: biological_process def: "The change in form (cell shape and size) that occurs during the differentiation of an endothelial cell." [GOC:dph] is_a: GO:0000904 ! cellular morphogenesis during differentiation relationship: part_of GO:0001885 ! endothelial cell development [Term] id: GO:0001887 name: selenium metabolism namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element selenium or compounds that contain selenium, such as selenocysteine." [PMID:12730456] subset: gosubset_prok is_a: GO:0006790 ! sulfur metabolism [Term] id: GO:0001888 name: glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + beta-D-glucuronosyl-(1,3)-beta-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-D-xylosyl-proteoglycan = UDP + alpha-N-acetyl-D-glucosaminyl-(1,4)-beta-D-glucuronosyl-(1,3)-beta-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-D-xylosyl-proteoglycan." [EC:2.4.1.223] exact_synonym: "alpha-1,4-N-acetylglucosaminyltransferase" [] exact_synonym: "alpha-N-acetylglucosaminyltransferase I" [] exact_synonym: "glucuronosylgalactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase" [] xref_analog: EC:2.4.1.223 is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0001889 name: liver development namespace: biological_process def: "The process whose specific outcome is the progression of the liver over time, from its formation to the mature structure. The liver is an exocrine gland which secretes bile and functions in metabolism of protein and carbohydrate and fat, synthesizes substances involved in the clotting of the blood, synthesizes vitamin A, detoxifies poisonous substances, stores glycogen, and breaks down worn-out erythrocytes." [GOC:add, ISBN:068340007X] is_a: GO:0009887 ! organ morphogenesis [Term] id: GO:0001890 name: placenta development namespace: biological_process def: "The process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] exact_synonym: "placental development" [] is_a: GO:0009887 ! organ morphogenesis [Term] id: GO:0001891 name: phagocytic cup namespace: cellular_component def: "An invagination of the cell membrane formed by an actin dependent process during phagocytosis. Following internalization it is converted into a phagosome." [PMID:10358769] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0001892 name: embryonic placenta development namespace: biological_process def: "The embryonically driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] is_a: GO:0001890 ! placenta development is_a: GO:0009790 ! embryonic development [Term] id: GO:0001893 name: maternal placenta development namespace: biological_process def: "Maternally driven process whose specific outcome is the progression of the placenta over time, from its formation to the mature structure. The placenta is an organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin." [GOC:add, ISBN:068340007X "Stedman's Medical Dictionary"] is_a: GO:0001890 ! placenta development [Term] id: GO:0001894 name: tissue homeostasis namespace: biological_process def: "Any of the processes involved in the maintenance of an internal equilibrium within a defined tissue of an organism, including control of cellular proliferation and death and control of metabolic function." [GOC:add] narrow_synonym: "tissue maintenance" [GOC:add] is_a: GO:0042592 ! homeostasis is_a: GO:0050874 ! organismal physiological process [Term] id: GO:0001895 name: retinal homeostasis namespace: biological_process def: "Any of the processes involved in the maintenance of an internal equilibrium within the retina of the eye, including control of cellular proliferation and death and control of metabolic function." [GOC:add, PMID:15365173, PMID:15365178] is_a: GO:0001894 ! tissue homeostasis [Term] id: GO:0001896 name: autolysis namespace: biological_process def: "The spontaneous death by lysis of bacteria in response to environmental conditions." [GOC:add] is_a: GO:0019835 ! cytolysis [Term] id: GO:0001897 name: cytolysis of host cells namespace: biological_process def: "The killing by an organism of a cell in its host organism by means of the rupture of cell membranes and the loss of cytoplasm. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0001907 ! killing of host cells is_a: GO:0051801 ! cytolysis of cells of other organism during symbiotic interaction [Term] id: GO:0001898 name: regulation of cytolysis of host cells namespace: biological_process def: "Any process of an organism that modulates the frequency, rate or extent of the cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0051802 ! regulation of cytolysis of cells of other organism during symbiotic interaction relationship: part_of GO:0001897 ! cytolysis of host cells [Term] id: GO:0001899 name: negative regulation of cytolysis of host cells namespace: biological_process def: "Any process of an organism that stops, prevents or reduces the frequency, rate or extent of cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0001898 ! regulation of cytolysis of host cells is_a: GO:0051803 ! negative regulation of cytolysis of cells of other organism during symbiotic interaction [Term] id: GO:0001900 name: positive regulation of cytolysis of host cells namespace: biological_process def: "Any process of an organism that activates or increases the frequency, rate or extent of cytolysis by that organism of cells in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0001898 ! regulation of cytolysis of host cells is_a: GO:0051804 ! positive regulation of cytolysis of cells of other organism during symbiotic interaction [Term] id: GO:0001905 name: activation of membrane attack complex namespace: biological_process def: "The activation of the membrane attack complex components of the complement cascade which can result in death of a target cell through cytolysis." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] exact_synonym: "activation of MAC" [] narrow_synonym: "activation of TCC" [] narrow_synonym: "activation of the terminal complement cascade" [] is_a: GO:0006956 ! complement activation is_a: GO:0019835 ! cytolysis [Term] id: GO:0001906 name: cell killing namespace: biological_process def: "Any process in an organism that results in the killing of its own cells or those of another organism, including in some cases the death of the other organism. Killing here refers to the induction of death in one cell by another cell, not cell-autonomous death due to internal or other environmental conditions." [GOC:add] subset: gosubset_prok related_synonym: "necrosis" [] is_a: GO:0008219 ! cell death [Term] id: GO:0001907 name: killing of host cells namespace: biological_process def: "Any process mediated by an organism that results in the death of cells in the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:add] subset: gosubset_prok is_a: GO:0044004 ! disruption of host cells is_a: GO:0051883 ! killing of cells of other organism during symbiotic interaction [Term] id: GO:0001909 name: leukocyte mediated cytotoxicity namespace: biological_process def: "The directed killing of a target cell by a leukocyte." [GOC:add, ISBN:0781735149, PMID:11911826] comment: Note that this term and its children describe contact-dependent killing of target cells by lymphocytes and myeloid cells of the immune system. exact_synonym: "immune cell mediated cell death" [] exact_synonym: "immune cell mediated cell killing" [] exact_synonym: "immune cell mediated cytotoxicity" [] exact_synonym: "leucocyte mediated cytotoxicity" [] is_a: GO:0001906 ! cell killing is_a: GO:0002252 ! immune effector process [Term] id: GO:0001910 name: regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] exact_synonym: "regulation of immune cell mediated cell death" [] exact_synonym: "regulation of immune cell mediated cell killing" [] exact_synonym: "regulation of immune cell mediated cytotoxicity" [] exact_synonym: "regulation of leucocyte mediated cytotoxicity" [] is_a: GO:0031341 ! regulation of cell killing relationship: part_of GO:0001909 ! leukocyte mediated cytotoxicity [Term] id: GO:0001911 name: negative regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] exact_synonym: "negative regulation of immune cell mediated cytotoxicity" [] exact_synonym: "negative regulation of leucocyte mediated cytotoxicity" [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity [Term] id: GO:0001912 name: positive regulation of leukocyte mediated cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of leukocyte mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] exact_synonym: "positive regulation of immune cell mediated cytotoxicity" [] exact_synonym: "positive regulation of leucocyte mediated cytotoxicity" [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity [Term] id: GO:0001913 name: T cell mediated cytotoxicity namespace: biological_process def: "The directed killing of a target cell by a T cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:11911826] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in the induction of apoptosis in the target cell. Note that both CD4 and CD8 positive T cells can mediate apoptosis of target cells, independently of their definition as 'helper' T cells or not. related_synonym: "T cell mediated cytolysis" [] exact_synonym: "T cell mediated apoptosis" [] exact_synonym: "T cell mediated cell death" [] exact_synonym: "T cell mediated cell killing" [] exact_synonym: "T lymphocyte mediated cytotoxicity" [] exact_synonym: "T-cell mediated apoptosis" [] exact_synonym: "T-cell mediated cell death" [] exact_synonym: "T-cell mediated cell killing" [] exact_synonym: "T-cell mediated cytotoxicity" [] exact_synonym: "T-lymphocyte mediated cytotoxicity" [] is_a: GO:0001909 ! leukocyte mediated cytotoxicity is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0006917 ! induction of apoptosis [Term] id: GO:0001914 name: regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] related_synonym: "regulation of T cell mediated cytolysis" [] related_synonym: "regulation of T-cell mediated cytolysis" [] exact_synonym: "regulation of T cell mediated apoptosis" [] exact_synonym: "regulation of T cell mediated cell death" [] exact_synonym: "regulation of T cell mediated cell killing" [] exact_synonym: "regulation of T lymphocyte mediated cytotoxicity" [] exact_synonym: "regulation of T-cell mediated apoptosis" [] exact_synonym: "regulation of T-cell mediated cell death" [] exact_synonym: "regulation of T-cell mediated cell killing" [] exact_synonym: "regulation of T-cell mediated cytotoxicity" [] exact_synonym: "regulation of T-lymphocyte mediated cytotoxicity" [] is_a: GO:0001910 ! regulation of leukocyte mediated cytotoxicity relationship: part_of GO:0001913 ! T cell mediated cytotoxicity [Term] id: GO:0001915 name: negative regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] related_synonym: "negative regulation of T cell mediated cytolysis" [] related_synonym: "negative regulation of T-cell mediated cytolysis" [] exact_synonym: "negative regulation of T cell mediated apoptosis" [] exact_synonym: "negative regulation of T cell mediated cell death" [] exact_synonym: "negative regulation of T cell mediated cell killing" [] exact_synonym: "negative regulation of T lymphocyte mediated cytotoxicity" [] exact_synonym: "negative regulation of T-cell mediated apoptosis" [] exact_synonym: "negative regulation of T-cell mediated cell death" [] exact_synonym: "negative regulation of T-cell mediated cell killing" [] exact_synonym: "negative regulation of T-cell mediated cytotoxicity" [] exact_synonym: "negative regulation of T-lymphocyte mediated cytotoxicity" [] is_a: GO:0001911 ! negative regulation of leukocyte mediated cytotoxicity is_a: GO:0001914 ! regulation of T cell mediated cytotoxicity [Term] id: GO:0001916 name: positive regulation of T cell mediated cytotoxicity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of T cell mediated cytotoxicity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] related_synonym: "positive regulation of T cell mediated cytolysis" [] related_synonym: "positive regulation of T-cell mediated cytolysis" [] exact_synonym: "positive regulation of T cell mediated apoptosis" [] exact_synonym: "positive regulation of T cell mediated cell death" [] exact_synonym: "positive regulation of T cell mediated cell killing" [] exact_synonym: "positive regulation of T lymphocyte mediated cytotoxicity" [] exact_synonym: "positive regulation of T-cell mediated apoptosis" [] exact_synonym: "positive regulation of T-cell mediated cell death" [] exact_synonym: "positive regulation of T-cell mediated cell killing" [] exact_synonym: "positive regulation of T-cell mediated cytotoxicity" [] exact_synonym: "positive regulation of T-lymphocyte mediated cytotoxicity" [] is_a: GO:0001912 ! positive regulation of leukocyte mediated cytotoxicity is_a: GO:0001914 ! regulation of T cell mediated cytotoxicity [Term] id: GO:0001917 name: photoreceptor inner segment namespace: cellular_component def: "The inner segment of a vertebrate photoreceptor containing mitochondria, ribosomes and membranes where opsin molecules are assembled and passed to be part of the outer segment discs." [GOC:add, PMID:12019563] is_a: GO:0044464 ! cell part [Term] id: GO:0001918 name: farnesylated protein binding namespace: molecular_function def: "Interacting selectively with a farnesylated protein." [GOC:add, PMID:14555765] is_a: GO:0005515 ! protein binding [Term] id: GO:0001919 name: regulation of receptor recycling namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of receptor recyling." [GOC:add] is_a: GO:0019222 ! regulation of metabolism is_a: GO:0051244 ! regulation of cellular physiological process relationship: part_of GO:0001881 ! receptor recycling [Term] id: GO:0001920 name: negative regulation of receptor recycling namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of receptor recyling." [GOC:add] is_a: GO:0001919 ! regulation of receptor recycling is_a: GO:0009892 ! negative regulation of metabolism is_a: GO:0051243 ! negative regulation of cellular physiological process [Term] id: GO:0001921 name: positive regulation of receptor recycling namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of receptor recyling." [GOC:add] is_a: GO:0001919 ! regulation of receptor recycling is_a: GO:0009893 ! positive regulation of metabolism is_a: GO:0051242 ! positive regulation of cellular physiological process [Term] id: GO:0001922 name: B-1 B cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of B cells of the B-1 subset such that the total number of B-1 B cells within a whole or part of an organism is stable over time in the absence of an outside stimulus. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that this term represents the return of B-1 B cell levels to stable numbers following an immune response, as well as the proliferation and elimination of B-1 B cells in a organism required to maintain stable numbers in the absence of an outside stimulus. exact_synonym: "B-1 B lymphocyte homeostasis" [] exact_synonym: "B-1 B-cell homeostasis" [] exact_synonym: "B-1 B-lymphocyte homeostasis" [] is_a: GO:0001782 ! B cell homeostasis [Term] id: GO:0001923 name: B-1 B cell differentiation namespace: biological_process def: "The process whereby a hemopoietic stem cell acquires the specialized features of a B-1 B cell. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] exact_synonym: "B-1 B lymphocyte differentiation" [] exact_synonym: "B-1 B-cell differentiation" [] exact_synonym: "B-1 B-lymphocyte differentiation" [] is_a: GO:0002335 ! mature B cell differentiation [Term] id: GO:0001924 name: regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B-1 B cell differentiation. B-1 B cells are a distinct subset of B cells characterized as being CD5 positive, found predominantly in the peritoneum, pleural cavities, and spleen, and enriched for self-reactivity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] exact_synonym: "regulation of B-1 B lymphocyte differentiation" [] exact_synonym: "regulation of B-1 B-cell differentiation" [] exact_synonym: "regulation of B-1 B-lymphocyte differentiation" [] relationship: part_of GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0001925 name: negative regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of B-1 B cell differentiation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] exact_synonym: "negative regulation of B-1 B lymphocyte differentiation" [] exact_synonym: "negative regulation of B-1 B-cell differentiation" [] exact_synonym: "negative regulation of B-1 B-lymphocyte differentiation" [] is_a: GO:0001924 ! regulation of B-1 B cell differentiation [Term] id: GO:0001926 name: positive regulation of B-1 B cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of B-1 B cell differentiation." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] exact_synonym: "positive regulation of B-1 B lymphocyte differentiation" [] exact_synonym: "positive regulation of B-1 B-cell differentiation" [] exact_synonym: "positive regulation of B-1 B-lymphocyte differentiation" [] is_a: GO:0001924 ! regulation of B-1 B cell differentiation [Term] id: GO:0001927 name: exocyst assembly namespace: biological_process def: "The aggregation and bonding together of various polypeptides into the exocyst complex." [GOC:hjd] is_a: GO:0006461 ! protein complex assembly is_a: GO:0006904 ! vesicle docking during exocytosis relationship: part_of GO:0006903 ! vesicle targeting [Term] id: GO:0001928 name: regulation of exocyst assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of exocyst assembly." [GOC:hjd] comment: Note that the assembly is regulated by several small GTPases of the Rab and Rho families. relationship: part_of GO:0001927 ! exocyst assembly relationship: part_of GO:0043254 ! regulation of protein complex assembly [Term] id: GO:0001929 name: negative regulation of exocyst assembly namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of exocyst assembly." [GOC:hjd] is_a: GO:0001928 ! regulation of exocyst assembly is_a: GO:0031333 ! negative regulation of protein complex assembly [Term] id: GO:0001930 name: positive regulation of exocyst assembly namespace: biological_process def: "Any process that increases the rate or extent of exocyst assembly." [GOC:hjd] is_a: GO:0001928 ! regulation of exocyst assembly is_a: GO:0031334 ! positive regulation of protein complex assembly [Term] id: GO:0001931 name: uropod namespace: cellular_component def: "A rigid membrane projection with related cytoskeletal components at the trailing edge of a lymphocyte or other cell in the process of migrating or being activated, found on the opposite side of the cell from the lamellipodium or immunological synapse, respectively." [GOC:add, ISBN:0781735149 "Fundamental Immunology", PMID:12714569, PMID:12787750] related_synonym: "distal pole complex" [] related_synonym: "retractile pole" [] is_a: GO:0042995 ! cell projection relationship: part_of GO:0031254 ! trailing edge [Term] id: GO:0001932 name: regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphoric groups into an amino acid in a protein." [GOC:hjd] subset: gosubset_prok is_a: GO:0006521 ! regulation of amino acid metabolism is_a: GO:0042325 ! regulation of phosphorylation relationship: part_of GO:0006468 ! protein amino acid phosphorylation [Term] id: GO:0001933 name: negative regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that stops, prevents or decreases the rate of addition of phosphoric groups to amino acids within a protein." [GOC:hjd] subset: gosubset_prok is_a: GO:0001932 ! regulation of protein amino acid phosphorylation is_a: GO:0045763 ! negative regulation of amino acid metabolism [Term] id: GO:0001934 name: positive regulation of protein amino acid phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphoric groups to amino acids within a protein." [GOC:hjd] subset: gosubset_prok is_a: GO:0001932 ! regulation of protein amino acid phosphorylation is_a: GO:0045764 ! positive regulation of amino acid metabolism [Term] id: GO:0001935 name: endothelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of endothelial cells, resulting in the rapid expansion of a cell population. Endothelial cells are thin flattened cells which line the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0008283 ! cell proliferation [Term] id: GO:0001936 name: regulation of endothelial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of endothelial cell proliferation." [GOC:add] is_a: GO:0042127 ! regulation of cell proliferation relationship: part_of GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001937 name: negative regulation of endothelial cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the rate or extent of endothelial cell proliferation." [GOC:add] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0008285 ! negative regulation of cell proliferation [Term] id: GO:0001938 name: positive regulation of endothelial cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of endothelial cell proliferation." [GOC:add] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0008284 ! positive regulation of cell proliferation [Term] id: GO:0001939 name: female pronucleus namespace: cellular_component def: "The pronucleus originating from the ovum that is being fertilized." [GOC:hjd, ISBN:0198506732] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001940 name: male pronucleus namespace: cellular_component def: "The pronucleus originating from the spermatozoa that was involved in fertilization." [GOC:hjd, ISBN:0198506732] is_a: GO:0045120 ! pronucleus [Term] id: GO:0001941 name: postsynaptic membrane organization namespace: biological_process def: "The maintenance of membrane compostition in a postsynaptic membrane, the specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft)." [GOC:dph] exact_synonym: "postsynaptic membrane organisation" [] is_a: GO:0016044 ! membrane organization and biogenesis [Term] id: GO:0001942 name: hair follicle development namespace: biological_process alt_id: GO:0001943 def: "The process whose specific outcome is the progression of the hair follicle over time, from its formation to the mature structure. A hair follicle is a tube-like opening in the epidermis where the hair shaft develops and into which the sebaceous glands open." [GOC:dph, http://cancerweb.ncl.ac.uk] is_a: GO:0008544 ! epidermis development relationship: part_of GO:0042633 ! hair cycle [Term] id: GO:0001944 name: vasculature development namespace: biological_process def: "The process whose specific outcome is the progression of the vasculature over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0048513 ! organ development [Term] id: GO:0001945 name: lymph vessel development namespace: biological_process def: "The process whose specific outcome is the progression of the lymphatic vasculature over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0001944 ! vasculature development [Term] id: GO:0001946 name: lymphangiogenesis namespace: biological_process def: "Lymph vessel formation when new vessels emerge from the proliferation of pre-existing vessels." [GOC:dph, PMID:11596157] is_a: GO:0009653 ! morphogenesis relationship: part_of GO:0001945 ! lymph vessel development [Term] id: GO:0001947 name: heart looping namespace: biological_process def: "The characteristic morphogenetic movements where the primitive heart tube loops asymmetrically. This looping brings the primitive heart chambers into alignment preceeding their future integration." [GOC:dph, PMID:12094232] relationship: part_of GO:0007507 ! heart development [Term] id: GO:0001948 name: glycoprotein binding namespace: molecular_function def: "Interacting selectively with a glycoprotein, a protein that contains covalently bound glycose (monosaccharide) residues. These also include proteoglycans." [GOC:hjd, ISBN:0198506732 "Oxford Dictionary"] is_a: GO:0005515 ! protein binding [Term] id: GO:0001949 name: sebaceous gland cell differentiation namespace: biological_process def: "Process whereby a relatively unspecialized epidermal cell acquires the specialized features of a sebaceous gland cell." [GOC:mgi_curators, PMID:15737203] narrow_synonym: "sebocytes differentiation" [GOC:mgi_curators] is_a: GO:0009913 ! epidermal cell differentiation relationship: part_of GO:0048733 ! sebaceous gland development [Term] id: GO:0001950 name: PME fraction namespace: cellular_component def: "The fraction of cells, prepared by disruptive biochemical methods, that is enriched for plasma membranes." [GOC:mgi_curators, PMID:11562363, PMID:15601832] is_a: GO:0000267 ! cell fraction relationship: part_of GO:0005624 ! membrane fraction [Term] id: GO:0001951 name: D-glucose absorption namespace: biological_process def: "Uptake of D-glucose into the blood by absorption from the small intestine." [GOC:mgi_curators, PMID:5601832] is_a: GO:0050892 ! intestinal absorption [Term] id: GO:0001952 name: regulation of cell-matrix adhesion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of attachment of a cell to the extracellular matrix." [GOC:hjd] is_a: GO:0030155 ! regulation of cell adhesion relationship: part_of GO:0007160 ! cell-matrix adhesion [Term] id: GO:0001953 name: negative regulation of cell-matrix adhesion namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of cell adhesion to the extracellular matrix." [GOC:hjd] is_a: GO:0001952 ! regulation of cell-matrix adhesion [Term] id: GO:0001954 name: positive regulation of cell-matrix adhesion namespace: biological_process def: "Any process that activates or increases the rate or extent of cell adhesion to an extracellular matrix." [GOC:hjd] is_a: GO:0001952 ! regulation of cell-matrix adhesion [Term] id: GO:0001955 name: blood vessel maturation namespace: biological_process def: "A developmental process, independent of morphogenetic (shape) change, that is required for a blood vessel to attain its fully functional state." [GOC:dph] relationship: part_of GO:0001568 ! blood vessel development [Term] id: GO:0001956 name: positive regulation of neurotransmitter secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of a neurotransmitter." [GOC:hjd] is_a: GO:0046928 ! regulation of neurotransmitter secretion [Term] id: GO:0001957 name: intramembranous ossification namespace: biological_process def: "The formation of bone in which osteoblasts secrete a collage-proteoglycan matrix that binds calcium salts and becomes calcified. Intramembranous ossification is the way flat bones and the shell of a turtle are formed." [ISBN:0878932437] is_a: GO:0001503 ! ossification [Term] id: GO:0001958 name: endochondral ossification namespace: biological_process def: "The formation of bone by the replacement of cartilage tissue with mineralized bone." [ISBN:0878932437] is_a: GO:0001503 ! ossification [Term] id: GO:0001959 name: regulation of cytokine and chemokine mediated signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the cytokine and chemokine mediated signaling pathway." [GOC:hjd] exact_synonym: "regulation of cytokine and chemokine mediated signalling pathway" [] is_a: GO:0009966 ! regulation of signal transduction relationship: part_of GO:0019221 ! cytokine and chemokine mediated signaling pathway [Term] id: GO:0001960 name: negative regulation of cytokine and chemokine mediated signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the cytokine and chemokine mediated signaling pathway." [GOC:hjd] exact_synonym: "negative regulation of cytokine and chemokine mediated signalling pathway" [] is_a: GO:0001959 ! regulation of cytokine and chemokine mediated signaling pathway is_a: GO:0009968 ! negative regulation of signal transduction [Term] id: GO:0001961 name: positive regulation of cytokine and chemokine mediated signaling pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a cytokine and chemokine mediated signaling pathway." [GOC:hjd] exact_synonym: "positive regulation of cytokine and chemokine mediated signalling pathway" [] is_a: GO:0001959 ! regulation of cytokine and chemokine mediated signaling pathway is_a: GO:0009967 ! positive regulation of signal transduction [Term] id: GO:0001962 name: alpha-1,3-galactosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a galactose residue from a donor molecule, such as GDP-galactose or UDP-galactose, to an oligosaccharide, forming an alpha-1,3-linkage." [GOC:hjd, PMID:10854427] narrow_synonym: "isoglobotriaosylceramide synthase" [] xref_analog: EC:2.4.1.- is_a: GO:0008378 ! galactosyltransferase activity [Term] id: GO:0001963 name: synaptic transmission, dopaminergic namespace: biological_process def: "The process of communication from a neuron to another neuron across a synapse using the neurotransmitter dopamine." [GOC:dph] is_a: GO:0007270 ! nerve-nerve synaptic transmission [Term] id: GO:0001964 name: startle response namespace: biological_process def: "An action or movement due to the application of a sudden unexpected stimulus." [GOC:dph] is_a: GO:0009605 ! response to external stimulus is_a: GO:0050905 ! neuromuscular physiological process [Term] id: GO:0001965 name: G-protein alpha-subunit binding namespace: molecular_function def: "Interacting selectively with a G-protein alpha subunit. The alpha subunit binds a guanine nucleotide." [GOC:hjd] exact_synonym: "G-alpha protein subunit binding" [] is_a: GO:0005515 ! protein binding [Term] id: GO:0001966 name: thigmotaxis namespace: biological_process def: "Locomotion of an organism in response to touch." [GOC:dph] exact_synonym: "stereotaxis" [] exact_synonym: "taxis in response to touch stimulus" [] broad_synonym: "taxis in response to mechanical stimulus" [] is_a: GO:0042330 ! taxis [Term] id: GO:0001967 name: suckling behavior namespace: biological_process def: "Specific actions of a newborn or infant mammal that result in the derivation of nourishment from the breast." [GOC:dph] exact_synonym: "nursing behavior" [] is_a: GO:0007631 ! feeding behavior is_a: GO:0051705 ! behavioral interaction between organisms [Term] id: GO:0001968 name: fibronectin binding namespace: molecular_function def: "Interacting selectively with a fibronectin, a group of related adhesive glycoproteins of high molecular weight found on the surface of animal cells, connective tissue matrices, and in extracellular fluids." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0001969 name: regulation of activation of membrane attack complex namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] is_a: GO:0030449 ! regulation of complement activation relationship: part_of GO:0001905 ! activation of membrane attack complex [Term] id: GO:0001970 name: positive regulation of activation of membrane attack complex namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] is_a: GO:0001969 ! regulation of activation of membrane attack complex is_a: GO:0045917 ! positive regulation of complement activation [Term] id: GO:0001971 name: negative regulation of activation of membrane attack complex namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of the activation of the membrane attack complex components of the complement cascade." [GOC:hjd] is_a: GO:0001969 ! regulation of activation of membrane attack complex is_a: GO:0045916 ! negative regulation of complement activation [Term] id: GO:0001972 name: retinoic acid binding namespace: molecular_function def: "Interacting selectively with retinoic acid, 3,7-dimethyl-9-(2,6,-trimethyl-1-cyclohexen-1-yl)-2,4,6,8-nonatetraenoic acid." [GOC:hjd] is_a: GO:0005501 ! retinoid binding [Term] id: GO:0001973 name: adenosine receptor signaling pathway namespace: biological_process def: "The series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands." [GOC:dph] is_a: GO:0007186 ! G-protein coupled receptor protein signaling pathway [Term] id: GO:0001974 name: blood vessel remodeling namespace: biological_process def: "The reorganization or renovation of existing blood vessels." [GOC:hjd] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0048514 ! blood vessel morphogenesis [Term] id: GO:0001975 name: response to amphetamine namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amphetamine stimulus. Amphetamines consist of a group of compounds related to alpha-methylphenethylamine." [GOC:dph] is_a: GO:0042493 ! response to drug [Term] id: GO:0001976 name: fast regulation of arterial pressure namespace: biological_process def: "The process that modulates the force with which blood moves through the circulatory system that responds to a change within minutes or hours." [ISBN:0721643949] related_synonym: "fast control of arterial pressure" [] relationship: part_of GO:0008217 ! blood pressure regulation [Term] id: GO:0001977 name: renal blood volume regulation of blood pressure namespace: biological_process def: "A slow mechanism of blood pressure regulation that responds to changes in pressure resulting from fluid and salt intake by modulating the quantity of blood in the circulatory system." [ISBN:072163949 "Textbook of Medical Physiology"] related_synonym: "renal blood volume control of blood pressure" [] is_a: GO:0050874 ! organismal physiological process relationship: part_of GO:0008217 ! blood pressure regulation [Term] id: GO:0001978 name: baroreceptor feedback regulation of blood pressure namespace: biological_process def: "The process that modulates blood pressure by sensing the amount of stretch occurring in large arteries and responding to the input via central nervous system control." [ISBN:072163949 "Textbook of Medical Physiology"] related_synonym: "baroreceptor feedback control of blood pressure" [] related_synonym: "baroreceptor pressure buffer system" [ISBN:068340007X "Stedman's Medical Dictionary"] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0001979 name: chemoreceptor regulation of blood pressure namespace: biological_process def: "The process that modulates blood pressure by the action of chemoreceptors found in the carotid and aortic bodies and their resultant modulation of the vasomotor center. Chemoreceptors respond to oxygen, carbon dioxide and hydrogen ions." [ISBN:072163949 "Textbook of Medical Physiology"] related_synonym: "chemoreceptor control of blood pressure" [] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0001980 name: ischemic regulation of blood pressure namespace: biological_process def: "The process that modulates blood pressure by the detection of carbon dioxide levels in the brain stem. Increased levels activate the sympathetic vasoconstrictor mechanism increasing the force with which blood flows through the circulatory system." [ISBN:072163949 "Textbook of Medical Physiology"] related_synonym: "CNS ischemic response" [ISBN:072163949 "Textbook of Medical Physiology"] related_synonym: "ischemic control of blood pressure" [] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0001981 name: baroreceptor detection of arterial stretch namespace: biological_process def: "The series of events by which the mechanical expansion of an artery is received and converted to a molecular signal." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0050982 ! detection of mechanical stimulus relationship: part_of GO:0001978 ! baroreceptor feedback regulation of blood pressure [Term] id: GO:0001982 name: baroreceptor response to lowering of blood pressure namespace: biological_process def: "The lowering of the number of nerve impulses from baroreceptors as a result of decreased stretch of an artery." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0001978 ! baroreceptor feedback regulation of blood pressure [Term] id: GO:0001983 name: baroreceptor response to increased blood pressure namespace: biological_process def: "The increase in nerve impulses from baroreceptors as a result of increased pressure on an artery." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0001978 ! baroreceptor feedback regulation of blood pressure [Term] id: GO:0001984 name: vasodilation of artery during baroreceptor response to increased blood pressure namespace: biological_process def: "An increase in the internal diameter of an artery, triggered by vasomotor suppression, during the chemoreceptor response to decreased blood pressure." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0001983 ! baroreceptor response to increased blood pressure [Term] id: GO:0001985 name: negative regulation of heart contraction rate in baroreceptor response to increased blood pressure namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of heart contraction as a result of the baroreceptor response to increased blood pressure." [ISBN:072163949 "Textbook of Medical Physiology"] exact_synonym: "negative control of heart contraction rate in baroreceptor response to increased blood pressure" [] is_a: GO:0045822 ! negative regulation of heart contraction relationship: part_of GO:0001983 ! baroreceptor response to increased blood pressure [Term] id: GO:0001986 name: decreased strength of heart contraction during baroreceptor response to increased blood pressure namespace: biological_process def: "Any process that decreases the force with which the cardiac muscles of the heart pump blood through the circulatory system as a result of the baroreceptor response to increased blood pressure." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0045822 ! negative regulation of heart contraction relationship: part_of GO:0001983 ! baroreceptor response to increased blood pressure [Term] id: GO:0001987 name: vasoconstriction of artery during baroreceptor response to lowering of blood pressure namespace: biological_process def: "A process that is triggered by vasomotor excitation and results in a decrease in the diameter of an artery during the baroreceptor response to decreased blood pressure." [ISBN:072163949 "Textbook of Medical Physiology"] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001982 ! baroreceptor response to lowering of blood pressure [Term] id: GO:0001988 name: positive regulation of heart contraction rate in baroreceptor response to decreased blood pressure namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of heart contraction as a result of the baroreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] exact_synonym: "positive control of heart contraction rate in baroreceptor response to decreased blood pressure" [] is_a: GO:0045823 ! positive regulation of heart contraction relationship: part_of GO:0001982 ! baroreceptor response to lowering of blood pressure [Term] id: GO:0001989 name: increased strength of heart contraction during baroreceptor response to decreased blood pressure namespace: biological_process def: "Any process that increases the force with which the cardiac muscles of the heart pump blood through the circulatory system as a result of the baroreceptor response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0045823 ! positive regulation of heart contraction relationship: part_of GO:0001982 ! baroreceptor response to lowering of blood pressure [Term] id: GO:0001990 name: regulation of blood pressure by hormones namespace: biological_process def: "The process by which hormones modulate the force with which blood passes through the circulatory system. A hormone is one of a group of substances formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells, in the same organism, upon which they have a specific regulatory action." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "hormonal control of blood pressure" [] exact_synonym: "hormonal regulation of blood pressure" [] exact_synonym: "regulation of blood pressure by hormones" [] is_a: GO:0050886 ! endocrine physiological process relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0001991 name: regulation of blood pressure by circulatory renin-angiotensin namespace: biological_process def: "The process by which the secretion of angiotensin II into the bloodstream modulates the force with which blood passes through the circulatory system." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "circulatory renin-angiotensin control of blood pressure" [] related_synonym: "control of blood pressure by circulatory renin-angiotensin" [] related_synonym: "renin-angiotensin blood pressure control" [] exact_synonym: "circulatory renin-angiotensin blood pressure regulation" [] exact_synonym: "circulatory renin-angiotensin regulation of blood pressure" [] is_a: GO:0001990 ! regulation of blood pressure by hormones [Term] id: GO:0001992 name: regulation of blood pressure by vasopressin namespace: biological_process def: "The process by which the secretion of vasopressin into the bloodstream modulates the force with which blood passes through the circulatory system." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "vasopressin control of blood pressure" [] is_a: GO:0001990 ! regulation of blood pressure by hormones [Term] id: GO:0001993 name: norepinephrine-epinephrine regulation of blood pressure namespace: biological_process def: "The process by which the secretion of norepinephrine or epinephrine into the bloodstream modulates the force with which blood passes through the circulatory system." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "norepinephrine-epinephrine blood pressure control" [] exact_synonym: "norepinephrine-epinephrine blood pressure regulation" [] is_a: GO:0001990 ! regulation of blood pressure by hormones [Term] id: GO:0001994 name: norepinephrine-epinephrine vasoconstriction during regulation of blood pressure namespace: biological_process def: "A process that results in a decrease in the diameter of an artery during the norepinephrine-epinephrine response to decreased blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "norepinephrine-epinephrine vasoconstriction during blood pressure control" [] related_synonym: "norepinephrine-epinephrine vasoconstriction during control of blood pressure" [] exact_synonym: "norepinephrine-epinephrine vasoconstriction during blood pressure regulation" [] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001993 ! norepinephrine-epinephrine regulation of blood pressure [Term] id: GO:0001995 name: norepinephrine-epinephrine catabolism in blood stream namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of norepinephrine or epinephrine in the bloodstream." [GOC:hjd] is_a: GO:0042419 ! epinephrine catabolism relationship: part_of GO:0001993 ! norepinephrine-epinephrine regulation of blood pressure [Term] id: GO:0001996 name: positive regulation of heart contraction rate by epinephrine-norepinephrine namespace: biological_process def: "The process by which the presence of epinephrine or norepinephrine in the bloodstream activates, maintains or increases the rate of heart contraction." [GOC:dph] related_synonym: "increased chronotropy by epinephrine-norepinephrine" [] related_synonym: "positive control of heart contraction rate by epinephrine-norepinephrine" [] is_a: GO:0045823 ! positive regulation of heart contraction relationship: part_of GO:0001993 ! norepinephrine-epinephrine regulation of blood pressure [Term] id: GO:0001997 name: increased strength of heart contraction by epinephrine-norepinephrine namespace: biological_process def: "Any process that increases the force with which the cardiac muscles of the heart pump blood through the circulatory system as a result of the presence of epinephrine or norepinephrine in the bloodstream." [GOC:dph] related_synonym: "increased inotropy by epinephrine-norepinephrine " [] is_a: GO:0045823 ! positive regulation of heart contraction relationship: part_of GO:0001993 ! norepinephrine-epinephrine regulation of blood pressure [Term] id: GO:0001998 name: angiotensin mediated vasoconstriction during regulation of blood pressure namespace: biological_process def: "The decrease in blood vessel diameter as a result of the release of angiotensin into the blood stream." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "angiotensin mediated vasoconstriction during blood pressure control" [] related_synonym: "angiotensin mediated vasoconstriction during control of blood pressure" [] exact_synonym: "angiotensin mediated vasoconstriction during blood pressure regulation" [] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0002034 ! renin-angiotensin regulation of blood vessel size [Term] id: GO:0001999 name: renal response to blood flow during renin-angiotensin regulation of blood pressure namespace: biological_process def: "The physiological response of the kidneys to a decrease in blood flow." [GOC:dph] related_synonym: "renal response to blood flow during renin-angiotensin control of blood pressure" [] is_a: GO:0050874 ! organismal physiological process relationship: part_of GO:0001991 ! regulation of blood pressure by circulatory renin-angiotensin [Term] id: GO:0002000 name: detection of renal blood flow namespace: biological_process def: "The process by which the juxtaglomerular cells of the kidneys receive information about the amount of blood flowing through the arterioles and converts the information to a molecular signal." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0050982 ! detection of mechanical stimulus relationship: part_of GO:0001999 ! renal response to blood flow during renin-angiotensin regulation of blood pressure [Term] id: GO:0002001 name: renin secretion into blood stream namespace: biological_process def: "The regulated release of renin into the blood stream by juxtoglomerular cells." [ISBN:0721643949 "Textbook of Medical Physiology"] exact_synonym: "renin release into blood stream" [] is_a: GO:0046903 ! secretion relationship: part_of GO:0001999 ! renal response to blood flow during renin-angiotensin regulation of blood pressure [Term] id: GO:0002002 name: regulation of angiotensin levels in blood namespace: biological_process def: "The process that modulates the level of angiotensin in the blood by balancing the maturation of renin substrate to mature angiotensin and the catabolism of mature angiotensin." [GOC:dph] related_synonym: "control of angiotensin levels in blood" [] related_synonym: "control of blood angiotensin level" [] exact_synonym: "regulation of blood angiotensin level" [] is_a: GO:0019222 ! regulation of metabolism relationship: part_of GO:0001991 ! regulation of blood pressure by circulatory renin-angiotensin [Term] id: GO:0002003 name: angiotensin maturation namespace: biological_process def: "The process leading to the attainment of the full functional capacity of angiotensin by conversion of renin substrate into mature angiotensin in the blood." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0051605 ! proteolysis during protein maturation relationship: part_of GO:0002002 ! regulation of angiotensin levels in blood [Term] id: GO:0002004 name: secretion of vasopressin during fast regulation of blood pressure namespace: biological_process def: "The regulated release of the hormone vasopressin into the blood stream by the hypothalamus and pituitary gland during fast regulation of blood pressure." [ISBN:0721643949 "Textbook of Medical Physiology"] exact_synonym: "secretion of vasopressin during fast control of blood pressure" [] is_a: GO:0030103 ! vasopressin secretion relationship: part_of GO:0001992 ! regulation of blood pressure by vasopressin [Term] id: GO:0002005 name: angiotensin catabolism in blood namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of angiotensin in the blood." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0044254 ! organismal protein catabolism relationship: part_of GO:0002002 ! regulation of angiotensin levels in blood [Term] id: GO:0002006 name: vasopressin mediated vasoconstriction during blood pressure control namespace: biological_process def: "The decrease in blood vessel diameter as a result of the release of vasopressin into the blood stream." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001992 ! regulation of blood pressure by vasopressin [Term] id: GO:0002007 name: detection of hypoxic conditions in blood by chemoreceptors namespace: biological_process def: "The process by which information about the levels of oxygen, carbon dioxide and hydrogen ions are received and are converted to a molecular signal by chemoreceptors in the carotid bodies and the aortic bodies." [GOC:dph] is_a: GO:0009593 ! detection of chemical stimulus relationship: part_of GO:0001979 ! chemoreceptor regulation of blood pressure [Term] id: GO:0002008 name: excitation of vasomotor center by chemoreceptor signaling namespace: biological_process def: "The process by which the molecular signal from the carotid and aortic bodies is relayed to the vasomotor center, causing it to signal an increase arterial pressure." [GOC:dph] exact_synonym: "excitation of vasomotor center by chemoreceptor signalling" [] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001979 ! chemoreceptor regulation of blood pressure [Term] id: GO:0002009 name: morphogenesis of an epithelium namespace: biological_process def: "The process by which the anatomical structures of epithelia are generated and organized. Morphogenesis pertains to the creation of form. An epithelium is a sheet of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube." [GOC:jl, ISBN:0198506732] is_a: GO:0009653 ! morphogenesis [Term] id: GO:0002010 name: excitation of vasomotor center by baroreceptor signaling namespace: biological_process def: "The process by which the molecular signal from the arterial baroreceptors is relayed to the vasomotor center causing it to signal increase arterial pressure." [GOC:dph] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001982 ! baroreceptor response to lowering of blood pressure [Term] id: GO:0002011 name: morphogenesis of an epithelial sheet namespace: biological_process def: "The process by which the anatomical structures of an epithelial sheet are generated and organized. Morphogenesis pertains to the creation of form." [GOC:jl] is_a: GO:0002009 ! morphogenesis of an epithelium [Term] id: GO:0002012 name: vasoconstriction of artery during chemoreceptor response to lowering of blood pressure namespace: biological_process def: "A process that is triggered by vasomotor excitation and results in a decrease in the diameter of an artery during the chemoreceptor response to decreased blood pressure." [GOC:dph] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001979 ! chemoreceptor regulation of blood pressure [Term] id: GO:0002013 name: detection of carbon dioxide by vasomotor center namespace: biological_process def: "The process by a carbon dioxide stimulus is received and converted to a molecular signal by the vasomotor center of the central nervous system." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0009593 ! detection of chemical stimulus relationship: part_of GO:0001980 ! ischemic regulation of blood pressure [Term] id: GO:0002014 name: vasoconstriction of artery during ischemic response to lowering of blood pressure namespace: biological_process def: "A process that is triggered by vasomotor excitation resulting from the detection of high carbon dioxide levels in the vasomotor center of the central nervous system." [ISBN:0721643949 "Textbook of Medical Physiology"] is_a: GO:0042310 ! vasoconstriction relationship: part_of GO:0001980 ! ischemic regulation of blood pressure [Term] id: GO:0002015 name: atrial regulation of blood pressure namespace: biological_process def: "Processes that control blood pressure by sensing the amount of stretch occurring in the atria." [GOC:dph] related_synonym: "atrial control of blood pressure" [] related_synonym: "atrial reflex" [GOC:dph] relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0002016 name: renin-angiotensin regulation of body fluid levels namespace: biological_process def: "The process by which the renin-angiotensin system controls the rate of diuresis and natriuresis." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "renin-angiotensin control of body fluid levels" [] is_a: GO:0050878 ! regulation of body fluids is_a: GO:0050886 ! endocrine physiological process relationship: part_of GO:0001977 ! renal blood volume regulation of blood pressure [Term] id: GO:0002017 name: aldosterone mediated regulation of body fluids namespace: biological_process def: "The process by which the hormone aldosterone decreases the rate of diuresis and natriuresis." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "aldosterone mediated control of body fluids" [] is_a: GO:0050878 ! regulation of body fluids is_a: GO:0050886 ! endocrine physiological process relationship: part_of GO:0001977 ! renal blood volume regulation of blood pressure [Term] id: GO:0002018 name: renin-angiotensin regulation of aldosterone production namespace: biological_process def: "The process by which an increase in active angiotensin stimulates the adrenal cortices to secrete aldosterone." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "renin-angiotensin control of aldosterone production" [] is_a: GO:0050886 ! endocrine physiological process relationship: part_of GO:0002016 ! renin-angiotensin regulation of body fluid levels [Term] id: GO:0002019 name: angiotensin mediated regulation of renal output namespace: biological_process def: "The process by which angiotensin directly decreases the rate of natriuresis and diuresis in the kidney." [ISBN:0721643949 "Textbook of Medical Physiology"] related_synonym: "angiotensin mediated control of renal output" [] is_a: GO:0051239 ! regulation of organismal physiological process relationship: part_of GO:0002016 ! renin-angiotensin regulation of body fluid levels [Term] id: GO:0002020 name: protease binding namespace: molecular_function def: "Interacting selectively with any protease or peptidase." [GOC:hjd] is_a: GO:0019899 ! enzyme binding [Term] id: GO:0002021 name: response to dietary excess namespace: biological_process def: "The physiological process by which dietary excess is sensed by the central nervous system and results in a reduction in food intake and increased energy expenditure." [PMID:12161655] is_a: GO:0050874 ! organismal physiological process relationship: part_of GO:0040014 ! regulation of body size [Term] id: GO:0002022 name: detection of dietary excess namespace: biological_process def: "The mechanism by which the brain senses excessive caloric intake." [PMID:12161655] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002023 name: reduction of food intake in response to dietary excess namespace: biological_process def: "The specific actions of an organism that are triggered by the detection of dietary excess and result in a decreased intake of food." [PMID:12161655] is_a: GO:0042755 ! eating behavior relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002024 name: diet induced thermogenesis namespace: biological_process def: "The process that results in increased metabolic rate in tissues of an organism. It is triggered by the detection of dietary excess. This process is achieved via signalling in the sympathetic nervous system." [PMID:12161655] is_a: GO:0044253 ! positive regulation of organismal metabolism relationship: part_of GO:0002021 ! response to dietary excess [Term] id: GO:0002025 name: norepinephrine-epinephrine vasodilation during regulation of blood pressure namespace: biological_process def: "A process that results in an increase in the diameter of an artery during the norepinephrine-epinephrine response to blood pressure change." [PMID:10358008] exact_synonym: "norepinephrine-epinephrine vasodilation during blood pressure regulation" [] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0001993 ! norepinephrine-epinephrine regulation of blood pressure [Term] id: GO:0002026 name: cardiac inotropy namespace: biological_process def: "Any process that modulates the extent of heart contraction, changing the force with which blood is propelled." [PMID:10358008] is_a: GO:0008016 ! regulation of heart contraction [Term] id: GO:0002027 name: cardiac chronotropy namespace: biological_process def: "Any process that modulates the frequency or rate of heart contraction." [PMID:10358008] exact_synonym: "regulation of heart contraction rate" [] exact_synonym: "regulation of rate of heart contraction" [] is_a: GO:0008016 ! regulation of heart contraction [Term] id: GO:0002028 name: regulation of sodium ion transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of sodium ions (Na+) into, out of, within or between cells." [GOC:dph] exact_synonym: "regulation of Na+ transport" [] exact_synonym: "regulation of sodium transport" [] is_a: GO:0043269 ! regulation of ion transport relationship: part_of GO:0006814 ! sodium ion transport [Term] id: GO:0002029 name: desensitization of G-protein coupled receptor protein signaling pathway namespace: biological_process def: "The process that stops, prevents or reduces the frequency, rate or extent of G-protein coupled receptor protein signaling pathway activity after prolonged stimulation with an agonist of the pathway." [PMID:8396717] is_a: GO:0045744 ! negative regulation of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002030 name: inhibitory G-protein coupled receptor phosphorylation namespace: biological_process def: "The process that inhibits the signaling function of a G-protein coupled receptor by addition of a phosphoric group to its third intracellular loop consensus site." [PMID:8396717] is_a: GO:0006468 ! protein amino acid phosphorylation relationship: part_of GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002031 name: G-protein coupled receptor internalization namespace: biological_process def: "The process by which a G-protein coupled receptor is taken up into an endocytic vesicle." [PMID:8396717] is_a: GO:0031623 ! receptor internalization relationship: part_of GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002032 name: arrestin mediated desensitization of G-protein coupled receptor protein signaling pathway namespace: biological_process def: "The process that inhibits the signaling function of a G-protein coupled receptor by uncoupling the receptor from its downstream G proteins." [PMID:8396717] is_a: GO:0043393 ! regulation of protein binding relationship: part_of GO:0002029 ! desensitization of G-protein coupled receptor protein signaling pathway [Term] id: GO:0002033 name: angiotensin mediated vasodilation during regulation of blood pressure namespace: biological_process def: "The process that increases the size of a blood vessel via the renin-angiotensin system." [PMID:10425188] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0002034 ! renin-angiotensin regulation of blood vessel size [Term] id: GO:0002034 name: renin-angiotensin regulation of blood vessel size namespace: biological_process def: "The process where the diameter of a blood vessel is changed due to activity of the renin-angiotensin system." [GOC:dph] is_a: GO:0050880 ! regulation of blood vessel size relationship: part_of GO:0001991 ! regulation of blood pressure by circulatory renin-angiotensin [Term] id: GO:0002035 name: brain renin-angiotensin system namespace: biological_process def: "The process by which an angiotensin-mediated signaling system present in the brain regulates the force with which blood passes through the circulatory system." [PMID:2909574] is_a: GO:0050877 ! neurophysiological process relationship: part_of GO:0001976 ! fast regulation of arterial pressure [Term] id: GO:0002036 name: regulation of L-glutamate transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of L-glutamate transport." [GOC:hjd] is_a: GO:0051955 ! regulation of amino acid transport relationship: part_of GO:0015813 ! L-glutamate transport [Term] id: GO:0002037 name: negative regulation of L-glutamate transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of L-glutamate transport." [GOC:hjd] is_a: GO:0002036 ! regulation of L-glutamate transport is_a: GO:0051956 ! negative regulation of amino acid transport [Term] id: GO:0002038 name: positive regulation of L-glutamate transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of L-glutamate transport." [GOC:hjd] is_a: GO:0002036 ! regulation of L-glutamate transport is_a: GO:0051957 ! positive regulation of amino acid transport [Term] id: GO:0002039 name: p53 binding namespace: molecular_function def: "Interacting selectively with one of the p53 family of proteins." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0002040 name: sprouting angiogenesis namespace: biological_process def: "The extension of new blood vessels from existing capillaries into avascular tissues resulting from the proliferation of blood vessel endothelial cells." [PMID:16391003] is_a: GO:0001525 ! angiogenesis [Term] id: GO:0002041 name: intussusceptive angiogenesis namespace: biological_process def: "The formation of new blood vessels as a result of the insertion and extension of lumenal tissue pillars." [PMID:16391003] is_a: GO:0001525 ! angiogenesis [Term] id: GO:0002042 name: cell migration during sprouting angiogenesis namespace: biological_process def: "The orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels during sprouting angiogenesis." [PMID:16391003] is_a: GO:0043534 ! blood vessel endothelial cell migration relationship: part_of GO:0002040 ! sprouting angiogenesis [Term] id: GO:0002043 name: blood vessel endothelial cell proliferation during sprouting angiogenesis namespace: biological_process def: "The multiplication or reproduction of blood vessel endothelial cells, resulting in the rapid expansion of a cell population during sprouting angiogenesis." [PMID:16391003] is_a: GO:0001935 ! endothelial cell proliferation relationship: part_of GO:0002040 ! sprouting angiogenesis [Term] id: GO:0002044 name: blood vessel endothelial cell migration during intussusceptive angiogenesis namespace: biological_process def: "The orderly movement of endothelial cells into the extracellular matrix in order to form new blood vessels during intussusceptive angiogenesis." [PMID:16391003] is_a: GO:0043534 ! blood vessel endothelial cell migration relationship: part_of GO:0002041 ! intussusceptive angiogenesis [Term] id: GO:0002045 name: regulation of cell adhesion during intussusceptive angiogenesis namespace: biological_process def: "The process that modulates the frequency, rate or extent of attachment of a blood vessel endothelial cell to another cell or to the extracellular matrix during intussusceptive angiogenesis." [PMID:16391003] is_a: GO:0030155 ! regulation of cell adhesion relationship: part_of GO:0002041 ! intussusceptive angiogenesis [Term] id: GO:0002046 name: opsin binding namespace: molecular_function def: "Interacting selectively with an opsin, any of a group of hydrophbic, integral membrane glycoproteins located primarily in the disc membrane of rods or cones, involved in photoreception." [GOC:hjd] is_a: GO:0005515 ! protein binding [Term] id: GO:0002047 name: phenazine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a phenazine antibiotic, a polycyclic pyrazine with two nitrogen atoms in the ring." [GOC:dph] related_synonym: "acridizine biosynthesis" [] related_synonym: "azophenylene biosynthesis" [] related_synonym: "dibenzo-p-diazine biosynthesis" [] related_synonym: "dibenzopyrazine biosynthesis" [] is_a: GO:0017000 ! antibiotic biosynthesis [Term] id: GO:0002048 name: pyoverdine metabolism namespace: biological_process def: "The chemical reactions and pathways involving the siderochrome pyoverdine." [PMID:15317763] is_a: GO:0009237 ! siderophore metabolism [Term] id: GO:0002049 name: pyoverdine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the siderochrome pyoverdine." [PMID:15317763] is_a: GO:0002048 ! pyoverdine metabolism is_a: GO:0019290 ! siderophore biosynthesis [Term] id: GO:0002050 name: pyoverdine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the siderochrome pyoverdine." [PMID:15317763] is_a: GO:0002048 ! pyoverdine metabolism is_a: GO:0046215 ! siderochrome catabolism [Term] id: GO:0002051 name: osteoblast fate commitment namespace: biological_process def: "The commitment of mesenchymal cells to the specific cell fate of an osteoblast. An osteoblast is a bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone." [GOC:dph] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0001649 ! osteoblast differentiation [Term] id: GO:0002052 name: positive regulation of neuroblast proliferation namespace: biological_process def: "Any process that activates or increases the rate of neuroblast proliferation." [GOC:dph] is_a: GO:0008284 ! positive regulation of cell proliferation relationship: part_of GO:0007405 ! neuroblast proliferation [Term] id: GO:0002053 name: positive regulation of mesenchymal cell proliferation namespace: biological_process def: "The process of activating or increasing the rate or extent of mesenchymal cell proliferation. Mesenchymal cells are loosely organized embryonic cells." [GOC:dph] is_a: GO:0008284 ! positive regulation of cell proliferation [Term] id: GO:0002054 name: nucleobase binding namespace: molecular_function def: "Interacting selectively with an nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases." [GOC:hjd] is_a: GO:0005488 ! binding [Term] id: GO:0002055 name: adenine binding namespace: molecular_function def: "Interacting selectively with adenine, a purine base." [GOC:hjd] exact_synonym: "6-aminopurine binding" [] is_a: GO:0002060 ! purine binding [Term] id: GO:0002056 name: cytosine binding namespace: molecular_function def: "Interactiing selectively with cytosine." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002057 name: guanine binding namespace: molecular_function def: "Interacting selectively with guanine." [GOC:hjd] is_a: GO:0002060 ! purine binding [Term] id: GO:0002058 name: uracil binding namespace: molecular_function def: "Interacting selectively with uracil." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002059 name: thymine binding namespace: molecular_function def: "Interacting selectively with thymine." [GOC:hjd] is_a: GO:0002061 ! pyrimidine binding [Term] id: GO:0002060 name: purine binding namespace: molecular_function def: "Interacting selectively with a purine, an organic nitrogenous base." [GOC:hjd] is_a: GO:0002054 ! nucleobase binding [Term] id: GO:0002061 name: pyrimidine binding namespace: molecular_function def: "Interacting selectively with a pyrimidine, an organic nitrogenous base." [GOC:hjd] exact_synonym: "1,3-diazine binding" [] is_a: GO:0002054 ! nucleobase binding [Term] id: GO:0002062 name: chondrocyte differentiation namespace: biological_process def: "The process whereby a chondroblast acquires specialized structural and/or functional features of a chondrocyte. A chondrocyte is a polymorphic cell that forms cartilage." [GOC:dph] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0051216 ! cartilage development [Term] id: GO:0002063 name: chondrocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0002062 ! chondrocyte differentiation [Term] id: GO:0002064 name: epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelial cell over time, from its formation to the mature structure. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0030855 ! epithelial cell differentiation [Term] id: GO:0002065 name: columnar/cuboidal epithelial cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of a columnar/cuboidal epithelial cell. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0030855 ! epithelial cell differentiation [Term] id: GO:0002066 name: columnar/cuboidal epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of an columnar/cuboidal epithelial cell over time, from its formation to the mature structure. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0002064 ! epithelial cell development relationship: part_of GO:0002065 ! columnar/cuboidal epithelial cell differentiation [Term] id: GO:0002067 name: glandular epithelial cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized cell acquires specialized features of a glandular epithelial cell. A glandular epithelial cell is a columnar/cuboidal epithelial cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002065 ! columnar/cuboidal epithelial cell differentiation [Term] id: GO:0002068 name: glandular epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of a glandular epithelial cell over time, from its formation to the mature structure. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002066 ! columnar/cuboidal epithelial cell development relationship: part_of GO:0002067 ! glandular epithelial cell differentiation [Term] id: GO:0002069 name: columnar/cuboidal epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for a columna/cuboidal epithelial cell to attain its fully functional state. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0002070 ! epithelial cell maturation relationship: part_of GO:0002066 ! columnar/cuboidal epithelial cell development [Term] id: GO:0002070 name: epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for an epithelial cell to attain its fully functional state. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048469 ! cell maturation relationship: part_of GO:0002064 ! epithelial cell development [Term] id: GO:0002071 name: glandular epithelial cell maturation namespace: biological_process def: "The developmental process, independent of morphogenetic (shape) change, that is required for a glandular epithelial cell to attain its fully functional state. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002069 ! columnar/cuboidal epithelial cell maturation relationship: part_of GO:0002068 ! glandular epithelial cell development [Term] id: GO:0002072 name: optic cup morphogenesis (sensu Mammalia) namespace: biological_process def: "The invagination of the optic vesicle to form two-walled indentations, the optic cups, that will go on to form the retina. This process begins with the optic vesicle becoming a two-walled structure and its subsequent shape changes. It does not include the fate commitment of cells to become the pigmented retina and the neural retina. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium relationship: part_of GO:0048595 ! eye morphogenesis (sensu Mammalia) [Term] id: GO:0002073 name: retina development (sensu Mammalia) namespace: biological_process def: "The process whose specific outcome is the progression of the retina over time, from its formation to the mature structure. The process begins after the optic cup has reached its final shape as a two-layered structure and ends with a mature functional retina. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:dph, ISBN:0878932437] is_a: GO:0001747 ! eye development (sensu Mammalia) [Term] id: GO:0002074 name: extraocular skeletal muscle development (sensu Mammalia) namespace: biological_process def: "The process whose specific outcome is the progression of the extraocular skeletal muscle over time, from its formation to the mature structure. The extraocular muscle is derived from cranial mesoderm. The muscle begins its development with the differentiation of the muscle cells and ends with the mature muscle. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:dph, MA:0001271, PMID:16638982] is_a: GO:0048637 ! skeletal muscle development relationship: part_of GO:0001747 ! eye development (sensu Mammalia) [Term] id: GO:0002075 name: somitomeric trunk muscle development (sensu Mammalia) namespace: biological_process def: "The process whose specific outcome is the progression of the somitomeric trunk muscle over time, from its formation to the mature structure. The somitomeric trunk muscle is derived from somitomeric mesoderm. The muscle begins its development with the differentiation of the muscle cells and ends with the mature muscle. As in, but not restricted to, mammals (Mammalia, ncbi_taxonomy_id:40674)." [GOC:dph, PMID:16638982] is_a: GO:0048637 ! skeletal muscle development [Term] id: GO:0002076 name: osteoblast development namespace: biological_process def: "The process whose specific outcome is the progression of an osteoblast over time, from its formation to the mature structure. Osteoblast development does not include the steps involved in committing a cranial neural crest cell or an osteoprogenitor cell to an osteoblast fate. An osteoblast is a cell that gives rise to bone." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0001649 ! osteoblast differentiation [Term] id: GO:0002077 name: acrosome matrix dispersal namespace: biological_process def: "The proteolytic digestion of components in the acrosomal matrix that allows for their release into the egg. The dispersal of the components allows for the inner acrosomal membrane to interact with the egg." [GOC:dph, PMID:3886029] is_a: GO:0006508 ! proteolysis relationship: part_of GO:0007340 ! acrosome reaction [Term] id: GO:0002078 name: membrane fusion during acrosome reaction namespace: biological_process def: "The fusion of the plasma membrane of the sperm with the outer acrosomal membrane." [GOC:dph, PMID:3886029] exact_synonym: "membrane fusion involved in the acrosomal reaction" [] is_a: GO:0006944 ! membrane fusion relationship: part_of GO:0007340 ! acrosome reaction [Term] id: GO:0002079 name: inner acrosomal membrane namespace: cellular_component def: "The acrosomal membrane region that underlies the acrosomal vesicle and is located toward the sperm nucleus. This region is responsible for molecular interactions allowing the sperm to penetrate the zona pellucida and fuses with the egg plasma membrane." [GOC:dph, PMID:3899643, PMID:8936405] is_a: GO:0044425 ! membrane part relationship: part_of GO:0002080 ! acrosomal membrane [Term] id: GO:0002080 name: acrosomal membrane namespace: cellular_component def: "The membrane that surrounds the acrosomal lumen. The acrosome is a special type of lysosome in the head of a spermatozoon that contains acid hydrolases and is concerned with the breakdown of the outer membrane of the ovum during fertilization." [GOC:dph] is_a: GO:0031090 ! organelle membrane relationship: part_of GO:0001669 ! acrosome [Term] id: GO:0002081 name: outer acrosomal membrane namespace: cellular_component def: "The acrosomal region that underlies the plasma membrane of the sperm. This membrane fuses with the sperm plasma membrane as part of the acrosome reaction." [GOC:dph, PMID:8936405] is_a: GO:0044425 ! membrane part relationship: part_of GO:0002080 ! acrosomal membrane [Term] id: GO:0002082 name: regulation of oxidative phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the phosphorylation of ADP to ATP that accompanies the oxidation of a metabolite through the operation of the respiratory chain. Oxidation of compounds establishes a proton gradient across the membrane, providing the energy for ATP synthesis." [GOC:dph] is_a: GO:0043467 ! regulation of generation of precursor metabolites and energy relationship: part_of GO:0006119 ! oxidative phosphorylation [Term] id: GO:0002083 name: 4-hydroxybenzoate decaprenyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: decaprenyl-PP + p-hydroxybenzoate = decaprenyl-4-hydroxybenzoate + diphosphate." [GOC:hjd] is_a: GO:0004659 ! prenyltransferase activity [Term] id: GO:0002084 name: protein depalmitoylation namespace: biological_process def: "The removal of palymitoyl groups from a lipoprotein." [GOC:hjd] is_a: GO:0042159 ! lipoprotein catabolism [Term] id: GO:0002117 name: larval development (sensu Amphibia) namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. As in, but not restricted to, the amphibia (Amphibia, ncbi_taxonomy_id:8292)." [GOC:go_curators] is_a: GO:0002164 ! larval development [Term] id: GO:0002119 name: larval development (sensu Nematoda) namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. This begins with the newly hatched first-stage larva and ends with the end of the last larval stage (e.g. fourth-stage in C. elegans) before molting to adulthood. As in, but not restricted to, the roundworms (Nematoda, ncbi_taxonomy_id:6231)." [GOC:ems] is_a: GO:0002164 ! larval development [Term] id: GO:0002164 name: larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. The larva is the early, immature form of any animal when more or less of a metamorphosis takes place, before the assumption of the mature shape." [GOC:jic, http://cancerweb.ncl.ac.uk] is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002165 name: larval or pupal development (sensu Insecta) namespace: biological_process def: "The process whose specific outcome is the progression of the larva or pupa over time, from its formation to the mature structure. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." [GOC:jic] is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002168 name: larval development (sensu Insecta) namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. This begins with the newly hatched first-instar larva, through its maturation to the end of the last larval stage. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." [GOC:bf] is_a: GO:0002164 ! larval development is_a: GO:0002165 ! larval or pupal development (sensu Insecta) [Term] id: GO:0002200 name: somatic diversification of immune receptors namespace: biological_process def: "The somatic process allowing for the production of immune receptors whose specificity is not encoded in the germline genomic sequences." [GOC:add, ISBN:0781735149, PMID:16102575, PMID:16166509] comment: Note that this process covers somatic recombination, gene conversion, hypermutation, N-region addition, and alternate splicing processes of immune receptor diversification. is_a: GO:0002376 ! immune system process relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0002201 name: somatic diversification of DSCAM-based immune receptors namespace: biological_process def: "The somatic process by means of which sequence diversity of the DSCAM-based immune receptors of insects is generated." [GOC:add, PMID:16261174] comment: Note that this type of immune receptor may not be limited to insects. is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002202 name: somatic diversification of variable lymphocyte receptors of jawless fish namespace: biological_process def: "The somatic process by means of which sequence diversity of the variable lymphocyte receptors (VLR) of jawless fish is generated." [GOC:add, PMID:16373579] comment: Note that jawless fish refers to both lamprays (Petremyzontidae, ncbi_taxonomy_id:7746) and hagfish (Myxinidae, ncbi_taxonomy_id:7762). is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002203 name: proteolysis by cytosolic proteases associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by cytosolic resident proteases during antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15224092, PMID:15771591] comment: Note that a separate term covers proteolysis by the proteasome complex (proteosomal proteolysis associated with antigen processing and presentation ; GO:0002497). is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002204 name: somatic recombination of immunoglobulin genes during immune response namespace: biological_process def: "The process by which immunoglobulin genes are formed through recombination of the germline genetic elements, also known as immunoglobulin gene segments, within a single locus following the induction of an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "somatic recombination of antibody genes during immune response" [] is_a: GO:0002208 ! somatic diversification of immunoglobulins during immune response is_a: GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002205 name: somatic hypermutation of immunoglobulin genes during immune response namespace: biological_process def: "Mutations occurring somatically that result in amino acid changes in the rearranged V regions of immunoglobulins following the induction of an immune response." [GOC:add, ISBN:0781735149, PMID:11205333, PMID:14991701] exact_synonym: "somatic hypermutation of antibody genes during immune response" [] is_a: GO:0002208 ! somatic diversification of immunoglobulins during immune response is_a: GO:0016446 ! somatic hypermutation of immunoglobulin genes relationship: part_of GO:0002344 ! B cell affinity maturation [Term] id: GO:0002206 name: gene conversion of immunoglobulin genes namespace: biological_process def: "The somatic process by which immunoglobulin genes are diversified through the mechanism of gene conversion." [GOC:add, PMID:14991701] exact_synonym: "gene conversion of antibody genes" [] is_a: GO:0002565 ! somatic diversification of immune receptors via gene conversion is_a: GO:0016445 ! somatic diversification of immunoglobulins [Term] id: GO:0002207 name: gene conversion of immunoglobulin genes during immune response namespace: biological_process def: "The somatic process by which immunoglobulin genes are diversified through the mechanism of gene conversion following the induction of an immune response." [GOC:add, PMID:14991701] exact_synonym: "gene conversion of antibody genes during immune response" [] is_a: GO:0002206 ! gene conversion of immunoglobulin genes is_a: GO:0002208 ! somatic diversification of immunoglobulins during immune response [Term] id: GO:0002208 name: somatic diversification of immunoglobulins during immune response namespace: biological_process def: "The somatic process by means of which sequence diversity of immunoglobulins is generated after the induction of an immune response." [GOC:add, ISBN:0781735149, PMID:14991701] exact_synonym: "somatic diversification of antibodies during immune response" [] is_a: GO:0016445 ! somatic diversification of immunoglobulins relationship: part_of GO:0002381 ! immunoglobulin production during immune response [Term] id: GO:0002209 name: behavioral defense response namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat to that organism." [GOC:add] exact_synonym: "behavioural defense response" [] is_a: GO:0006952 ! defense response is_a: GO:0007610 ! behavior [Term] id: GO:0002210 name: behavioral response to wounding namespace: biological_process def: "A behavioral response resulting from wounding." [GOC:add] exact_synonym: "behavioural response to wounding" [] is_a: GO:0007610 ! behavior is_a: GO:0009611 ! response to wounding [Term] id: GO:0002211 name: behavioral defense response to insect namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat from an insect or insects to that organism." [GOC:add] exact_synonym: "behavioural defense response to insect" [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0002213 ! defense response to insect [Term] id: GO:0002212 name: behavioral defense response to nematode namespace: biological_process def: "A behavioral response seeking to protect an organism from an a perceived external threat from a nematode or nematodes to that organism." [GOC:add, PMID:14506883] exact_synonym: "behavioural defense response to nematode" [] is_a: GO:0002209 ! behavioral defense response is_a: GO:0002215 ! defense response to nematode [Term] id: GO:0002213 name: defense response to insect namespace: biological_process def: "A response to protect an organism from a directly detected or perceived external threat from an insect or insects to that organism." [GOC:add] is_a: GO:0006952 ! defense response is_a: GO:0009625 ! response to insect [Term] id: GO:0002214 name: physiological defense response to insect namespace: biological_process def: "A physiological reaction triggered in response to the presence of an insect or insects or the occurrence of an injury caused by an insect or insects, which results in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:add, PMID:10458997] is_a: GO:0002213 ! defense response to insect is_a: GO:0002217 ! physiological defense response [Term] id: GO:0002215 name: defense response to nematode namespace: biological_process def: "A response to protect an organism from a directly detected or perceived external threat from a nematode or nematodes to that organism." [GOC:add, PMID:11516579, PMID:14506883] is_a: GO:0006952 ! defense response is_a: GO:0009624 ! response to nematode [Term] id: GO:0002216 name: physiological defense response to nematode namespace: biological_process def: "A physiological reaction triggered in response to the presence of a nematode or nematodes or the occurrence of an injury caused by a nematode or nematodes, which results in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:add, PMID:11516579] is_a: GO:0002215 ! defense response to nematode is_a: GO:0002217 ! physiological defense response [Term] id: GO:0002217 name: physiological defense response namespace: biological_process alt_id: GO:0042829 def: "Physiological reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:add] is_a: GO:0006952 ! defense response is_a: GO:0051869 ! physiological response to stimulus [Term] id: GO:0002218 name: activation of innate immune response namespace: biological_process def: "Any process that initiates an innate immune response." [GOC:add, ISBN:0781735149, PMID:15199967, PMID:16177805] is_a: GO:0002253 ! activation of immune response is_a: GO:0045089 ! positive regulation of innate immune response [Term] id: GO:0002219 name: activation of innate immune response (sensu Viridiplantae) namespace: biological_process def: "Any process that initiates an innate immune response as in, but not restricted to, green plants and algae (Viridiplantae, ncbi_taxonomy_id:33090)." [GOC:add, PMID:15199967, PMID:15476917, PMID:16177805] is_a: GO:0002218 ! activation of innate immune response relationship: part_of GO:0002226 ! innate immune response (sensu Viridiplantae) [Term] id: GO:0002220 name: innate immune response activating cell surface receptor signaling pathway namespace: biological_process def: "Any series of molecular signals leading to activation of the innate immune response generated as a consequence of binding to a cell surface receptor." [GOC:add, ISBN:0781735149, PMID:15199967] exact_synonym: "activation of innate immune response by cell surface receptor signaling pathway" [] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway is_a: GO:0002758 ! innate immune response-activating signal transduction [Term] id: GO:0002221 name: pattern recognition receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a cell surface or intracellular pattern recognition receptor (PRR). Such receptors bind for molecular patterns based on a repeating or polymeric structures, like those of polysaccharides or peptidoglycans, which are sometimes associated with potential pathogens." [GOC:add, ISBN:0781735149, PMID:15199967] exact_synonym: "PAMP receptor signaling pathway" [PMID:15728447, ISBN:0781735149, PMID:15199967] exact_synonym: "pathogen receptor signaling pathway" [PMID:15728447, ISBN:0781735149, PMID:15199967] exact_synonym: "pathogen receptor signalling pathway" [PMID:15728447, ISBN:0781735149, PMID:15199967] exact_synonym: "PRR signaling pathway" [PMID:15728447, ISBN:0781735149, PMID:15199967] is_a: GO:0002758 ! innate immune response-activating signal transduction [Term] id: GO:0002222 name: stimulatory killer cell immunoglobulin-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a killer cell immunoglobulin-like receptor capable of cellular activation." [GOC:add, ISBN:0781735149] exact_synonym: "stimulatory KIR signaling pathway" [ISBN:0781735149] is_a: GO:0002220 ! innate immune response activating cell surface receptor signaling pathway [Term] id: GO:0002223 name: stimulatory C-type lectin receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a C-type lectin receptor capable of cellular activation." [GOC:add, ISBN:0781735149] narrow_synonym: "stimulatory Ly49 family receptor signaling pathway." [ISBN:0781735149] is_a: GO:0002220 ! innate immune response activating cell surface receptor signaling pathway [Term] id: GO:0002224 name: toll-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a toll-like receptor. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response." [GOC:add, ISBN:0781735149, PMID:12467241, PMID:12524386, PMID:12855817, PMID:15585605, PMID:15728447] comment: Note that the vertebrate toll-like receptors, unlike the Drosophila Toll molecule, directly bind their ligands. The Drosophila Toll molecule requires the Sptzle factor to bind microbial ligands and then the receptor in order to initiate innate immune responses. exact_synonym: "TLR signaling pathway" [ISBN:0781735149] is_a: GO:0002221 ! pattern recognition receptor signaling pathway [Term] id: GO:0002225 name: positive regulation of antimicrobial peptide production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of ." [GOC:add, PMID:11807545] exact_synonym: "antimicrobial peptide induction" [] is_a: GO:0002702 ! positive regulation of production of molecular mediator of immune response is_a: GO:0002784 ! regulation of antimicrobial peptide production [Term] id: GO:0002226 name: innate immune response (sensu Viridiplantae) namespace: biological_process def: "The process of the innate immunity as in, but not restricted to, green plants and algae (Viridiplantae, ncbi_taxonomy_id:33090). Innate immune responses are defense responses mediated by germline encoded components that, in plants, directly recognize components of potential pathogens." [GOC:add, PMID:15199967, PMID:15476917, PMID:16177805] is_a: GO:0045087 ! innate immune response [Term] id: GO:0002227 name: innate immune response in mucosa namespace: biological_process def: "Any process of the innate immune response that takes place in the mucosal tissues." [GOC:add, PMID:10719665, PMID:15971105] is_a: GO:0002385 ! mucosal immune response is_a: GO:0045087 ! innate immune response [Term] id: GO:0002228 name: natural killer cell mediated immunity namespace: biological_process def: "The promotion of an immune response by natural killer cells through direct recognition of target cells or through the release of cytokines." [GOC:add, ISBN:0781735149] exact_synonym: "NK cell mediated immunity" [] is_a: GO:0002449 ! lymphocyte mediated immunity is_a: GO:0045087 ! innate immune response [Term] id: GO:0002229 name: defense response to oomycetes namespace: biological_process def: "Reactions triggered in response to the presence of oomycetes that act to protect the cell or organism." [GOC:add, PMID:16497589] is_a: GO:0002217 ! physiological defense response is_a: GO:0002239 ! response to oomycetes [Term] id: GO:0002230 name: positive regulation of antiviral response by host namespace: biological_process def: "Host processes that result in the promotion of antiviral immune response mechanisms, thereby limiting viral replication." [GOC:add, ISBN:0781735149] is_a: GO:0050691 ! regulation of antiviral response by host [Term] id: GO:0002231 name: detection of oomycetes namespace: biological_process def: "The series of events in which a stimulus from an oomycetes is received and converted into a molecular signal." [GOC:add, PMID:15922649] is_a: GO:0002239 ! response to oomycetes is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002232 name: leukocyte chemotaxis during inflammatory response namespace: biological_process def: "The movement of an immune cell in response to an external stimulus during an inflammatory response." [GOC:add, ISBN:0781735149] exact_synonym: "immune cell chemotaxis during inflammatory response" [] exact_synonym: "leucocyte chemotaxis during inflammatory response" [] is_a: GO:0002523 ! leukocyte migration during inflammatory response is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002233 name: leukocyte chemotaxis during immune response namespace: biological_process def: "The movement of an immune cell in response to an external stimulus during an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "immune cell chemotaxis during immune response" [] exact_synonym: "leucocyte chemotaxis during immune response" [] is_a: GO:0002522 ! leukocyte migration during immune response is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002234 name: detection of endoplasmic reticulum overloading namespace: biological_process def: "The series of events in which a stimulus generated by the accumulation of normal or misfolded proteins in the endoplasmic reticulum is received and converted into a molecular signal." [GOC:add, PMID:10390516] exact_synonym: "detection of ER overloading" [] is_a: GO:0006983 ! ER overload response [Term] id: GO:0002235 name: detection of unfolded protein namespace: biological_process def: "The series of events in which an unfolded protein stimulus is received and converted into a molecular signal." [GOC:add, PMID:15226511, PMID:7765470] is_a: GO:0006986 ! response to unfolded protein [Term] id: GO:0002236 name: detection of misfolded protein namespace: biological_process def: "The series of events in which a misfolded protein stimulus is received and converted into a molecular signal." [GOC:add, PMID:15226511] is_a: GO:0051788 ! response to misfolded protein [Term] id: GO:0002237 name: response to bacterium associated molecule namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the perception of bacterial associated molecules such as peptides derived from bacterial flagellin." [GOC:sm] exact_synonym: "response to bacteria associated molecule" [] exact_synonym: "response to bacterial associated molecule" [] is_a: GO:0009607 ! response to biotic stimulus relationship: part_of GO:0009617 ! response to bacterium [Term] id: GO:0002238 name: response to fungus associated molecule namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the perception of fungal associated molecules such as chito-octomer oligosaccharide." [GOC:sm] is_a: GO:0009607 ! response to biotic stimulus relationship: part_of GO:0009620 ! response to fungus [Term] id: GO:0002239 name: response to oomycetes namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from an oomycetes." [GOC:add, PMID:16497589] is_a: GO:0051707 ! response to other organism [Term] id: GO:0002240 name: response to oomycetes associated molecule namespace: biological_process def: "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the perception of oomycete associated molecules." [GOC:sm] is_a: GO:0009607 ! response to biotic stimulus relationship: part_of GO:0002239 ! response to oomycetes [Term] id: GO:0002241 name: response to parasitic plant namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a parasitic plant." [GOC:add, PMID:16547862] is_a: GO:0009608 ! response to symbiont [Term] id: GO:0002242 name: defense response to parasitic plant namespace: biological_process def: "Reactions triggered in response to the presence of a parasitic plant that act to protect an organism." [GOC:add] is_a: GO:0002241 ! response to parasitic plant is_a: GO:0006952 ! defense response [Term] id: GO:0002243 name: detection of parasitic plant namespace: biological_process def: "The series of events in which a stimulus from a parasitic plant is received and converted into a molecular signal." [GOC:add, PMID:16547862] is_a: GO:0002241 ! response to parasitic plant is_a: GO:0009602 ! detection of symbiont [Term] id: GO:0002244 name: hemopoietic progenitor cell differentiation namespace: biological_process def: "The process whereby a unspecialized hemopoietic stem cell acquires the specialized features of a hemopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." [GOC:add, ISBN:0781735149, PMID:16551251] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030097 ! hemopoiesis [Term] id: GO:0002245 name: physiological response to wounding namespace: biological_process def: "A change in the physiological state of an organism as a result of a stimulus from wounding." [GOC:add, PMID:15939667, PMID:16511592] is_a: GO:0009611 ! response to wounding is_a: GO:0051869 ! physiological response to stimulus [Term] id: GO:0002246 name: healing during inflammatory response namespace: biological_process def: "The series of events that restore integrity to damaged tissue during or following an inflammatory response." [GOC:jal, ISBN:0721601871] is_a: GO:0042060 ! wound healing relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002247 name: clearance of damaged tissue during inflammatory response namespace: biological_process def: "The series of events leading to removal of necrotic debris during or following an inflammatory response." [GOC:jal, ISBN:0721601871] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0002246 ! healing during inflammatory response [Term] id: GO:0002248 name: connective tissue replacement during inflammatory response namespace: biological_process def: "The series of events leading to growth of connective tissue when loss of tissues that are incapable of regeneration occurs, or when fibrinous exudate cannot be adequately cleared during or following an inflammatory response." [GOC:jal, ISBN:0721601871] narrow_synonym: "fibrosis during inflammatory response" [ISBN:0721601871] is_a: GO:0048771 ! tissue remodeling relationship: part_of GO:0002246 ! healing during inflammatory response [Term] id: GO:0002249 name: lymphocyte anergy namespace: biological_process def: "Any process contributing to lymphocyte anergy, a state of functional inactivation." [GOC:add] is_a: GO:0002376 ! immune system process [Term] id: GO:0002250 name: adaptive immune response namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process, and allowing for enhanced response to subsequent exposures to the same antigen (immunological memory)." [GOC:add, ISBN:0781735149] exact_synonym: "acquired immune response" [ISBN:068340007X] is_a: GO:0006955 ! immune response [Term] id: GO:0002251 name: organ or tissue specific immune response namespace: biological_process def: "An immune response taking place in an organ or tissues such as the liver, brain, mucosa, or nervous system tissues." [GOC:jal] exact_synonym: "immune response in organ or tissue" [] is_a: GO:0006955 ! immune response [Term] id: GO:0002252 name: immune effector process namespace: biological_process def: "Any process of the immune system that occurs as part of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002376 ! immune system process relationship: part_of GO:0006955 ! immune response [Term] id: GO:0002253 name: activation of immune response namespace: biological_process def: "Any process that initiates an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002376 ! immune system process is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002254 name: kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell that occur as a result of by-products of tissue damage, including collagen, cartilage, and basement membrane. The ultimate product of the kinin cascade include kallidin and bradykinin, agents known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:jal, ISBN:0721601871, PMID:11842287, PMID:14501145] is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002255 name: tissue kallikrein-kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell initiated by the action of tissue (glandular) kallikreins on low molecular weight kininogen in response to tissue damage. Tissue kallikreins are present in glandular tissues and their fluids, such as the salivary glands, sweat glands, pancreas, and kidney. The ultimate products of the tissue kallikrein-kinin cascade include kallidin and bradykinin, agents known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:add, PMID:11842287, PMID:14501145] exact_synonym: "glandular kallikrein-kinin cascade" [] is_a: GO:0002254 ! kinin cascade [Term] id: GO:0002256 name: regulation of kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the kinin cascade." [GOC:jal] relationship: part_of GO:0002254 ! kinin cascade [Term] id: GO:0002257 name: negative regulation of kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the kinin cascade." [GOC:jal] is_a: GO:0002256 ! regulation of kinin cascade [Term] id: GO:0002258 name: positive regulation of kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the kinin cascade." [GOC:jal] is_a: GO:0002256 ! regulation of kinin cascade [Term] id: GO:0002259 name: endothelial cell activation within high endothelial venule during immune response namespace: biological_process def: "A change in the morphology or behavior of an endothelial cell within a high endothelial venule resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002264 ! endothelial cell activation during immune response [Term] id: GO:0002260 name: lymphocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of lymphocytes such that the total number of lymphocytes within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:15826826, PMID:16319493, PMID:16551252, PMID:16551262] is_a: GO:0001776 ! leukocyte homeostasis [Term] id: GO:0002261 name: mucosal lymphocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of lymphocytes such that the total number of lymphocytes within the mucosal tissue of an organism is stable over time in the absence of an outside stimulus." [GOC:add, PMID:15609020] is_a: GO:0002260 ! lymphocyte homeostasis [Term] id: GO:0002262 name: myeloid cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of myeloid cells such that the total number of myeloid cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add] is_a: GO:0001776 ! leukocyte homeostasis [Term] id: GO:0002263 name: cell activation during immune response namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0001775 ! cell activation relationship: part_of GO:0006955 ! immune response [Term] id: GO:0002264 name: endothelial cell activation during immune response namespace: biological_process def: "A change in the morphology or behavior of an endothelial cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002263 ! cell activation during immune response is_a: GO:0042118 ! endothelial cell activation [Term] id: GO:0002265 name: astrocyte activation during immune response namespace: biological_process def: "A change in the morphology or behavior of an astrocyte resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:11138785] is_a: GO:0002263 ! cell activation during immune response is_a: GO:0048143 ! astrocyte activation [Term] id: GO:0002266 name: follicular dendritic cell activation namespace: biological_process def: "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, PMID:15606789] is_a: GO:0001775 ! cell activation [Term] id: GO:0002267 name: follicular dendritic cell activation during immune response namespace: biological_process def: "A change in the morphology or behavior of a follicular dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15606789] is_a: GO:0002263 ! cell activation during immune response is_a: GO:0002266 ! follicular dendritic cell activation [Term] id: GO:0002268 name: follicular dendritic cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized precursor cell acquires the specialized features of a follicular dendritic cell." [GOC:add, ISBN:0781735149] is_a: GO:0002266 ! follicular dendritic cell activation [Term] id: GO:0002269 name: leukocyte activation during inflammatory response namespace: biological_process def: "A change in the morphology or behavior of a leukocyte resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an inflammatory response." [GOC:add, ISBN:0781735149] exact_synonym: "immune cell activation during inflammatory response" [] is_a: GO:0045321 ! leukocyte activation relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002270 name: plasmacytoid dendritic cell activation namespace: biological_process def: "A change in the morphology or behavior of a plasmacytoid dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, PMID:15990333, PMID:16174109] is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002271 name: plasmacytoid dendritic cell activation during immune response namespace: biological_process def: "A change in the morphology or behavior of a plasmacytoid dendritic cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15990333, PMID:16174109] is_a: GO:0002270 ! plasmacytoid dendritic cell activation is_a: GO:0002366 ! leukocyte activation during immune response [Term] id: GO:0002272 name: plasmacytoid dendritic cell differentiation during immune response namespace: biological_process def: "The process whereby an immature plasmacytoid dendritic cell acquires the specialized features of a mature plasmacytoid dendritic cell during an immune response." [GOC:add, PMID:15990333] is_a: GO:0002271 ! plasmacytoid dendritic cell activation during immune response is_a: GO:0002273 ! plasmacytoid dendritic cell differentiation [Term] id: GO:0002273 name: plasmacytoid dendritic cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a plasmacytoid dendritic cell." [GOC:add, PMID:15990333, PMID:16174108] is_a: GO:0002270 ! plasmacytoid dendritic cell activation is_a: GO:0002521 ! leukocyte differentiation [Term] id: GO:0002274 name: myeloid leukocyte activation namespace: biological_process def: "A change in the morphology or behavior of a myeloid leukocyte resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:add, ISBN:0781735149] exact_synonym: "myeloid leucocyte activation" [] is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002275 name: myeloid cell activation during immune response namespace: biological_process def: "A change in the morphology or behavior of a myeloid cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002274 ! myeloid leukocyte activation is_a: GO:0002366 ! leukocyte activation during immune response [Term] id: GO:0002276 name: basophil activation during immune response namespace: biological_process def: "A change in morphology and behavior of a basophil resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the basophil has specifically bound via IgE bound to Fc-epsilonRI receptors, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0045575 ! basophil activation [Term] id: GO:0002277 name: myeloid dendritic cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a myeloid dendritic cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0001773 ! myeloid dendritic cell activation is_a: GO:0002275 ! myeloid cell activation during immune response [Term] id: GO:0002278 name: eosinophil activation during immune response namespace: biological_process def: "The change in morphology and behavior of a eosinophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0043307 ! eosinophil activation [Term] id: GO:0002279 name: mast cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a mast cell resulting from exposure to a cytokine, chemokine, soluble factor, or to (at least in mammals) an antigen which the mast cell has specifically bound via IgE bound to Fc-epsilonRI receptors, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0045576 ! mast cell activation [Term] id: GO:0002280 name: monocyte activation during immune response namespace: biological_process def: "The change in morphology and behavior of a monocyte resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149, PMID:16551245] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0042117 ! monocyte activation [Term] id: GO:0002281 name: macrophage activation during immune response namespace: biological_process def: "A change in morphology and behavior of a macrophage resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0042116 ! macrophage activation [Term] id: GO:0002282 name: microglial cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0001774 ! microglial cell activation is_a: GO:0002281 ! macrophage activation during immune response [Term] id: GO:0002283 name: neutrophil activation during immune response namespace: biological_process def: "The change in morphology and behavior of a neutrophil resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002275 ! myeloid cell activation during immune response is_a: GO:0042119 ! neutrophil activation [Term] id: GO:0002284 name: myeloid dendritic cell differentiation during immune response namespace: biological_process def: "The process whereby an immature myeloid dendritic cell acquires the specialized features of a mature myeloid dendritic cell during an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002277 ! myeloid dendritic cell activation during immune response is_a: GO:0043011 ! myeloid dendritic cell differentiation [Term] id: GO:0002285 name: lymphocyte activation during immune response namespace: biological_process def: "A change in morphology and behavior of a lymphocyte resulting from exposure to a specific antigen, mitogen, cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002366 ! leukocyte activation during immune response is_a: GO:0046649 ! lymphocyte activation [Term] id: GO:0002286 name: T cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte activation during immune response" [] exact_synonym: "T-cell activation during immune response" [] exact_synonym: "T-lymphocyte activation during immune response" [] is_a: GO:0002285 ! lymphocyte activation during immune response is_a: GO:0042110 ! T cell activation [Term] id: GO:0002287 name: alpha-beta T cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of an alpha-beta T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "alpha-beta T lymphocyte activation during immune response" [] exact_synonym: "alpha-beta T-cell activation during immune response" [] exact_synonym: "alpha-beta T-lymphocyte activation during immune response" [] is_a: GO:0002286 ! T cell activation during immune response is_a: GO:0046631 ! alpha-beta T cell activation [Term] id: GO:0002288 name: NK T cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature natural killer T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15771592] exact_synonym: "natural killer T lymphocyte activation during immune response" [] exact_synonym: "natural killer T-cell activation during immune response" [] exact_synonym: "natural killer T-lymphocyte activation during immune response" [] exact_synonym: "NK T lymphocyte activation during immune response" [] exact_synonym: "NK T-cell activation during immune response" [] exact_synonym: "NK T-lymphocyte activation during immune response" [] is_a: GO:0002287 ! alpha-beta T cell activation during immune response is_a: GO:0051132 ! NK T cell activation [Term] id: GO:0002289 name: NK T cell proliferation during immune response namespace: biological_process def: "The expansion of a NK T cell population by cell division during an immune response." [GOC:add, PMID:15771592] exact_synonym: "natural killer T lymphocyte proliferation during immune response" [] exact_synonym: "natural killer T-cell proliferation during immune response" [] exact_synonym: "natural killer T-lymphocyte proliferation during immune response" [] exact_synonym: "NK T lymphocyte proliferation during immune response" [] exact_synonym: "NK T-cell proliferation during immune response" [] exact_synonym: "NK T-lymphocyte proliferation during immune response" [] is_a: GO:0001866 ! NK T cell proliferation is_a: GO:0002288 ! NK T cell activation during immune response is_a: GO:0002310 ! alpha-beta T cell proliferation during immune response [Term] id: GO:0002290 name: gamma-delta T cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a gamma-delta T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:8717523] exact_synonym: "gamma-delta T lymphocyte activation during immune response" [] exact_synonym: "gamma-delta T-cell activation during immune response" [] exact_synonym: "gamma-delta T-lymphocyte activation during immune response" [] is_a: GO:0002286 ! T cell activation during immune response is_a: GO:0046629 ! gamma-delta T cell activation [Term] id: GO:0002291 name: T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell namespace: biological_process def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to an antigen for which its T cell receptor is specific bound to an MHC molecule on an antigen presenting cell, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" [] exact_synonym: "T-cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" [] exact_synonym: "T-lymphocyte activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell" [] is_a: GO:0002286 ! T cell activation during immune response [Term] id: GO:0002292 name: T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte differentiation during immune response" [] exact_synonym: "T-cell differentiation during immune response" [] exact_synonym: "T-lymphocyte differentiation during immune response" [] is_a: GO:0002286 ! T cell activation during immune response is_a: GO:0030217 ! T cell differentiation [Term] id: GO:0002293 name: alpha-beta T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149] exact_synonym: "alpha-beta T lymphocyte differentiation during immune response" [] exact_synonym: "alpha-beta T-cell differentiation during immune response" [] exact_synonym: "alpha-beta T-lymphocyte differentiation during immune response" [] is_a: GO:0002292 ! T cell differentiation during immune response is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002294 name: CD4-positive, alpha-beta T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave CD4-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149] exact_synonym: "CD4-positive, alpha-beta T lymphocyte differentiation during immune response" [] exact_synonym: "CD4-positive, alpha-beta T-cell differentiation during immune response" [] exact_synonym: "CD4-positive, alpha-beta T-lymphocyte differentiation during immune response" [] is_a: GO:0002293 ! alpha-beta T cell differentiation during immune response is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation [Term] id: GO:0002295 name: T-helper cell lineage commitment namespace: biological_process def: "The process whereby an CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper cell, a CD4-positive, alpha-beta T cell specialized to promote various immunological processes." [GOC:add, ISBN:0781735149] related_synonym: "Th0 lineage commitment" [ISBN:0781735149] related_synonym: "Thp lineage commitment" [ISBN:0781735149] exact_synonym: "T-helper cell fate commitment" [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0042093 ! T-helper cell differentiation [Term] id: GO:0002296 name: T-helper 1 cell lineage commitment namespace: biological_process def: "The process whereby an CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper 1 cell, a CD4-positive, alpha-beta T cell specialized to promote immunological processes often associated with resistance to intracellular bacteria, fungi, and protozoa, and pathological conditions such as arthritis." [GOC:add, ISBN:0781735149] exact_synonym: "T-helper 1 cell fate commitment" [ISBN:0781735149] exact_synonym: "T-helper 1 cell lineage commitment" [ISBN:0781735149] exact_synonym: "Th1 fate commitment" [ISBN:0781735149] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0045063 ! T-helper 1 cell differentiation [Term] id: GO:0002297 name: T-helper 2 cell lineage commitment namespace: biological_process def: "The process whereby an CD4-positive, alpha-beta T cell becomes committed to becoming a T-helper 2 cell, a CD4-positive, alpha-beta T cell specialized to promote immunological processes often associated with resistance to extracellular organisms such as helminths, enhanced production of particular antibody isotypes, and pathological conditions such as allergy." [GOC:add, ISBN:0781735149] exact_synonym: "T-helper 2 cell fate commitment" [ISBN:0781735149] exact_synonym: "T-helper 2 cell lineage commitment" [ISBN:0781735149] exact_synonym: "Th2 fate commitment" [ISBN:0781735149] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0045064 ! T-helper 2 cell differentiation [Term] id: GO:0002298 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave CD4-positive, alpha-beta T cell acquires the specialized features of an CD4-positive, CD25-positive, alpha-beta regulatory T cell during an immune response." [GOC:add, PMID:12093005] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte differentiation during immune response" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell differentiation during immune response" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte differentiation during immune response" [] is_a: GO:0002294 ! CD4-positive, alpha-beta T cell differentiation during immune response is_a: GO:0002361 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation [Term] id: GO:0002299 name: alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "alpha-beta intraepithelial T lymphocyte differentiation" [] exact_synonym: "alpha-beta intraepithelial T-cell differentiation" [] exact_synonym: "alpha-beta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002300 name: CD8-positive, alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "CD8-positive, alpha-beta intraepithelial T lymphocyte differentiation" [] exact_synonym: "CD8-positive, alpha-beta intraepithelial T-cell differentiation" [] exact_synonym: "CD8-positive, alpha-beta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0002299 ! alpha-beta intraepithelial T cell differentiation is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation [Term] id: GO:0002301 name: CD4-positive, alpha-beta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "CD4-positive, alpha-beta intraepithelial T lymphocyte differentiation" [] exact_synonym: "CD4-positive, alpha-beta intraepithelial T-cell differentiation" [] exact_synonym: "CD4-positive, alpha-beta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0002299 ! alpha-beta intraepithelial T cell differentiation is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation [Term] id: GO:0002302 name: CD8-positive, alpha-beta T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave CD8-positive, alpha-beta T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add, ISBN:0781735149] exact_synonym: "CD8-positive, alpha-beta T lymphocyte differentiation during immune response" [] exact_synonym: "CD8-positive, alpha-beta T-cell differentiation during immune response" [] exact_synonym: "CD8-positive, alpha-beta T-lymphocyte differentiation during immune response" [] is_a: GO:0002293 ! alpha-beta T cell differentiation during immune response is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation [Term] id: GO:0002303 name: gamma-delta T cell differentiation during immune response namespace: biological_process def: "The process whereby an antigenically nave gamma-delta T cell acquires the specialized features of an effector, regulatory, or memory T cell during an immune response. Effector T cells include cells which provide T cell help or exhibit cytotoxicity towards other cells." [GOC:add] exact_synonym: "gamma-delta T lymphocyte differentiation during immune response" [] exact_synonym: "gamma-delta T-cell differentiation during immune response" [] exact_synonym: "gamma-delta T-lymphocyte differentiation during immune response" [] is_a: GO:0002292 ! T cell differentiation during immune response is_a: GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002304 name: gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "gamma-delta intraepithelial T lymphocyte differentiation" [] exact_synonym: "gamma-delta intraepithelial T-cell differentiation" [] exact_synonym: "gamma-delta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002305 name: CD8-positive, gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "CD8-positive, gamma-delta intraepithelial T lymphocyte differentiation" [] exact_synonym: "CD8-positive, gamma-delta intraepithelial T-cell differentiation" [] exact_synonym: "CD8-positive, gamma-delta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0002304 ! gamma-delta intraepithelial T cell differentiation [Term] id: GO:0002306 name: CD4-positive gamma-delta intraepithelial T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." [GOC:add, ISBN:0781735149] exact_synonym: "CD4-positive, gamma-delta intraepithelial T lymphocyte differentiation" [] exact_synonym: "CD4-positive, gamma-delta intraepithelial T-cell differentiation" [] exact_synonym: "CD4-positive, gamma-delta intraepithelial T-lymphocyte differentiation" [] is_a: GO:0002304 ! gamma-delta intraepithelial T cell differentiation [Term] id: GO:0002307 name: CD8-positive, alpha-beta regulatory T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta regulatory T cell." [GOC:add, ISBN:0781735149] exact_synonym: "CD8-positive, alpha-beta regulatory T lymphocyte differentiation" [] exact_synonym: "CD8-positive, alpha-beta regulatory T-cell differentiation" [] exact_synonym: "CD8-positive, alpha-beta regulatory T-lymphocyte differentiation" [] is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation is_a: GO:0045066 ! regulatory T cell differentiation [Term] id: GO:0002308 name: CD8-positive, alpha-beta cytotoxic T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta cytotoxic T cell." [GOC:add, ISBN:0781735149] exact_synonym: "CD8-positive, alpha-beta cytotoxic T lymphocyte differentiation" [] exact_synonym: "CD8-positive, alpha-beta cytotoxic T-cell differentiation" [] exact_synonym: "CD8-positive, alpha-beta cytotoxic T-lymphocyte differentiation" [] is_a: GO:0043374 ! CD8-positive, alpha-beta T cell differentiation is_a: GO:0045065 ! cytotoxic T cell differentiation [Term] id: GO:0002309 name: T cell proliferation during immune response namespace: biological_process def: "The rapid expansion of a T cell population by cell division during an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte proliferation during immune response" [] exact_synonym: "T-cell proliferation during immune response" [] exact_synonym: "T-lymphocyte proliferation during immune response" [] is_a: GO:0002286 ! T cell activation during immune response is_a: GO:0042098 ! T cell proliferation [Term] id: GO:0002310 name: alpha-beta T cell proliferation during immune response namespace: biological_process def: "The rapid expansion of an alpha-beta T cell population by cell division during an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "alpha-beta T lymphocyte proliferation during immune response" [] exact_synonym: "alpha-beta T-cell proliferation during immune response" [] exact_synonym: "alpha-beta T-lymphocyte proliferation during immune response" [] is_a: GO:0002287 ! alpha-beta T cell activation during immune response is_a: GO:0002309 ! T cell proliferation during immune response is_a: GO:0046633 ! alpha-beta T cell proliferation [Term] id: GO:0002311 name: gamma-delta T cell proliferation during immune response namespace: biological_process def: "The rapid expansion of an gamma-delta T cell population by cell division during an immune response." [GOC:add] exact_synonym: "gamma-delta T lymphocyte proliferation during immune response" [] exact_synonym: "gamma-delta T-cell proliferation during immune response" [] exact_synonym: "gamma-delta T-lymphocyte proliferation during immune response" [] is_a: GO:0002309 ! T cell proliferation during immune response is_a: GO:0046630 ! gamma-delta T cell proliferation [Term] id: GO:0002312 name: B cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature B cell during an immune response, resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." [GOC:jal] exact_synonym: "B lymphocyte activation during immune response" [] exact_synonym: "B-cell activation during immune response" [] exact_synonym: "B-lymphocyte activation during immune response" [] is_a: GO:0002285 ! lymphocyte activation during immune response is_a: GO:0042113 ! B cell activation [Term] id: GO:0002313 name: mature B cell differentiation during immune response namespace: biological_process def: "The process whereby a nave B cell acquires the specialized features of a mature or memory B cell during an immune response." [GOC:jal] exact_synonym: "mature B lymphocyte differentiation during immune response" [] exact_synonym: "mature B-cell differentiation during immune response" [] exact_synonym: "mature B-lymphocyte differentiation during immune response" [] is_a: GO:0002312 ! B cell activation during immune response is_a: GO:0002335 ! mature B cell differentiation [Term] id: GO:0002314 name: germinal center B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a germinal center B cell. Germinal center B cells are rapidly cycling B cells which have downregulated IgD expression and exhibit high levels of binding by peanut agglutinin (PNA)." [GOC:jal, ISBN:0781735149] exact_synonym: "germinal center B lymphocyte differentiation" [] exact_synonym: "germinal center B-cell differentiation" [] exact_synonym: "germinal center B-lymphocyte differentiation" [] is_a: GO:0002313 ! mature B cell differentiation during immune response [Term] id: GO:0002315 name: marginal zone B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a marginal zone B cell. Marginal zone B cells are localized in a distinct anatomical region of the spleen that represents the major antigen-filtering and scavenging area (by specialized macrophages resident there). It appears that they are preselected to express a BCR repertoire similar to B-1 B cells, biased toward bacterial cell wall constituents and senescent self-components (such as oxidized LDL)." [GOC:jal, ISBN:0781735149] exact_synonym: "marginal zone B lymphocyte differentiation" [] exact_synonym: "marginal zone B-cell differentiation" [] exact_synonym: "marginal zone B-lymphocyte differentiation" [] is_a: GO:0002313 ! mature B cell differentiation during immune response [Term] id: GO:0002316 name: follicular B cell differentiation namespace: biological_process def: "The process whereby a B cell in the spleen acquires the specialized features of a follicular B cell. Follicular B cells are major population of mature recirculating B cells in the spleen and are located in the B-cell follicle region." [GOC:jal, ISBN:0781735149] exact_synonym: "follicular B lymphocyte differentiation" [] exact_synonym: "follicular B-cell differentiation" [] exact_synonym: "follicular B-lymphocyte differentiation" [] is_a: GO:0002313 ! mature B cell differentiation during immune response [Term] id: GO:0002317 name: plasma cell differentiation namespace: biological_process def: "The process whereby a B cell acquires the specialized features of a plasma cell. A plasma cell is a lymphocyte which develops from a B cell and produces high amounts of antibody." [GOC:jal] is_a: GO:0002313 ! mature B cell differentiation during immune response [Term] id: GO:0002318 name: myeloid progenitor cell differentiation namespace: biological_process def: "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages." [GOC:add, PMID:16551264] is_a: GO:0002244 ! hemopoietic progenitor cell differentiation [Term] id: GO:0002319 name: memory B cell differentiation namespace: biological_process def: "The process whereby a B cell acquires the specialized features of a memory B cell. Memory B cells are cells that can respond rapidly to antigen re-exposure by production of high-affinity antibody." [GOC:jal, ISBN:0781735149] exact_synonym: "memory B lymphocyte differentiation" [] exact_synonym: "memory B-cell differentiation" [] exact_synonym: "memory B-lymphocyte differentiation" [] is_a: GO:0002313 ! mature B cell differentiation during immune response [Term] id: GO:0002320 name: lymphoid progenitor cell differentiation namespace: biological_process def: "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a lymphoid progenitor cell. Lymphoid progenitor cells include progenitor cells for any of the lymphoid lineages." [GOC:add, PMID:16551251, PMID:16551264] is_a: GO:0002244 ! hemopoietic progenitor cell differentiation [Term] id: GO:0002321 name: natural killer cell progenitor differentiation namespace: biological_process def: "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a natural killer cell progenitor." [GOC:add, PMID:16551251, PMID:16551264] is_a: GO:0002320 ! lymphoid progenitor cell differentiation [Term] id: GO:0002322 name: B cell proliferation during immune response namespace: biological_process def: "The rapid expansion of a B cell population by cell division following B cell activation during an immune response." [GOC:jal] exact_synonym: "B lymphocyte proliferation during immune response" [] exact_synonym: "B-cell proliferation during immune response" [] exact_synonym: "B-lymphocyte proliferation during immune response" [] is_a: GO:0002312 ! B cell activation during immune response is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002323 name: natural killer cell activation during immune response namespace: biological_process def: "The change in morphology and behavior of a natural killer cell resulting from exposure a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, PMID:15032583] exact_synonym: "NK cell activation during immune response" [] is_a: GO:0002285 ! lymphocyte activation during immune response is_a: GO:0030101 ! natural killer cell activation [Term] id: GO:0002324 name: natural killer cell proliferation during immune response namespace: biological_process def: "The rapid expansion of a natural killer cell population by cell division during an immune response." [GOC:add, PMID:15032583] exact_synonym: "NK cell proliferation during immune response" [] is_a: GO:0001787 ! natural killer cell proliferation is_a: GO:0002323 ! natural killer cell activation during immune response [Term] id: GO:0002325 name: natural killer cell differentiation during immune response namespace: biological_process def: "The process whereby a nave natural killer cell acquires the specialized features of an effector natural killer T cell during an immune response." [GOC:add, PMID:11698225] exact_synonym: "NK cell differentiation during immune response" [] is_a: GO:0001779 ! natural killer cell differentiation is_a: GO:0002323 ! natural killer cell activation during immune response [Term] id: GO:0002326 name: B cell lineage commitment namespace: biological_process def: "The process whereby a lymphoid progenitor cell becomes committed to become any type of B cell." [GOC:add, ISBN:0781735149] exact_synonym: "B lymphocyte lineage commitment" [] exact_synonym: "B-cell lineage commitment" [] exact_synonym: "B-lymphocyte lineage commitment" [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0030183 ! B cell differentiation [Term] id: GO:0002327 name: immature B cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an immature B cell." [GOC:jal, ISBN:0781735149, PMID:16551251] exact_synonym: "immature B lymphocyte differentiation" [] exact_synonym: "immature B-cell differentiation" [] exact_synonym: "immature B-lymphocyte differentiation" [] is_a: GO:0030183 ! B cell differentiation [Term] id: GO:0002328 name: pro-B cell differentiation namespace: biological_process def: "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a pro-B cell. Pro-B cells are the earliest stage of the B cell lineage and undergo heavy chain D and J gene rearrangements, although they are not fully committed." [GOC:jal, ISBN:0781735149] exact_synonym: "pro-B lymphocyte differentiation" [] is_a: GO:0002320 ! lymphoid progenitor cell differentiation [Term] id: GO:0002329 name: pre-B cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a pre-B cell. Pre-B cells follow the pro-B cell stage of immature B cell differentiation and undergo rearrangement of heavy chain V, D, and J gene segments." [GOC:jal, ISBN:0781735149] exact_synonym: "pre-B lymphocyte differentiation" [] is_a: GO:0002327 ! immature B cell differentiation [Term] id: GO:0002330 name: pre-B cell receptor expression namespace: biological_process def: "The process leading up to expression of the pre-B cell receptor on the surface of pre-B cells, including expression of the surrogate light chain, association of the surrogate light chain with heavy chain, and expression of the complete pre-B cell receptor on the cell surface." [GOC:jal, ISBN:0781735149] is_a: GO:0002329 ! pre-B cell differentiation [Term] id: GO:0002331 name: pre-B cell allelic exclusion namespace: biological_process def: "Expression of a single heavy chain allele during pre-B cell differentiation." [GOC:jal, ISBN:0781735149] exact_synonym: "pre-B lymphocyte allelic exclusion" [] is_a: GO:0002329 ! pre-B cell differentiation [Term] id: GO:0002332 name: transitional stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow become mature B cells in the spleen. Transitional stage B cells are subdivided into transitional one (T1) and transitional two (T2) stages and are short-lived and functionally incompetent." [GOC:jal, ISBN:0781735149] exact_synonym: "transitional stage B lymphocyte differentiation" [] exact_synonym: "transitional stage B-cell differentiation" [] exact_synonym: "transitional stage B-lymphocyte differentiation" [] is_a: GO:0002327 ! immature B cell differentiation [Term] id: GO:0002333 name: transitional one stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow acquire the specialized features of T1 stage B cells in the spleen. T1 stage B cells do not express either CD23 or CD21." [GOC:jal, ISBN:0781735149] exact_synonym: "T1 stage B cell differentiation" [] exact_synonym: "transitional one stage B lymphocyte differentiation" [] exact_synonym: "transitional one stage B-cell differentiation" [] exact_synonym: "transitional one stage B-lymphocyte differentiation" [] is_a: GO:0002332 ! transitional stage B cell differentiation [Term] id: GO:0002334 name: transitional two stage B cell differentiation namespace: biological_process def: "The process whereby immature B cells from the bone marrow acquire the specialized features of T2 stage B cells in the spleen. T2 stage B cells express CD23 but not CD21." [GOC:jal, ISBN:0781735149] exact_synonym: "T2 stage B cell differentiation" [] exact_synonym: "transitional two stage B lymphocyte differentiation" [] exact_synonym: "transitional two stage B-cell differentiation" [] exact_synonym: "transitional two stage B-lymphocyte differentiation" [] is_a: GO:0002332 ! transitional stage B cell differentiation [Term] id: GO:0002335 name: mature B cell differentiation namespace: biological_process def: "The process whereby transitional stage B cells acquire the specialized features of mature B cells in the spleen." [GOC:jal, ISBN:0781735149] exact_synonym: "mature B lymphocyte differentiation" [] exact_synonym: "mature B-cell differentiation" [] exact_synonym: "mature B-lymphocyte differentiation" [] is_a: GO:0030183 ! B cell differentiation [Term] id: GO:0002336 name: B-1 B cell lineage commitment namespace: biological_process def: "The process by which an immature B cell becomes committed to become a B-1 B cell." [GOC:jal, ISBN:0781735149] exact_synonym: "B-1 B lymphocyte lineage commitment" [] exact_synonym: "B-1 B-cell lineage commitment" [] exact_synonym: "B-1 B-lymphocyte lineage commitment" [] is_a: GO:0002326 ! B cell lineage commitment relationship: part_of GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002337 name: B-1a B cell differentiation namespace: biological_process def: "The process whereby B cells acquire the specialized features of B-1a B cells. B-1a B cells are B-1 cells that express CD5 and arise from fetal liver precursors." [GOC:jal, ISBN:0781735149] exact_synonym: "B-1a B lymphocyte differentiation" [] exact_synonym: "B-1a B-cell differentiation" [] exact_synonym: "B-1a B-lymphocyte differentiation" [] is_a: GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002338 name: B-1b B cell differentiation namespace: biological_process def: "The process whereby B cells acquire the specialized features of B-1b B cells. B-1b B cells are B-1 cells that do not express CD5." [GOC:jal, ISBN:0781735149] exact_synonym: "B-1b B lymphocyte differentiation" [] exact_synonym: "B-1b B-cell differentiation" [] exact_synonym: "B-1b B-lymphocyte differentiation" [] is_a: GO:0001923 ! B-1 B cell differentiation [Term] id: GO:0002339 name: B cell selection namespace: biological_process def: "The process dependent upon B cell antigen receptor signaling in response to self or foreign antigen through which B cells are selected for survival." [GOC:jal] exact_synonym: "B lymphocyte selection" [] exact_synonym: "B-cell selection" [] exact_synonym: "B-lymphocyte selection" [] is_a: GO:0002376 ! immune system process relationship: part_of GO:0030183 ! B cell differentiation [Term] id: GO:0002340 name: central B cell selection namespace: biological_process def: "Processes of B cell selection that occur in the bone marrow." [GOC:jal] exact_synonym: "central B lymphocyte selection" [] exact_synonym: "central B-cell selection" [] exact_synonym: "central B-lymphocyte selection" [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002341 name: central B cell anergy namespace: biological_process def: "Processes of anergy that occur in the bone marrow." [GOC:jal] exact_synonym: "central B lymphocyte anergy" [] exact_synonym: "central B-cell anergy" [] exact_synonym: "central B-lymphocyte anergy" [] is_a: GO:0002515 ! B cell anergy relationship: part_of GO:0002340 ! central B cell selection relationship: part_of GO:0002510 ! central B cell tolerance induction [Term] id: GO:0002342 name: central B cell deletion namespace: biological_process def: "The deletion of B cells by apoptosis occurring as part of central tolerance induction and B cell selection." [GOC:add, GOC:jal] exact_synonym: "central B lymphocyte deletion" [] exact_synonym: "central B-cell deletion" [] exact_synonym: "central B-lymphocyte deletion" [] is_a: GO:0002516 ! B cell deletion relationship: part_of GO:0002340 ! central B cell selection relationship: part_of GO:0002510 ! central B cell tolerance induction [Term] id: GO:0002343 name: peripheral B cell selection namespace: biological_process def: "Processes of B cell selection that occur in the periphery." [GOC:jal] exact_synonym: "peripheral B lymphocyte selection" [] exact_synonym: "peripheral B-cell selection" [] exact_synonym: "peripheral B-lymphocyte selection" [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002344 name: B cell affinity maturation namespace: biological_process def: "The process by which B cells produce antibodies with increased antigen affinity. This is accomplished by somatic hypermutation and selection for B cells which produce higher affinity antibodies to antigen." [GOC:jal, ISBN:0781735149] exact_synonym: "B lymphocyte affinity maturation" [] exact_synonym: "B-cell affinity maturation" [] exact_synonym: "B-lymphocyte affinity maturation" [] is_a: GO:0002343 ! peripheral B cell selection relationship: part_of GO:0002381 ! immunoglobulin production during immune response [Term] id: GO:0002345 name: peripheral B cell receptor editing namespace: biological_process def: "The process that takes place mainly in germinal center B cells in which a large number of mutations are generated in the heavy chain and light chain V-region genes and their immediately surrounding introns in order to increase antibody diversity and contribute to affinity maturation." [GOC:jal] exact_synonym: "peripheral B lymphocyte receptor editing" [] exact_synonym: "peripheral B-cell receptor editing" [] exact_synonym: "peripheral B-lymphocyte receptor editing" [] is_a: GO:0002452 ! B cell receptor editing [Term] id: GO:0002346 name: B cell positive selection namespace: biological_process def: "Any process by which B cells are selected to survive based on signaling through the B cell antigen receptor." [GOC:jal] exact_synonym: "B lymphocyte positive selection" [] exact_synonym: "B-cell positive selection" [] exact_synonym: "B-lymphocyte positive selection" [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002347 name: response to tumor cell namespace: biological_process def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a tumor cell." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0009607 ! response to biotic stimulus [Term] id: GO:0002348 name: central B cell positive selection namespace: biological_process def: "Any process leading to positive selection of B cells in the bone marrow. Positive selection is the process by which B or T cells are selected to survive based on signaling through their antigen receptors." [GOC:jal] exact_synonym: "central B lymphocyte positive selection" [] exact_synonym: "central B-cell positive selection" [] exact_synonym: "central B-lymphocyte positive selection" [] is_a: GO:0002340 ! central B cell selection is_a: GO:0002346 ! B cell positive selection [Term] id: GO:0002349 name: histamine production during acute inflammatory response namespace: biological_process def: "The synthesis or release of histamine following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002350 name: peripheral B cell positive selection namespace: biological_process def: "Any process leading to positive selection of B cells in the periphery. Positive selection is the process by which B or T cells are selected to survive based on signaling through their antigen receptors." [GOC:jal] exact_synonym: "peripheral B lymphocyte positive selection" [] exact_synonym: "peripheral B-cell positive selection" [] exact_synonym: "peripheral B-lymphocyte positive selection" [] is_a: GO:0002343 ! peripheral B cell selection is_a: GO:0002346 ! B cell positive selection [Term] id: GO:0002351 name: serotonin production during acute inflammatory response namespace: biological_process def: "The synthesis or release of serotonin following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002352 name: B cell negative selection namespace: biological_process def: "Any process leading to negative selection in B cells. Mechanisms of negative selection include anergy and deletion." [GOC:jal] exact_synonym: "B lymphocyte negative selection" [] exact_synonym: "B-cell negative selection" [] exact_synonym: "B-lymphocyte negative selection" [] is_a: GO:0002339 ! B cell selection [Term] id: GO:0002353 name: plasma kallikrein-kinin cascade namespace: biological_process def: "A series of reactions that takes place outside the cell occurring in response to tissue damage and initiated within blood plasma by the action of activated Factor XII (Hageman Factor) on prekallikrein to convert it to plasma kallikrein, and the subsequent reaction of plasma kallikrein with high molecular weight kininogen. The ultimate product of the plasma kallikrein-kinin cascade is bradykinin, an agent known to induce smooth muscle contraction, vasoconstriction, and increased vascular permeability." [GOC:add, ISBN:0721601871, PMID:11842287, PMID:14501145] is_a: GO:0002254 ! kinin cascade [Term] id: GO:0002354 name: central B cell negative selection namespace: biological_process def: "Any process leading to negative selection of B cells in the bone marrow." [GOC:jal] exact_synonym: "central B lymphocyte negative selection" [] exact_synonym: "central B-cell negative selection" [] exact_synonym: "central B-lymphocyte negative selection" [] is_a: GO:0002340 ! central B cell selection is_a: GO:0002352 ! B cell negative selection [Term] id: GO:0002355 name: detection of tumor cell namespace: biological_process def: "The series of events in which a stimulus from a tumor cell is received and converted into a molecular signal." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0009595 ! detection of biotic stimulus [Term] id: GO:0002356 name: peripheral B cell negative selection namespace: biological_process def: "Any process leading to negative selection of B cells in the periphery." [GOC:jal] exact_synonym: "peripheral B lymphocyte negative selection" [] exact_synonym: "peripheral B-cell negative selection" [] exact_synonym: "peripheral B-lymphocyte negative selection" [] is_a: GO:0002343 ! peripheral B cell selection is_a: GO:0002352 ! B cell negative selection [Term] id: GO:0002357 name: defense response to tumor cell namespace: biological_process def: "Reactions triggered in response to the presence of a tumor cell that act to protect the cell or organism." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0006952 ! defense response [Term] id: GO:0002358 name: B cell homeostatic proliferation namespace: biological_process def: "The non-specific expansion of B cell populations within a whole or part of an organism to reach to a total number of B cells which will then remain stable over time in the absence of an external stimulus." [GOC:jal] exact_synonym: "B lymphocyte homeostatic proliferation" [] exact_synonym: "B-cell homeostatic proliferation" [] exact_synonym: "B-lymphocyte homeostatic proliferation" [] is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002359 name: B-1 B cell proliferation namespace: biological_process def: "The rapid expansion of a B-1 B cell by cell division. Follows B cell activation." [GOC:jal] exact_synonym: "B-1 B lymphocyte proliferation" [] exact_synonym: "B-1 B-cell proliferation" [] exact_synonym: "B-1 B-lymphocyte proliferation" [] is_a: GO:0042100 ! B cell proliferation [Term] id: GO:0002360 name: T cell lineage commitment namespace: biological_process def: "The process by which a lymphoid progenitor cell becomes committed to becoming any type of T cell." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte lineage commitment" [] exact_synonym: "T-cell lineage commitment" [] exact_synonym: "T-lymphocyte lineage commitment" [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002361 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, CD25-positive, alpha-beta regulatory T cell." [GOC:add, PMID:15207821] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte differentiation" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell differentiation" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte differentiation" [] is_a: GO:0043367 ! CD4-positive, alpha beta T cell differentiation is_a: GO:0045066 ! regulatory T cell differentiation [Term] id: GO:0002362 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell lineage commitment namespace: biological_process def: "The process by which a CD4-positive, alpha-beta T cell becomes committed to becoming a CD4-positive, CD25-positive, alpha-beta regulatory T cell." [GOC:add, PMID:15207821] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte lineage commitment" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell lineage commitment" [] exact_synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte lineage commitment" [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0002361 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation [Term] id: GO:0002363 name: alpha-beta T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming an alpha-beta T cell." [GOC:add, ISBN:0781735149] exact_synonym: "alpha-beta T lymphocyte lineage commitment" [] exact_synonym: "alpha-beta T-cell lineage commitment" [] exact_synonym: "alpha-beta T-lymphocyte lineage commitment" [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0046632 ! alpha-beta T cell differentiation [Term] id: GO:0002364 name: NK T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming an NK T cell." [GOC:add, ISBN:0781735149] exact_synonym: "natural killer T lymphocyte lineage commitment" [] exact_synonym: "natural killer T-cell lineage commitment" [] exact_synonym: "natural killer T-lymphocyte lineage commitment" [] exact_synonym: "NK T lymphocyte lineage commitment" [] exact_synonym: "NK T-cell lineage commitment" [] exact_synonym: "NK T-lymphocyte lineage commitment" [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0001865 ! NK T cell differentiation [Term] id: GO:0002365 name: gamma-delta T cell lineage commitment namespace: biological_process def: "The process by which a pro-T cell becomes committed to becoming a gamma-delta T cell." [GOC:add, ISBN:0781735149] exact_synonym: "gamma-delta T lymphocyte lineage commitment" [] exact_synonym: "gamma-delta T-cell lineage commitment" [] exact_synonym: "gamma-delta T-lymphocyte lineage commitment" [] is_a: GO:0002360 ! T cell lineage commitment relationship: part_of GO:0042492 ! gamma-delta T cell differentiation [Term] id: GO:0002366 name: leukocyte activation during immune response namespace: biological_process def: "A change in morphology and behavior of a leukocyte resulting from exposure to a specific antigen, mitogen, cytokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "immune cell activation during immune response" [] exact_synonym: "leucocyte activation during immune response" [] is_a: GO:0002263 ! cell activation during immune response is_a: GO:0045321 ! leukocyte activation [Term] id: GO:0002367 name: cytokine production during immune response namespace: biological_process def: "The appearance of a cytokine due to biosynthesis or secretion following a cellular stimulus during an immune response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] comment: Note that this term is intended for use when a gene product is seen to cause apparent increases in intracellular or extracellular cytokine levels, without specific regard as to whether the increase is due to increased biosynthesis, increased secretion of preexisting cytokine molecules, or increased conversion from precursor molecules. is_a: GO:0001816 ! cytokine production is_a: GO:0002440 ! production of molecular mediator of immune response [Term] id: GO:0002368 name: B cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a B cell." [GOC:add, ISBN:0781735149] exact_synonym: "B lymphocyte cytokine production" [] exact_synonym: "B-cell cytokine production" [] exact_synonym: "B-lymphocyte cytokine production" [] is_a: GO:0002367 ! cytokine production during immune response is_a: GO:0019724 ! B cell mediated immunity [Term] id: GO:0002369 name: T cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a T cell." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte cytokine production" [] exact_synonym: "T-cell cytokine production" [] exact_synonym: "T-lymphocyte cytokine production" [] is_a: GO:0002367 ! cytokine production during immune response is_a: GO:0002456 ! T cell mediated immunity [Term] id: GO:0002370 name: natural killer cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a natural killer cell." [GOC:add, ISBN:0781735149] exact_synonym: "NK cell cytokine production" [] is_a: GO:0002228 ! natural killer cell mediated immunity is_a: GO:0002367 ! cytokine production during immune response [Term] id: GO:0002371 name: dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a dendritic cell." [GOC:add, ISBN:0781735149] is_a: GO:0002367 ! cytokine production during immune response [Term] id: GO:0002372 name: myeloid dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a myeloid dendritic cell." [GOC:add, ISBN:0781735149] is_a: GO:0002371 ! dendritic cell cytokine production [Term] id: GO:0002373 name: plasmacytoid dendritic cell cytokine production namespace: biological_process def: "Any process that contributes to cytokine production by a plasmacytoid dendritic cell." [GOC:add, ISBN:0781735149] is_a: GO:0002371 ! dendritic cell cytokine production [Term] id: GO:0002374 name: cytokine secretion during immune response namespace: biological_process def: "The regulated release of cytokines from a cell or group of cells during an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0050663 ! cytokine secretion relationship: part_of GO:0002367 ! cytokine production during immune response [Term] id: GO:0002375 name: cytokine biosynthesis during immune response namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a cytokine during an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0042089 ! cytokine biosynthesis relationship: part_of GO:0002367 ! cytokine production during immune response [Term] id: GO:0002376 name: immune system process namespace: biological_process def: "Any organismal physiological process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats." [GOC:add] is_a: GO:0050874 ! organismal physiological process [Term] id: GO:0002377 name: immunoglobulin production namespace: biological_process def: "The appearance of immunoglobulin due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] exact_synonym: "antibody production" [] is_a: GO:0002440 ! production of molecular mediator of immune response [Term] id: GO:0002378 name: immunoglobulin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of immunoglobulin." [GOC:add, ISBN:0781735149] exact_synonym: "antibody biosynthesis" [] is_a: GO:0006412 ! protein biosynthesis relationship: part_of GO:0002377 ! immunoglobulin production [Term] id: GO:0002379 name: immunoglobulin biosynthesis during immune response namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of immunoglobulin during an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "antibody biosynthesis during immune response" [] is_a: GO:0002378 ! immunoglobulin biosynthesis relationship: part_of GO:0002381 ! immunoglobulin production during immune response [Term] id: GO:0002380 name: immunoglobulin secretion during immune response namespace: biological_process def: "The regulated release of immunoglobulins from a B cell or plasma cell during an immune response." [GOC:add, ISBN:0781735149, PMID:9185563] exact_synonym: "antibody secretion during immune response" [] is_a: GO:0048305 ! immunoglobulin secretion relationship: part_of GO:0002381 ! immunoglobulin production during immune response [Term] id: GO:0002381 name: immunoglobulin production during immune response namespace: biological_process def: "The appearance of immunoglobulin due to biosynthesis or secretion following a cellular stimulus during an immune response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] exact_synonym: "antibody production during immune response" [] is_a: GO:0002377 ! immunoglobulin production relationship: part_of GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002382 name: regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] exact_synonym: "regulation of glandular kallikrein-kinin cascade" [] is_a: GO:0002256 ! regulation of kinin cascade relationship: part_of GO:0002255 ! tissue kallikrein-kinin cascade [Term] id: GO:0002383 name: immune response in brain or nervous system namespace: biological_process def: "An immune response taking place in the brain or nervous system." [GOC:jal, ISBN:0781735149] is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002384 name: hepatic immune response namespace: biological_process def: "An immune response taking place in the liver." [GOC:jal, ISBN:0781735149] is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002385 name: mucosal immune response namespace: biological_process def: "An immune response taking place in mucosal tissues, including those of the intestinal tract, nasal and upper respiratory tract, and genital tract." [GOC:jal, ISBN:0781735149] is_a: GO:0002251 ! organ or tissue specific immune response [Term] id: GO:0002386 name: immune response in mucosal-associated lymphoid tissue namespace: biological_process def: "Immune response taking place in the mucosal-associated lymphoid tissue (MALT). Mucosal-associated lymphoid tissue is typically found as nodules associated with mucosal epithelia with distinct internal structures including B- and T-zones for the activation of lymphocytes." [GOC:jal, ISBN:0781735149] exact_synonym: "immune response in MALT" [] is_a: GO:0002385 ! mucosal immune response [Term] id: GO:0002387 name: immune response in gut-associated lymphoid tissue namespace: biological_process def: "Immune response taking place in the gut-associated lymphoid tissue (GALT). GALT includes Peyer's patches, appendix, and solitary lymph nodules." [GOC:jal, ISBN:0781735149] exact_synonym: "immune response in GALT" [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002388 name: immune response in Peyer's patch namespace: biological_process def: "Immune response taking place in the Peyer's patch, nodular lymphoid structures on the serosal surface of the small intestine." [GOC:jal, ISBN:0781735149] is_a: GO:0002387 ! immune response in gut-associated lymphoid tissue [Term] id: GO:0002389 name: tolerance induction in Peyer's patch namespace: biological_process def: "Tolerance induction taking place in the Peyer's patches." [GOC:jal, ISBN:0781735149] is_a: GO:0002388 ! immune response in Peyer's patch is_a: GO:0002394 ! tolerance induction in gut-associated lymphoid tissue [Term] id: GO:0002390 name: platelet activating factor production namespace: biological_process def: "The synthesis or release of platelet activating factor following a stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0001816 ! cytokine production [Term] id: GO:0002391 name: platelet activating factor production during acute inflammatory response namespace: biological_process def: "The synthesis or release of platelet activating factor following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0002390 ! platelet activating factor production is_a: GO:0002534 ! cytokine production during acute inflammatory response [Term] id: GO:0002392 name: platelet activating factor secretion namespace: biological_process def: "The regulated release of platelet activating factor by a cell or group of cells." [GOC:add, ISBN:0781735149] is_a: GO:0050663 ! cytokine secretion [Term] id: GO:0002393 name: production of lysosomal enzymes during acute inflammatory response namespace: biological_process def: "The synthesis or release of lysosomal enzymes following a stimulus during an acute inflammatory response, resulting in an increase in intracellular or extracellular levels." [GOC:add] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002394 name: tolerance induction in gut-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the gut-associated lymphoid tissue (GALT)." [GOC:jal, ISBN:0781735149] related_synonym: "oral tolerance" [] exact_synonym: "tolerance induction in GALT" [] is_a: GO:0002387 ! immune response in gut-associated lymphoid tissue is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue [Term] id: GO:0002395 name: immune response in nasopharyngeal-associated lymphoid tissue namespace: biological_process def: "An immune response taking place in the nasopharyngeal-associated lymphoid tissue (NALT). NALT includes the tonsils and adenoids." [GOC:jal, ISBN:0781735149] exact_synonym: "immune response in NALT" [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002396 name: MHC protein complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591, PMID:15928678] is_a: GO:0043623 ! cellular protein complex assembly [Term] id: GO:0002397 name: MHC class I protein complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002398 name: MHC class Ib protein complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002399 name: MHC class II protein complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form an MHC class II protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002396 ! MHC protein complex assembly [Term] id: GO:0002400 name: tolerance induction in nasopharyngeal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the nasopharyngeal-associated lymphoid tissue (NALT)." [GOC:jal, ISBN:0781735149] related_synonym: "nasal tolerance" [] exact_synonym: "tolerance induction in NALT" [] is_a: GO:0002395 ! immune response in nasopharyngeal-associated lymphoid tissue is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue [Term] id: GO:0002401 name: tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT)." [GOC:jal, ISBN:0781735149] exact_synonym: "tolerance induction in MALT" [] is_a: GO:0002386 ! immune response in mucosal-associated lymphoid tissue is_a: GO:0002427 ! mucosal tolerance induction [Term] id: GO:0002402 name: B cell tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT) mediated by B cells." [GOC:jal, ISBN:0781735149] exact_synonym: "B cell tolerance induction in MALT" [] is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue is_a: GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002403 name: T cell tolerance induction in mucosal-associated lymphoid tissue namespace: biological_process def: "Tolerance induction taking place in the mucosal-associated lymphoid tissue (MALT) mediated by T cells." [GOC:jal, ISBN:0781735149, PMID:16551263] exact_synonym: "T cell tolerance induction in MALT" [] is_a: GO:0002401 ! tolerance induction in mucosal-associated lymphoid tissue is_a: GO:0002458 ! peripheral T cell tolerance induction [Term] id: GO:0002404 name: antigen sampling in mucosal-associated lymphoid tissue namespace: biological_process def: "The process initiating the mucosal immune response which entails the apical-to-basolateral delivery of soluble and particulate antigens to underlying mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763, PMID:12843411, PMID:15681746] related_synonym: "antigen transport in MALT" [] related_synonym: "antigen transport in mucosal-associated lymphoid tissue" [] exact_synonym: "antigen sampling in MALT" [] is_a: GO:0002376 ! immune system process relationship: part_of GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002405 name: antigen sampling by dendritic cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen sampling carried out by dendritic cells in the mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763, PMID:15681746] exact_synonym: "antigen sampling by dendritic cells in MALT" [] is_a: GO:0002404 ! antigen sampling in mucosal-associated lymphoid tissue relationship: part_of GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002406 name: antigen sampling by M cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen samples carried out by M cells in the mucosal-associated lymphoid tissue." [GOC:jal, PMID:11896763] exact_synonym: "antigen sampling by M cells in MALT" [] is_a: GO:0002404 ! antigen sampling in mucosal-associated lymphoid tissue [Term] id: GO:0002407 name: dendritic cell chemotaxis namespace: biological_process def: "The movement of a dendritic cell in response to an external stimulus." [GOC:add, ISBN:0781735149, PMID:15814331, PMID:16056255] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002408 name: myeloid dendritic cell chemotaxis namespace: biological_process def: "The movement of a myeloid dendritic cell in response to an external stimulus." [GOC:add, ISBN:0781735149, PMID:15814331, PMID:16056255] is_a: GO:0002407 ! dendritic cell chemotaxis [Term] id: GO:0002409 name: Langerhans cell chemotaxis namespace: biological_process def: "The movement of a Langerhans cell in response to an external stimulus." [GOC:add, PMID:16056255, PMID:16387601] is_a: GO:0002408 ! myeloid dendritic cell chemotaxis [Term] id: GO:0002410 name: plasmacytoid dendritic cell chemotaxis namespace: biological_process def: "The movement of a plasmacytoid dendritic cell in response to an external stimulus." [GOC:add, PMID:15159375, PMID:15814331] is_a: GO:0002407 ! dendritic cell chemotaxis [Term] id: GO:0002411 name: T cell tolerance induction to tumor cell namespace: biological_process def: "A process of tolerance induction dependent on T cells which leads to immunological tolerance of a tumor." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002413 ! tolerance induction to tumor cell is_a: GO:0002424 ! T cell mediated immune response to tumor cell is_a: GO:0002458 ! peripheral T cell tolerance induction [Term] id: GO:0002412 name: antigen transcytosis by M cells in mucosal-associated lymphoid tissue namespace: biological_process def: "The process of antigen transcytosis carried out by M cells in the mucosal-associated lymphoid tissue (MALT). Transcytosis is the process of the directed movement of endocytosed material through the cell and its exocytosis from the plasma membrane at the opposite side. M cells are specialized epithelia cells with a microfold structure that are adept at moving antigens from the gut lumen to antigen presenting cells in the MALT." [GOC:jal, ISBN:0781735149, PMID:12843411] exact_synonym: "antigen transcytosis by M cells in MALT" [] exact_synonym: "antigen transport by M cells in MALT" [] exact_synonym: "antigen transport by M cells in mucosal-associated lymphoid tissue" [] is_a: GO:0045056 ! transcytosis relationship: part_of GO:0002406 ! antigen sampling by M cells in mucosal-associated lymphoid tissue [Term] id: GO:0002413 name: tolerance induction to tumor cell namespace: biological_process def: "A process of tolerance induction which leads to immunological tolerance of a tumor." [GOC:add] is_a: GO:0002418 ! immune response to tumor cell is_a: GO:0002465 ! peripheral tolerance induction [Term] id: GO:0002414 name: immunoglobulin transcytosis in epithelial cells namespace: biological_process def: "The process of transporting immunoglobulin, via transcytosis, from one side of an epithelial cell to the other." [GOC:add, ISBN:0781735149, ISBN:081533642X, PMID:16048543] is_a: GO:0045056 ! transcytosis [Term] id: GO:0002415 name: immunoglobulin transcytosis in epithelial cells mediated by polymeric immunoglobulin receptor namespace: biological_process def: "The process of transporting polymeric IgA and polymeric IgM immunoglobulin, via transcytosis mediated by the polymeric immunoglobulin receptor (pIgR), from the basolateral surface to apical surface of an epithelial cell. At the apical surface the immunoglobulin binding portion of the pIgRis cleaved and remains bound to the transported immunoglobulin as secretory component (SC). The same process is used for the transport and excretion of IgA immune complexes to the luminal surface of the mucosa." [GOC:add, ISBN:0781735149, ISBN:081533642X, PMID:16048543] exact_synonym: "antibody transcytosis mediated by pIgR" [] exact_synonym: "immunoglobulin transcytosis mediated by pIgR" [] is_a: GO:0002414 ! immunoglobulin transcytosis in epithelial cells relationship: part_of GO:0002386 ! immune response in mucosal-associated lymphoid tissue [Term] id: GO:0002416 name: IgG immunoglobulin transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor namespace: biological_process def: "The process of transporting IgG immunoglobulin, via transcytosis using the FcRn (also known as the neonatal Fc receptor; gene name FCGRT), from apical surface of an epithelial cell to the basolateral surface or vice versa depending on the location. This process is used for uptake of IgG from the milk in the gut in rodents, for transplacental transport of IgG from mother to embryo in humans, and for maintenance of a steady-state distribution of IgG across epithelial boundaries in general in adult mammals." [GOC:add, ISBN:0781735149, ISBN:081533642X] exact_synonym: "IgG antibody transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor" [] exact_synonym: "IgG immunoglobulin transcytosis in epithelial cells mediated by neonatal immunoglobulin receptor" [] is_a: GO:0002414 ! immunoglobulin transcytosis in epithelial cells [Term] id: GO:0002417 name: B cell antigen processing and presentation mediated by B cell receptor uptake of antigen namespace: biological_process def: "B cell antigen processing and presentation which is initiated by uptake of antigen bound to the B cell receptor." [GOC:add, ISBN:0781735149, PMID:15771591] exact_synonym: "B lymphocyte antigen processing and presentation mediated by B cell receptor uptake of antigen" [] exact_synonym: "B-cell antigen processing and presentation mediated by B cell receptor uptake of antigen" [] exact_synonym: "B-lymphocyte antigen processing and presentation mediated by B cell receptor uptake of antigen" [] is_a: GO:0002450 ! B cell antigen processing and presentation is_a: GO:0002751 ! antigen processing and presentation following receptor mediated endocytosis [Term] id: GO:0002418 name: immune response to tumor cell namespace: biological_process def: "An immune system process that functions in the response of an organism to a tumor cell." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002347 ! response to tumor cell is_a: GO:0006955 ! immune response [Term] id: GO:0002419 name: T cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "The directed killing of a tumor cell by a T cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149, PMID:16730260] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in induction of apoptosis in the target cell. exact_synonym: "T lymphocyte mediated cytotoxicity directed against tumor cell target" [] exact_synonym: "T-cell mediated cytotoxicity directed against tumor cell target" [] exact_synonym: "T-lymphocyte mediated cytotoxicity directed against tumor cell target" [] is_a: GO:0001913 ! T cell mediated cytotoxicity is_a: GO:0002424 ! T cell mediated immune response to tumor cell [Term] id: GO:0002420 name: natural killer cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "The directed killing of a tumor cell by a natural killer cell through the release of granules containing cytotoxic mediators or through the engagement of death receptors." [GOC:add, ISBN:0781735149, PMID:16730260] comment: Note that either or both mechanisms mentioned in the definition may be used in this process. Note that both granule release and the engagement of death receptors on target cells result in induction of apoptosis in the target cell. exact_synonym: "NK cell mediated cytotoxicity directed against tumor cell target" [] is_a: GO:0002423 ! natural killer cell mediated immune response to tumor cell is_a: GO:0042267 ! natural killer cell mediated cytotoxicity [Term] id: GO:0002421 name: B cell antigen processing and presentation following pinocytosis namespace: biological_process def: "B cell antigen processing and presentation which is initiated by uptake of antigen via pinocytosis." [GOC:add, PMID:7543530] exact_synonym: "B lymphocyte antigen processing and presentation following pinocytosis" [] exact_synonym: "B-cell antigen processing and presentation following pinocytosis" [] exact_synonym: "B-lymphocyte antigen processing and presentation following pinocytosis" [] is_a: GO:0002450 ! B cell antigen processing and presentation is_a: GO:0002746 ! antigen processing and presentation following pinocytosis [Term] id: GO:0002422 name: immune response in urogenital tract namespace: biological_process def: "An immune response taking place in the urogenital tract. The urogenital tract." [GOC:jal] is_a: GO:0002385 ! mucosal immune response [Term] id: GO:0002423 name: natural killer cell mediated immune response to tumor cell namespace: biological_process def: "An immune response mediated by a natural killer cell triggered in response to the presence of a tumor cell." [GOC:add, ISBN:0781735149, PMID:16730260] is_a: GO:0002228 ! natural killer cell mediated immunity is_a: GO:0002418 ! immune response to tumor cell [Term] id: GO:0002424 name: T cell mediated immune response to tumor cell namespace: biological_process def: "An immune response mediated by a T cell triggered in response to the presence of a tumor cell." [GOC:add, ISBN:0781735149, PMID:16730260] comment: Note that this term includes tolerogenic responses to tumor cells mediated by responding T cells. is_a: GO:0002418 ! immune response to tumor cell is_a: GO:0002456 ! T cell mediated immunity [Term] id: GO:0002425 name: tolerance induction in urogenital tract namespace: biological_process def: "Tolerance induction taking place in the urogenital tract." [GOC:jal] is_a: GO:0002422 ! immune response in urogenital tract is_a: GO:0002427 ! mucosal tolerance induction [Term] id: GO:0002426 name: immunoglobulin production in mucosal tissue namespace: biological_process def: "The synthesis and release of immunoglobulin in the mucosal tissue." [GOC:jal] exact_synonym: "antibody production in mucosal tissue " [] is_a: GO:0002381 ! immunoglobulin production during immune response relationship: part_of GO:0002385 ! mucosal immune response [Term] id: GO:0002427 name: mucosal tolerance induction namespace: biological_process def: "Tolerance induction taking place in the mucosal tissues." [GOC:jal] is_a: GO:0002385 ! mucosal immune response is_a: GO:0002462 ! tolerance induction to nonself antigen [Term] id: GO:0002428 name: antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses peptide antigen in association with an MHC class Ib protein complex on its cell surface. The peptide antigen may originate from an endogenous or exogenous protein. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E family." [GOC:add, PMID:15928678] exact_synonym: "peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002475 ! antigen processing and presentation via MHC class Ib is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002429 name: immune response-activating cell surface receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a cell capable of activating or perpetuating an immune response." [GOC:add, ISBN:0781735149] exact_synonym: "activation of immune response by cell surface receptor signaling pathway" [] is_a: GO:0002757 ! immune response-activating signal transduction is_a: GO:0002768 ! immune response-regulating cell surface receptor signaling pathway [Term] id: GO:0002430 name: complement receptor mediated signaling pathway namespace: biological_process def: "A series of molecular signals generated as a consequence of a component of the complement pathway binding to a complement receptor. Such components include both whole complement proteins and fragments of complement proteins generated through the activity of the complement pathway." [GOC:add, ISBN:0781735149] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway [Term] id: GO:0002431 name: Fc receptor mediated stimulatory signaling pathway namespace: biological_process def: "A series of molecular signals generated as a consequence of a the binding of the Fc portion of an immunoglobulin by an Fc receptor capable of activating or perpetuating an immune response. The Fc portion of an immunoglobulin is its C-terminal constant region." [GOC:add, ISBN:0781735149] is_a: GO:0002429 ! immune response-activating cell surface receptor signaling pathway [Term] id: GO:0002432 name: granuloma formation namespace: biological_process def: "The formation of nodular inflammatory lesions, usually small or granular, firm, persistent, well-structured, and containing compactly grouped T lymphocytes and modified phagocytes such as epithelioid cells, giant cells, and other macrophages. Granuloma formation represents a chronic inflammatory response initiated by various infectious and noninfectious agents. The center of a granuloma consists of fused macrophages, which can become necrotic." [GOC:add, ISBN:068340007X, ISBN:0721601464, ISBN:081533642X] is_a: GO:0002252 ! immune effector process relationship: part_of GO:0002544 ! chronic inflammatory response [Term] id: GO:0002433 name: phagocytosis triggered by activation of immune response cell surface activating receptor namespace: biological_process def: "Phagocytosis occurring as the result of a ligand binding an immune response cell surface activating receptor." [GOC:add, ISBN:0781735149] is_a: GO:0002252 ! immune effector process is_a: GO:0006909 ! phagocytosis [Term] id: GO:0002434 name: immune complex clearance namespace: biological_process def: "A process directed at removing immune complexes from the body. Immune complexes are clusters of antibodies bound to antigen, to which complement may also be fixed, and which may precipitate or remain in solution." [GOC:add, ISBN:068340007X] is_a: GO:0002252 ! immune effector process [Term] id: GO:0002435 name: immune complex clearance by erythrocytes namespace: biological_process def: "The process of immune complex clearance by erythrocytes." [GOC:add, PMID:11414352] exact_synonym: "immune complex clearance by red blood cells" [] is_a: GO:0002434 ! immune complex clearance [Term] id: GO:0002436 name: immune complex clearance by monocytes and macrophages namespace: biological_process def: "The process of immune complex clearance by monocytes or macrophages." [GOC:add, ISBN:0781735149] is_a: GO:0002434 ! immune complex clearance [Term] id: GO:0002437 name: inflammatory response to antigenic stimulus namespace: biological_process def: "An inflammatory response to an antigenic stimulus, which can be include any number of T cell or B cell epitopes." [GOC:add, ISBN:0781735149] is_a: GO:0006954 ! inflammatory response is_a: GO:0006955 ! immune response [Term] id: GO:0002438 name: acute inflammatory response to antigenic stimulus namespace: biological_process def: "An acute inflammatory response to an antigenic stimulus. An acute inflammatory response occurs within a matter of minutes or hours, and either resolves within a few days or becomes a chronic inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002437 ! inflammatory response to antigenic stimulus is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002439 name: chronic inflammatory response to antigenic stimulus namespace: biological_process def: "A chronic inflammatory response to an antigenic stimulus. A chronic inflammatory response persists indefinitely during days, weeks, or months in the life of an individual." [GOC:add, ISBN:0781735149] is_a: GO:0002437 ! inflammatory response to antigenic stimulus is_a: GO:0002544 ! chronic inflammatory response [Term] id: GO:0002440 name: production of molecular mediator of immune response namespace: biological_process def: "The synthesis or release of any molecular mediator of the immune response following an immunological stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] related_synonym: "production of cellular mediator of immune response" [] is_a: GO:0002252 ! immune effector process [Term] id: GO:0002441 name: histamine secretion during acute inflammatory response namespace: biological_process def: "The regulated release of histamine by a cell or group of cells during an acute inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001821 ! histamine secretion relationship: part_of GO:0002349 ! histamine production during acute inflammatory response [Term] id: GO:0002442 name: serotonin secretion during acute inflammatory response namespace: biological_process def: "The regulated release of serotonin by a cell or group of cells during an acute inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0001820 ! serotonin secretion relationship: part_of GO:0002351 ! serotonin production during acute inflammatory response [Term] id: GO:0002443 name: leukocyte mediated immunity namespace: biological_process alt_id: GO:0019723 alt_id: GO:0042087 def: "Any process involved in the carrying out of an immune response by a leukocyte." [GOC:add, ISBN:0781735149] related_synonym: "cell-mediated immune response" [] related_synonym: "cellular immune response" [] exact_synonym: "immune cell effector process" [] exact_synonym: "immune cell mediated immunity" [] exact_synonym: "leucocyte immune effector process" [] exact_synonym: "leucocyte mediated immunity" [] exact_synonym: "leukocyte immune effector process" [] is_a: GO:0002252 ! immune effector process [Term] id: GO:0002444 name: myeloid leukocyte mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a myeloid leukocyte." [GOC:add, ISBN:0781735149] exact_synonym: "myeloid leucocyte immune effector process" [] exact_synonym: "myeloid leucocyte mediated immunity" [] exact_synonym: "myeloid leukocyte immune effector process" [] is_a: GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002445 name: type II hypersensitivity namespace: biological_process def: "An inflammatory response resulting in cell death or dysfunction mediated by activation of the classical complement pathway or induction of effector cell phagocytosis, cytolysis mechanisms via complement or Fc receptors following the binding of antibodies to cell surface antigens on a target cell, or mediated by the direct binding of antibody to cellular receptors." [GOC:add, ISBN:0781735149] is_a: GO:0002444 ! myeloid leukocyte mediated immunity is_a: GO:0002524 ! hypersensitivity is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002446 name: neutrophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a neutrophil." [GOC:add, ISBN:0781735149] is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002447 name: eosinophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by an eosinophil." [GOC:add, ISBN:0781735149] is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002448 name: mast cell mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a mast cell." [GOC:add, ISBN:0781735149] is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002449 name: lymphocyte mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a lymphocyte." [GOC:add, ISBN:0781735149] broad_synonym: "cell-mediated immunity" [] broad_synonym: "cellular immune response" [] is_a: GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002450 name: B cell antigen processing and presentation namespace: biological_process def: "The process by which a B cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] exact_synonym: "B lymphocyte antigen processing and presentation" [] exact_synonym: "B-cell antigen processing and presentation" [] exact_synonym: "B-lymphocyte antigen processing and presentation" [] is_a: GO:0019882 ! antigen processing and presentation relationship: part_of GO:0019724 ! B cell mediated immunity [Term] id: GO:0002451 name: peripheral B cell tolerance induction namespace: biological_process def: "Tolerance induction of mature B cells in the peripheral lymphoid tissues: the blood, lymph nodes, spleen, and mucosal-associated lymphoid tissue." [GOC:jal, ISBN:0781735149] exact_synonym: "peripheral B lymphocyte tolerance induction" [] exact_synonym: "peripheral B-cell tolerance induction" [] exact_synonym: "peripheral B-lymphocyte tolerance induction" [] is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002514 ! B cell tolerance induction is_a: GO:0019724 ! B cell mediated immunity [Term] id: GO:0002452 name: B cell receptor editing namespace: biological_process def: "The process of replacing receptors on B cells, in which RAG gene expression allows continued light-chain gene rearrangement and expression of a new light change which combines with the previous heavy chain to form a new receptor." [GOC:jal, ISBN:0781735149] exact_synonym: "B lymphocyte receptor editing" [] exact_synonym: "B-cell receptor editing" [] exact_synonym: "B-lymphocyte receptor editing" [] is_a: GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002453 name: peripheral B cell anergy namespace: biological_process def: "Any process contributing to anergy in peripheral B cells. Anergy is a state of functional inactivation and occurs as part of tolerance induction." [GOC:jal, ISBN:0781735149] exact_synonym: "peripheral B lymphocyte anergy" [] exact_synonym: "peripheral B-cell anergy" [] exact_synonym: "peripheral B-lymphocyte anergy" [] is_a: GO:0002515 ! B cell anergy relationship: part_of GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002454 name: peripheral B cell deletion namespace: biological_process def: "The deletion of B cells by apoptosis occurring as part of peripheral tolerance induction and B cell selection." [GOC:add, GOC:jal, ISBN:0781735149] exact_synonym: "peripheral B lymphocyte deletion" [] exact_synonym: "peripheral B-cell deletion" [] exact_synonym: "peripheral B-lymphocyte deletion" [] is_a: GO:0002516 ! B cell deletion relationship: part_of GO:0002451 ! peripheral B cell tolerance induction [Term] id: GO:0002455 name: humoral immune response mediated by circulating immunoglobulin namespace: biological_process def: "An immune response dependent upon secreted immunoglobulin." [GOC:add, ISBN:0781735149] related_synonym: "humoral defence mechanism (sensu Vertebrata)" [] related_synonym: "humoral defense mechanism (sensu Vertebrata)" [] exact_synonym: "circulating antibody mediated immune response" [] exact_synonym: "circulating immunoglobulin mediated immune response" [] exact_synonym: "humoral immune response mediated by circulating antibody" [] is_a: GO:0006959 ! humoral immune response is_a: GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002456 name: T cell mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a T cell." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte mediated immunity" [] exact_synonym: "T-cell mediated immunity" [] exact_synonym: "T-lymphocyte mediated immunity" [] broad_synonym: "cell-mediated immunity" [] broad_synonym: "cellular immune response" [] is_a: GO:0002449 ! lymphocyte mediated immunity is_a: GO:0002460 ! adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002457 name: T cell antigen processing and presentation namespace: biological_process def: "The process by which a T cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, PMID:11417857, PMID:15120183] exact_synonym: "T lymphocyte antigen processing and presentation" [] exact_synonym: "T-cell antigen processing and presentation" [] exact_synonym: "T-lymphocyte antigen processing and presentation" [] is_a: GO:0019882 ! antigen processing and presentation relationship: part_of GO:0002456 ! T cell mediated immunity [Term] id: GO:0002458 name: peripheral T cell tolerance induction namespace: biological_process def: "Tolerance induction of T cells in the periphery, in this case, any location in the body other than the thymus." [GOC:jal, ISBN:0781735149] exact_synonym: "peripheral T lymphocyte tolerance induction" [] exact_synonym: "peripheral T-cell tolerance induction" [] exact_synonym: "peripheral T-lymphocyte tolerance induction" [] is_a: GO:0002456 ! T cell mediated immunity is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002517 ! T cell tolerance induction [Term] id: GO:0002459 name: adaptive immune response (sensu Myxinidae and Petromyzontidae) namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process, and allowing for enhanced response to subsequent exposures to the same antigen (immunological memory), as in, but not restricted to, hagfish and lamprays (Myxinidae, ncbi_taxonomy_id:7762, Petromyzontidae, ncbi_taxonomy_id:7746)." [GOC:add, PMID:16373579] exact_synonym: "adaptive immune response in jawless fish" [] is_a: GO:0002250 ! adaptive immune response [Term] id: GO:0002460 name: adaptive immune response (sensu Gnathostomata) namespace: biological_process def: "An immune response based on directed amplification of specific receptors for antigen produced through a somatic diversification process that includes somatic recombination of germline gene segments, and allowing for enhanced response to subsequent exposures to the same antigen (immunological memory), as in, but not restricted to, the jawed vertebrates (Gnathostomata, ncbi_taxonomy_id:7776)." [GOC:add, ISBN:0781735149] is_a: GO:0002250 ! adaptive immune response [Term] id: GO:0002461 name: tolerance induction dependent upon immune response namespace: biological_process def: "Tolerance induction dependent upon an immune response, typically a response by a mature T or B cell in the periphery resulting tolerance towards an antigen via induction of anergy, cellular deletion, or regulatory T cell activation." [GOC:jal, ISBN:0781735149] exact_synonym: "immune response-dependent tolerance induction" [] is_a: GO:0002460 ! adaptive immune response (sensu Gnathostomata) is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002462 name: tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction in response to nonself antigens." [GOC:jal, ISBN:0781735149] is_a: GO:0002461 ! tolerance induction dependent upon immune response [Term] id: GO:0002463 name: central tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction to nonself antigens in the central lymphoid organs." [GOC:jal, PMID:12547504] is_a: GO:0002462 ! tolerance induction to nonself antigen is_a: GO:0002508 ! central tolerance induction [Term] id: GO:0002464 name: peripheral tolerance induction to nonself antigen namespace: biological_process def: "Tolerance induction to nonself antigens in the periphery." [GOC:jal, ISBN:0781735149] is_a: GO:0002462 ! tolerance induction to nonself antigen is_a: GO:0002465 ! peripheral tolerance induction [Term] id: GO:0002465 name: peripheral tolerance induction namespace: biological_process def: "Tolerance induction in the peripheral lymphoid tissues: blood, lymph nodes, spleen, and mucosal-associated lymphoid tissues." [GOC:jal, ISBN:0781735149] is_a: GO:0002461 ! tolerance induction dependent upon immune response [Term] id: GO:0002466 name: peripheral tolerance induction to self antigen namespace: biological_process def: "Tolerance induction to self antigens in the peripheral lymphoid tissues: blood, lymph nodes, spleen, and mucosal-associated lymphoid tissues." [GOC:jal, ISBN:0781735149] is_a: GO:0002465 ! peripheral tolerance induction is_a: GO:0002513 ! tolerance induction to self antigen [Term] id: GO:0002467 name: germinal center formation namespace: biological_process def: "The process by which germinal centers form. A germinal center is a specialized microenvironment formed when activated B cells enter lymphoid follicles. Germinal centers are the foci for B cell proliferation and somatic hypermutation." [GOC:jal, ISBN:081533642X] is_a: GO:0002460 ! adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002468 name: dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002469 name: myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a myeloid dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002470 name: plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "The process by which a plasmacytoid dendritic cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002471 name: monocyte antigen processing and presentation namespace: biological_process def: "The process by which a monocyte expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, PMID:11200054] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002472 name: macrophage antigen processing and presentation namespace: biological_process def: "The process by which a macrophage expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002473 name: non-professional antigen presenting cell antigen processing and presentation namespace: biological_process def: "The process by which a non-professional antigen presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex. Non-professional antigen presenting cells include all cell types but dendritic cells, B cells, T cells, monocytes, macrophages, and neutrophils." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002474 name: antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen on its cell surface in association with an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149, PMID:15224092, PMID:15771591] exact_synonym: "peptide antigen processing and presentation via MHC class I" [] is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002475 name: antigen processing and presentation via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the CD1 or HLA-E gene families." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002476 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib is_a: GO:0002483 ! antigen processing and presentation of endogenous peptide antigen [Term] id: GO:0002477 name: antigen processing and presentation of exogenous peptide antigen via MHC class Ib namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "exogenous peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib is_a: GO:0002478 ! antigen processing and presentation of exogenous peptide antigen [Term] id: GO:0002478 name: antigen processing and presentation of exogenous peptide antigen namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC protein complex. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell." [GOC:add, ISBN:0781735149] exact_synonym: "exogenous peptide antigen processing and presentation" [] is_a: GO:0019884 ! antigen processing and presentation of exogenous antigen is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002479 name: antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class I molecule. Class I here refers to classical class I molecules." [GOC:add, PMID:15224093, PMID:15771591, PMID:16181335] exact_synonym: "exogenous peptide antigen processing and presentation via MHC class I, TAP-dependent" [] exact_synonym: "TAP-dependent antigen processing and presentation of exogenous peptide antigen via MHC class I" [] exact_synonym: "TAP-dependent exogenous peptide antigen processing and presentation via MHC class I" [] broad_synonym: "cross presentation" [] broad_synonym: "cross-presentation" [] is_a: GO:0042590 ! antigen processing and presentation of exogenous peptide antigen via MHC class I [Term] id: GO:0002480 name: antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class I here refers to classical class I molecules." [GOC:add, PMID:15224093, PMID:15771591, PMID:16181335] exact_synonym: "exogenous peptide antigen processing and presentation via MHC class I, TAP-independent" [] exact_synonym: "TAP-independent antigen processing and presentation of exogenous peptide antigen via MHC class I" [] exact_synonym: "TAP-independent exogenous peptide antigen processing and presentation via MHC class I" [] broad_synonym: "cross presentation" [] broad_synonym: "cross-presentation" [] is_a: GO:0042590 ! antigen processing and presentation of exogenous peptide antigen via MHC class I [Term] id: GO:0002481 name: antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class Ib molecule. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "exogenous peptide antigen processing and presentation via MHC class Ib, TAP-dependent" [] exact_synonym: "TAP-dependent antigen processing and presentation of exogenous peptide antigen via MHC class Ib" [] exact_synonym: "TAP-dependent exogenous peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002477 ! antigen processing and presentation of exogenous peptide antigen via MHC class Ib [Term] id: GO:0002482 name: antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger exogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "exogenous peptide antigen processing and presentation via MHC class Ib, TAP-independent" [] exact_synonym: "TAP-independent antigen processing and presentation of exogenous peptide antigen via MHC class Ib" [] exact_synonym: "TAP-independent exogenous peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002477 ! antigen processing and presentation of exogenous peptide antigen via MHC class Ib [Term] id: GO:0002483 name: antigen processing and presentation of endogenous peptide antigen namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell." [GOC:add, ISBN:0781735149] exact_synonym: "endogenous peptide antigen processing and presentation" [] is_a: GO:0019883 ! antigen processing and presentation of endogenous antigen is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002484 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via an ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149, PMID:14647477, PMID:15771591] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway" [] is_a: GO:0019885 ! antigen processing and presentation of endogenous peptide antigen via MHC class I [Term] id: GO:0002485 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP-dependent ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER following TAP-dependent transport from the cytosol. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149, PMID:14647477, PMID:15771591] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway, TAP-dependent" [] exact_synonym: "TAP-dependent antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway" [] exact_synonym: "TAP-dependent endogenous peptide antigen processing and presentation via MHC class I via ER pathway" [] is_a: GO:0002484 ! antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway [Term] id: GO:0002486 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex following intracellular transport via a TAP-independent ER pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in the ER following transport from the cytosol via a TAP-independent pathway. Class I here refers to classical class I molecules." [GOC:add, PMID:14647477, PMID:15771591] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class I via ER pathway, TAP-independent" [] exact_synonym: "TAP-independent antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway" [] exact_synonym: "TAP-independent endogenous peptide antigen processing and presentation via MHC class I via ER pathway" [] is_a: GO:0002484 ! antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway [Term] id: GO:0002487 name: antigen processing and presentation of endogenous peptide antigen via MHC class I via endolysosomal pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class I protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and becomes associated with the MHC class I molecule in an endolysosome. Class I here refers to classical class I molecules." [GOC:add, PMID:10631943] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class I via endolysosomal pathway" [] is_a: GO:0019885 ! antigen processing and presentation of endogenous peptide antigen via MHC class I [Term] id: GO:0002488 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" [] is_a: GO:0002476 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib [Term] id: GO:0002489 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a TAP (transporter associated with antigen processing) pathway. The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell and is dependent on TAP transport from the cytosol to ER for association with the MHC class Ib molecule. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway, TAP-dependent" [] exact_synonym: "TAP-dependent antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway" [] exact_synonym: "TAP-dependent endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" [] is_a: GO:0002488 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway [Term] id: GO:0002490 name: antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-independent namespace: biological_process def: "The process by which an antigen-presenting cell expresses a peptide antigen of endogenous origin on its cell surface in association with an MHC class Ib protein complex following intracellular transport via a pathway not requiring TAP (transporter associated with antigen processing). The peptide is typically a fragment of a larger endogenous protein which has been degraded within the cell. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway, TAP-independent" [] exact_synonym: "TAP-independent antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway" [] exact_synonym: "TAP-independent endogenous peptide antigen processing and presentation via MHC class Ib via ER pathway" [] is_a: GO:0002488 ! antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway [Term] id: GO:0002491 name: antigen processing and presentation of endogenous peptide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses an peptide antigen of endogenous origin on its cell surface in association with an MHC class II protein complex. The peptide antigen is typically, but not always, processed from a whole protein." [GOC:add, PMID:15531770, PMID:16181338] exact_synonym: "endogenous peptide antigen processing and presentation via MHC class II" [] is_a: GO:0002483 ! antigen processing and presentation of endogenous peptide antigen is_a: GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002492 name: peptide antigen assembly with MHC class Ib protein complex namespace: biological_process def: "The binding of a peptide antigen to the antigen binding groove of an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the HLA-E gene family." [GOC:add, PMID:15928678] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002398 ! MHC class Ib protein complex assembly relationship: part_of GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002493 name: lipid antigen assembly with MHC class Ib protein complex namespace: biological_process def: "The binding of a lipid antigen to the antigen binding groove of an MHC class Ib protein complex. Class Ib here refers to non-classical class I molecules, such as those of the CD1 gene family." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0002398 ! MHC class Ib protein complex assembly relationship: part_of GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002494 name: lipid antigen transport namespace: biological_process def: "The directed movement of a lipid antigen into, out of, within or between cells." [GOC:add, PMID:15928678, PMID:15928680] is_a: GO:0006869 ! lipid transport relationship: part_of GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002495 name: antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses an peptide antigen on its cell surface in association with an MHC class II protein complex. The peptide antigen is typically, but not always, processed from a whole protein." [GOC:add, ISBN:0781735149, PMID:15531770, PMID:15771591] exact_synonym: "peptide antigen processing and presentation via MHC class II" [] is_a: GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002496 name: proteolysis associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15224092, PMID:15771591] is_a: GO:0051603 ! proteolysis during cellular protein catabolism relationship: part_of GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002497 name: proteosomal proteolysis associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by the proteosome complex contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15224092, PMID:15771591] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation is_a: GO:0043161 ! proteasomal ubiquitin-dependent protein catabolism [Term] id: GO:0002498 name: proteolysis within endoplasmic reticulum associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by ER resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15224092, PMID:15771591] exact_synonym: "endoplasmic reticulum proteolysis associated with antigen processing and presentation" [] exact_synonym: "ER proteolysis associated with antigen processing and presentation" [] exact_synonym: "proteolysis within ER associated with antigen processing and presentation" [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002499 name: proteolysis within endosome associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by endosomal resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15771591] exact_synonym: "endosomal proteolysis associated with antigen processing and presentation" [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002500 name: proteolysis within lysosome associated with antigen processing and presentation namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein by lysosomal resident proteases contributing to antigen processing and presentation." [GOC:add, ISBN:0781735149, PMID:15771591] exact_synonym: "lysosomal proteolysis associated with antigen processing and presentation" [] is_a: GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002501 name: peptide antigen assembly with MHC protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0002396 ! MHC protein complex assembly relationship: part_of GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002502 name: peptide antigen assembly with MHC class I protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC class I protein complex. Class I here refers to classical class I molecules." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002397 ! MHC class I protein complex assembly relationship: part_of GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002503 name: peptide antigen assembly with MHC class II protein complex namespace: biological_process def: "The binding of a peptide to the antigen binding groove of an MHC class II protein complex." [GOC:add, ISBN:0781735149, PMID:15771591] is_a: GO:0002501 ! peptide antigen assembly with MHC protein complex relationship: part_of GO:0002399 ! MHC class II protein complex assembly relationship: part_of GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002504 name: antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses antigen (peptide or polysaccharide) on its cell surface in association with an MHC class II protein complex." [GOC:add, ISBN:0781735149, PMID:15531770, PMID:15771591, PMID:16153240] exact_synonym: "peptide or polysaccharide antigen processing and presentation of via MHC class II" [] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002505 name: antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "The process by which an antigen-presenting cell expresses a polysaccharide antigen on its cell surface in association with an MHC class II protein complex." [GOC:add, PMID:16153240] exact_synonym: "polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002506 name: polysaccharide assembly with MHC class II protein complex namespace: biological_process def: "The binding of a polysaccharide to the antigen binding groove of an MHC class II protein complex." [GOC:add, PMID:16153240] is_a: GO:0043623 ! cellular protein complex assembly relationship: part_of GO:0002399 ! MHC class II protein complex assembly relationship: part_of GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002507 name: tolerance induction namespace: biological_process def: "A process that directly activates any of the steps required for tolerance, a physiologic state in which the immune system does not react destructively against the components of an organism that harbors it or against antigens that are introduced to it." [GOC:jal, ISBN:0781735149] is_a: GO:0002376 ! immune system process [Term] id: GO:0002508 name: central tolerance induction namespace: biological_process def: "Tolerance induction in the central lymphoid organs: the thymus and bone marrow." [GOC:jal, ISBN:0781735149] is_a: GO:0002507 ! tolerance induction relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0002509 name: central tolerance induction to self antigen namespace: biological_process def: "Tolerance induction in the central lymphoid organs directed at self antigens." [GOC:jal, ISBN:0781735149, PMID:16460922] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002513 ! tolerance induction to self antigen [Term] id: GO:0002510 name: central B cell tolerance induction namespace: biological_process def: "Tolerance induction of B cells in the bone marrow." [GOC:jal, PMID:16460922] exact_synonym: "central B lymphocyte tolerance induction" [] exact_synonym: "central B-cell tolerance induction" [] exact_synonym: "central B-lymphocyte tolerance induction" [] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002514 ! B cell tolerance induction [Term] id: GO:0002511 name: central B cell receptor editing namespace: biological_process def: "Receptor editing occurring in B cells in the bone marrow." [GOC:jal, PMID:16460922] exact_synonym: "central B lymphocyte receptor editing" [] exact_synonym: "central B-cell receptor editing" [] exact_synonym: "central B-lymphocyte receptor editing" [] is_a: GO:0002452 ! B cell receptor editing [Term] id: GO:0002512 name: central T cell tolerance induction namespace: biological_process def: "Tolerance induction of T cells in the thymus." [GOC:jal, ISBN:0781735149] exact_synonym: "central T lymphocyte tolerance induction" [] exact_synonym: "central T-cell tolerance induction" [] exact_synonym: "central T-lymphocyte tolerance induction" [] is_a: GO:0002508 ! central tolerance induction is_a: GO:0002517 ! T cell tolerance induction [Term] id: GO:0002513 name: tolerance induction to self antigen namespace: biological_process def: "Tolerance induction directed at self antigens." [GOC:jal, ISBN:0781735149] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002514 name: B cell tolerance induction namespace: biological_process def: "A process involving any mechanism for tolerance induction in B cells." [GOC:jal, ISBN:0781735149, PMID:16460922] exact_synonym: "B lymphocyte tolerance induction" [] exact_synonym: "B-cell tolerance induction" [] exact_synonym: "B-lymphocyte tolerance induction" [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002515 name: B cell anergy namespace: biological_process def: "Any process contributing to anergy in B cells, a state of functional inactivation which is part of B cell tolerance induction." [GOC:jal, ISBN:0781735149] exact_synonym: "B lymphocyte anergy" [] exact_synonym: "B-cell anergy" [] exact_synonym: "B-lymphocyte anergy" [] is_a: GO:0002249 ! lymphocyte anergy relationship: part_of GO:0002514 ! B cell tolerance induction [Term] id: GO:0002516 name: B cell deletion namespace: biological_process def: "The apoptotic death of B cells which is part of B cell tolerance induction." [GOC:add, GOC:jal, ISBN:0781735149] exact_synonym: "B lymphocyte deletion" [] exact_synonym: "B-cell deletion" [] exact_synonym: "B-lymphocyte deletion" [] is_a: GO:0001783 ! B cell apoptosis relationship: part_of GO:0002514 ! B cell tolerance induction [Term] id: GO:0002517 name: T cell tolerance induction namespace: biological_process def: "A process involving any mechanism for tolerance induction in T cells." [GOC:jal, ISBN:0781735149, PMID:16551263] exact_synonym: "T lymphocyte tolerance induction" [] exact_synonym: "T-cell tolerance induction" [] exact_synonym: "T-lymphocyte tolerance induction" [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002518 name: lymphocyte chemotaxis across high endothelial venule namespace: biological_process def: "The movement of a lymphocyte to cross a high endothelial venule in response to an external stimulus." [GOC:add, ISBN:0781735149, PMID:15122201] is_a: GO:0048247 ! lymphocyte chemotaxis [Term] id: GO:0002519 name: natural killer cell tolerance induction namespace: biological_process def: "Tolerance induction of natural killer cells." [GOC:jal, PMID:16546094] exact_synonym: "NK cell tolerance induction" [] is_a: GO:0002507 ! tolerance induction [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:add, GOC:dph] is_a: GO:0002376 ! immune system process is_a: GO:0048513 ! organ development [Term] id: GO:0002521 name: leukocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a plasmacytoid dendritic cell or any cell of the myeloid leukocyte or lymphocyte lineages." [GOC:add, PMID:16551264] exact_synonym: "immune cell differentiation" [] exact_synonym: "leucocyte differentiation" [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030097 ! hemopoiesis [Term] id: GO:0002522 name: leukocyte migration during immune response namespace: biological_process def: "The movement of leukocytes within or between different tissues and organs of the body during an immune response." [GOC:add, ISBN:0781735149, PMID:14680625, PMID:14708592, PMID:7507411, PMID:8600538] exact_synonym: "immune cell migration during immune response" [] exact_synonym: "immune cell trafficking during immune response" [] exact_synonym: "leucocyte migration during immune response" [] exact_synonym: "leucocyte trafficking during immune response" [] exact_synonym: "leukocyte trafficking during immune response" [] is_a: GO:0050900 ! leukocyte migration [Term] id: GO:0002523 name: leukocyte migration during inflammatory response namespace: biological_process def: "The movement of leukocytes within or between different tissues and organs of the body during an inflammatory response." [GOC:add, ISBN:0781735149, PMID:14680625, PMID:14708592, PMID:7507411, PMID:8600538] exact_synonym: "immune cell migration during inflammatory response" [] exact_synonym: "immune cell trafficking during inflammatory response" [] exact_synonym: "leucocyte migration during inflammatory response" [] exact_synonym: "leucocyte trafficking during inflammatory response" [] exact_synonym: "leukocyte trafficking during inflammatory response" [] is_a: GO:0050900 ! leukocyte migration relationship: part_of GO:0006954 ! inflammatory response [Term] id: GO:0002524 name: hypersensitivity namespace: biological_process def: "An inflammatory response to an exogenous environmental antigen or an endogenous antigen initiated by the adaptive immune system." [GOC:jal, ISBN:0781735149] related_synonym: "hypersensitivity response" [ISBN:0781735149] is_a: GO:0002438 ! acute inflammatory response to antigenic stimulus [Term] id: GO:0002525 name: acute inflammatory response to non-antigenic stimulus namespace: biological_process def: "An acute inflammatory response to non-antigenic stimuli such as heat or physical trauma." [GOC:jal, PMID:16459497, PMID:9073326] is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002526 name: acute inflammatory response namespace: biological_process def: "Inflammation which comprises a rapid, short-lived, relatively uniform response to acute injury or antigenic challenge and is characterized by accumulations of fluid, plasma proteins, and granulocytic leukocytes. An acute inflammatory response occurs within a matter of minutes or hours, and either resolves within a few days or becomes a chronic inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0006954 ! inflammatory response [Term] id: GO:0002527 name: vasodilation during acute inflammatory response namespace: biological_process def: "An increase in the internal diameter of blood vessels, especially arterioles or capillaries, usually resulting in a decrease in blood pressure during an acute inflammatory response." [GOC:jal] is_a: GO:0042311 ! vasodilation relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002528 name: regulation of vascular permeability during acute inflammatory response namespace: biological_process def: "Any process that modulates the extent to which blood vessels can be pervaded by fluid during an acute inflammatory response." [GOC:jal] is_a: GO:0043114 ! regulation of vascular permeability relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002529 name: regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] is_a: GO:0002256 ! regulation of kinin cascade relationship: part_of GO:0002353 ! plasma kallikrein-kinin cascade [Term] id: GO:0002530 name: regulation of blood pressure during acute phase response namespace: biological_process def: "Any process that modulates the force with which blood travels through the circulatory system during the acute phase response. The acute phase response occurs during the early phases of an infection and is marked by changes in the production of plasma proteins such as C-reactive protein." [GOC:jal, ISBN:081533642X] is_a: GO:0008217 ! blood pressure regulation relationship: part_of GO:0006953 ! acute-phase response [Term] id: GO:0002531 name: regulation of heart contraction during acute phase response namespace: biological_process def: "Any process that modulates the frequency, rate or extent of heart contraction during the acute phase response. The acute phase response occurs during the early phases of an infection and is marked by changes in the production of plasma proteins such as C-reactive protein." [GOC:jal, PMID:15642986, PMID:15834430] is_a: GO:0008016 ! regulation of heart contraction relationship: part_of GO:0006953 ! acute-phase response [Term] id: GO:0002532 name: production of molecular mediator of acute inflammatory response namespace: biological_process def: "The synthesis or release of any molecular mediator of the acute inflammatory response following an inflammatory stimulus, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] related_synonym: "production of cellular mediator of acute inflammation" [] is_a: GO:0002526 ! acute inflammatory response [Term] id: GO:0002533 name: secretion of lysosomal enzymes during acute inflammatory response namespace: biological_process def: "The regulated release of lysosomal enzymes by a cell or group of cells during an acute inflammatory response." [GOC:jal, PMID:11836514] is_a: GO:0009306 ! protein secretion relationship: part_of GO:0002393 ! production of lysosomal enzymes during acute inflammatory response [Term] id: GO:0002534 name: cytokine production during acute inflammatory response namespace: biological_process def: "The synthesis or release of a cytokine following a inflammatory stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0001816 ! cytokine production is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002535 name: platelet activating factor secretion during acute inflammatory response namespace: biological_process def: "The regulated release of platelet activating factor by a cell or group of cells during an acute inflammatory response." [GOC:add, ISBN:0781735149] is_a: GO:0002392 ! platelet activating factor secretion relationship: part_of GO:0002391 ! platelet activating factor production during acute inflammatory response [Term] id: GO:0002536 name: respiratory burst during acute inflammatory response namespace: biological_process def: "A phase of elevated metabolic activity, during which oxygen consumption increases following a stimulus during an acute inflammatory response; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals, resulting in an increase in their intracellular or extracellular levels." [GOC:add, ISBN:0781735149] exact_synonym: "oxidative burst during acute inflammatory response " [] exact_synonym: "production of reactive oxygen species during acute inflammatory response" [] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response is_a: GO:0002679 ! respiratory burst during defense response [Term] id: GO:0002537 name: production of nitric oxide during acute inflammatory response namespace: biological_process def: "The synthesis or release of nitric oxide following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002538 name: production of arachidonic acid metabolites during acute inflammatory response namespace: biological_process def: "The synthesis or release of products of arachidonic acid metabolism following a stimulus during an acute inflammatory response, resulting in an increase in their intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0002532 ! production of molecular mediator of acute inflammatory response [Term] id: GO:0002539 name: prostaglandin production during acute inflammatory response namespace: biological_process def: "The synthesis or release of any prostaglandin following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0002538 ! production of arachidonic acid metabolites during acute inflammatory response [Term] id: GO:0002540 name: leukotriene production during acute inflammatory response namespace: biological_process def: "The synthesis or release of any leukotriene following a stimulus during an acute inflammatory response, resulting in an increase in its intracellular or extracellular levels." [GOC:add, ISBN:0781735149] is_a: GO:0002538 ! production of arachidonic acid metabolites during acute inflammatory response [Term] id: GO:0002541 name: activation of plasma proteins during acute inflammatory response namespace: biological_process def: "Any process activating plasma proteins via proteolysis during an acute inflammatory response." [GOC:jal, ISBN:0781735149] is_a: GO:0006508 ! proteolysis relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002542 name: Factor XII activation namespace: biological_process def: "Any process that activates Factor XII (Hageman factor). Factor XII is a protein synthesized by the liver that circulates in an inactive form until it encounters collagen or basement membrane or activated platelets (as occurs at the site of endothelial injury). Factor XII then undergoes a conformational change (becoming factor XIIa), exposing an active serine center that can subsequently cleave protein substrates and activate a variety of mediator systems. Factor XII is a participant in the clotting cascade as well as the kinin cascade." [GOC:jal, ISBN:0721601871] exact_synonym: "Hageman factor activation" [] is_a: GO:0002541 ! activation of plasma proteins during acute inflammatory response relationship: part_of GO:0002353 ! plasma kallikrein-kinin cascade [Term] id: GO:0002543 name: activation of blood coagulation via clotting cascade namespace: biological_process def: "Any process that initiates the clotting cascade of blood coagulation, a cascade of plasma enzymes that is triggered following damage to blood vessels, leading to formation of a clot." [GOC:jal, ISBN:0781735149] exact_synonym: "activation of clotting cascade" [] is_a: GO:0030194 ! positive regulation of blood coagulation relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002544 name: chronic inflammatory response namespace: biological_process def: "Inflammation of prolonged duration (weeks or months) in which active inflammation, tissue destruction, and attempts at repair are proceeding simultaneously. Although it may follow acute inflammation, chronic inflammation frequently begins insidiously, as a low-grade, smoldering, often asymptomatic response." [GOC:jal, ISBN:0781735149] is_a: GO:0006954 ! inflammatory response [Term] id: GO:0002545 name: chronic inflammatory response to non-antigenic stimulus namespace: biological_process def: "A chronic inflammatory response to a non-antigenic stimulus such as heat or physical trauma." [GOC:jal] is_a: GO:0002544 ! chronic inflammatory response [Term] id: GO:0002546 name: negative regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] exact_synonym: "negative regulation of glandular kallikrein-kinin cascade" [] is_a: GO:0002257 ! negative regulation of kinin cascade is_a: GO:0002382 ! regulation of tissue kallikrein-kinin cascade [Term] id: GO:0002547 name: positive regulation of tissue kallikrein-kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the tissue kallikrein-kinin cascade." [GOC:add] exact_synonym: "positive regulation of glandular kallikrein-kinin cascade" [] is_a: GO:0002258 ! positive regulation of kinin cascade is_a: GO:0002382 ! regulation of tissue kallikrein-kinin cascade [Term] id: GO:0002548 name: monocyte chemotaxis namespace: biological_process def: "The movement of a monocyte in response to an external stimulus." [GOC:add, PMID:11696603, PMID:15173832] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002549 name: negative regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] is_a: GO:0002257 ! negative regulation of kinin cascade is_a: GO:0002529 ! regulation of plasma kallikrein-kinin cascade [Term] id: GO:0002550 name: positive regulation of plasma kallikrein-kinin cascade namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the plasma kallikrein-kinin cascade." [GOC:add] is_a: GO:0002258 ! positive regulation of kinin cascade is_a: GO:0002529 ! regulation of plasma kallikrein-kinin cascade [Term] id: GO:0002551 name: mast cell chemotaxis namespace: biological_process def: "The movement of a mast cell in response to an external stimulus." [GOC:add, PMID:11292027, PMID:12789214, PMID:16448392] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002552 name: serotonin secretion by mast cell namespace: biological_process def: "The regulated release of serotonin by a mast cell or group of mast cells." [GOC:add, ISBN:0781735149] is_a: GO:0002442 ! serotonin secretion during acute inflammatory response relationship: part_of GO:0043303 ! mast cell degranulation [Term] id: GO:0002553 name: histamine secretion by mast cell namespace: biological_process def: "The regulated release of histamine by a mast cell or group of mast cells." [GOC:add, ISBN:0781735149] is_a: GO:0002441 ! histamine secretion during acute inflammatory response relationship: part_of GO:0043303 ! mast cell degranulation [Term] id: GO:0002554 name: serotonin secretion by platelet namespace: biological_process def: "The regulated release of serotonin by a platelet or group of platelets." [GOC:add, ISBN:0781735149] is_a: GO:0002442 ! serotonin secretion during acute inflammatory response relationship: part_of GO:0002576 ! platelet degranulation [Term] id: GO:0002555 name: histamine secretion by platelet namespace: biological_process def: "The regulated release of histamine by a platelet or group of platelets." [GOC:add, PMID:9117517] is_a: GO:0002441 ! histamine secretion during acute inflammatory response relationship: part_of GO:0002576 ! platelet degranulation [Term] id: GO:0002556 name: serotonin secretion by basophil namespace: biological_process def: "The regulated release of serotonin by a basophil or group of basophils." [GOC:add, ISBN:0781735149] is_a: GO:0002442 ! serotonin secretion during acute inflammatory response relationship: part_of GO:0002561 ! basophil degranulation [Term] id: GO:0002557 name: histamine secretion by basophil namespace: biological_process def: "The regulated release of histamine by a basophil or group of basophils." [GOC:add, ISBN:0781735149] is_a: GO:0002441 ! histamine secretion during acute inflammatory response relationship: part_of GO:0002561 ! basophil degranulation [Term] id: GO:0002558 name: type I hypersensitivity mediated by mast cells namespace: biological_process def: "An inflammatory response driven by antigen recognition by antibodies bound to Fc receptors on mast cells, occurring within minutes after exposure of a sensitized individual to the antigen, and leading to the release of a variety of inflammatory mediators such as histamines." [GOC:add, ISBN:0781735149] is_a: GO:0002448 ! mast cell mediated immunity is_a: GO:0016068 ! type I hypersensitivity [Term] id: GO:0002559 name: type I hypersensitivity mediated by basophils namespace: biological_process def: "An inflammatory response driven by antigen recognition by antibodies bound to Fc receptors basophils, occurring within minutes after exposure of a sensitized individual to the antigen, and leading to the release of a variety of inflammatory mediators such as histamines." [GOC:add, ISBN:0781735149] is_a: GO:0002560 ! basophil mediated immunity is_a: GO:0016068 ! type I hypersensitivity [Term] id: GO:0002560 name: basophil mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a mast cell." [GOC:add, ISBN:0781735149] is_a: GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002561 name: basophil degranulation namespace: biological_process def: "The regulated exocytosis of secretory granules containing preformed mediators such as histamine, serotonin, and neutral proteases by a basophil." [GOC:add, ISBN:0781735149] is_a: GO:0043299 ! leukocyte degranulation is_a: GO:0045575 ! basophil activation relationship: part_of GO:0002560 ! basophil mediated immunity [Term] id: GO:0002562 name: somatic diversification of immune receptors via germline recombination within a single locus namespace: biological_process def: "The process by which immune receptor genes are diversified through recombination of the germline genetic elements within a single genetic locus." [GOC:add, ISBN:0781735149, PMID:16102575, PMID:16166509] is_a: GO:0002200 ! somatic diversification of immune receptors is_a: GO:0016444 ! somatic cell DNA recombination [Term] id: GO:0002563 name: somatic diversification of immune receptors via alternate splicing namespace: biological_process def: "The process by which immune receptor genes are diversified through alternate splicing." [GOC:add, ISBN:0781735149, PMID:16166509] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002564 name: alternate splicing of immunoglobulin genes namespace: biological_process def: "The generation of alternate transcripts of immunoglobulin genes through alternate splicing of exons." [ISBN:0781735149, PMID:9185563] exact_synonym: "alternate splicing of antibody genes" [] is_a: GO:0002563 ! somatic diversification of immune receptors via alternate splicing is_a: GO:0016445 ! somatic diversification of immunoglobulins [Term] id: GO:0002565 name: somatic diversification of immune receptors via gene conversion namespace: biological_process def: "The process by which immune receptor genes are diversified through gene conversion." [GOC:add, ISBN:0781735149] is_a: GO:0002200 ! somatic diversification of immune receptors is_a: GO:0016444 ! somatic cell DNA recombination [Term] id: GO:0002566 name: somatic diversification of immune receptors via somatic mutation namespace: biological_process def: "The process by which immune receptor genes are diversified through somatic mutation." [ISBN:0781735149, PMID:16102575] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002567 name: somatic diversification of FREP-based immune receptors namespace: biological_process def: "The process by means of which sequence diversity of the FREP-based immune receptors of snails is generated." [GOC:add, PMID:16102575] comment: Note that this type of immune receptor has been found in snails (Pulmonata, ncbi_axonomy_id:6519), but may also be seen in other species. is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002568 name: somatic diversification of T cell receptor genes namespace: biological_process def: "The somatic process by means of which sequence diversity of T cell receptor genes is generated." [GOC:add, ISBN:0781735149] exact_synonym: "somatic diversification of TCR genes" [] is_a: GO:0002200 ! somatic diversification of immune receptors relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002569 name: somatic diversification of immune receptors by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of heavy chain immunoglobulin and T cell receptor genes. N regions are found at the V-D, D-D, V-J, and D-J recombinational junctions, depending on the immune receptor gene." [GOC:add, ISBN:0781735149] is_a: GO:0002200 ! somatic diversification of immune receptors [Term] id: GO:0002570 name: somatic diversification of immunoglobulin genes by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of heavy chain immunoglobulin genes. N regions are found at the V-D and D-J recombinational junctions." [GOC:add, ISBN:0781735149] exact_synonym: "somatic diversification of antibody genes by N region addition" [] is_a: GO:0002569 ! somatic diversification of immune receptors by N region addition is_a: GO:0016445 ! somatic diversification of immunoglobulins relationship: part_of GO:0016447 ! somatic recombination of immunoglobulin gene segments [Term] id: GO:0002571 name: somatic diversification of T cell receptor genes by N region addition namespace: biological_process def: "The addition of variable numbers of random nucleotides by terminal deoxytransferase in the N regions of T cell receptor genes. N regions are found at the V-D, D-D, V-J, and D-J recombinational junctions, depending on the T cell receptor gene." [GOC:add, ISBN:0781735149] exact_synonym: "somatic diversification of TCR genes by N region addition" [] is_a: GO:0002568 ! somatic diversification of T cell receptor genes is_a: GO:0002569 ! somatic diversification of immune receptors by N region addition relationship: part_of GO:0002681 ! somatic recombination of T cell receptor gene segments [Term] id: GO:0002572 name: pro-T cell differentiation namespace: biological_process def: "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a pro-T cell. Pro-T cells are the earliest stage of the T cell lineage but are not fully committed." [GOC:add, ISBN:0781735149] exact_synonym: "pro-T lymphocyte differentiation " [] is_a: GO:0002320 ! lymphoid progenitor cell differentiation relationship: part_of GO:0030217 ! T cell differentiation [Term] id: GO:0002573 name: myeloid leukocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte lineage." [GOC:add, PMID:16551251] exact_synonym: "myeloid leucocyte differentiation" [] is_a: GO:0002521 ! leukocyte differentiation is_a: GO:0030099 ! myeloid cell differentiation [Term] id: GO:0002574 name: thrombocyte differentiation namespace: biological_process def: "The process whereby a relatively unspecialized myeloid precursor cell acquires the specialized features of a thrombocyte, a nucleated cell found in all vertebrates but mammals involved in hemostasis." [GOC:add] comment: Note that platelets are the non-nucleated mammalian functional equivalent of the nucleated thrombocytes of non-mammalian vertebrates and are sometimes also referred to as thrombocytes. Platelet formation in mammals is covered by the biological_process term platelet formation ; GO:0030220. is_a: GO:0030099 ! myeloid cell differentiation [Term] id: GO:0002575 name: basophil chemotaxis namespace: biological_process def: "The movement of a basophil in response to an external stimulus." [GOC:add, PMID:11292027] is_a: GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002576 name: platelet degranulation namespace: biological_process def: "The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet." [GOC:add] exact_synonym: "platelet exocytosis" [] is_a: GO:0006887 ! exocytosis [Term] id: GO:0002577 name: regulation of antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation." [GOC:add] is_a: GO:0002682 ! regulation of immune system process relationship: part_of GO:0019882 ! antigen processing and presentation [Term] id: GO:0002578 name: negative regulation of antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation [Term] id: GO:0002579 name: positive regulation of antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation [Term] id: GO:0002580 name: regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] exact_synonym: "regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002581 name: negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] exact_synonym: "negative regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002582 name: positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II." [GOC:add] exact_synonym: "positive regulation of peptide or polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II [Term] id: GO:0002583 name: regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] exact_synonym: "regulation of peptide antigen processing and presentation" [] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0048002 ! antigen processing and presentation of peptide antigen [Term] id: GO:0002584 name: negative regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] exact_synonym: "negative regulation of peptide antigen processing and presentation" [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen [Term] id: GO:0002585 name: positive regulation of antigen processing and presentation of peptide antigen namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen." [GOC:add] exact_synonym: "positive regulation of peptide antigen processing and presentation" [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen [Term] id: GO:0002586 name: regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] exact_synonym: "regulation of peptide antigen processing and presentation via MHC class II" [] is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen relationship: part_of GO:0002495 ! antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002587 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] exact_synonym: "negative regulation of peptide antigen processing and presentation via MHC class II" [] is_a: GO:0002581 ! negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002586 ! regulation of antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002588 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class II." [GOC:add] exact_synonym: "positive regulation of peptide antigen processing and presentation via MHC class II" [] is_a: GO:0002582 ! positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002586 ! regulation of antigen processing and presentation of peptide antigen via MHC class II [Term] id: GO:0002589 name: regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] exact_synonym: "regulation of peptide antigen processing and presentation via MHC class I" [] is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen relationship: part_of GO:0002474 ! antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002590 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] exact_synonym: "negative regulation of peptide antigen processing and presentation via MHC class I" [] is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002589 ! regulation of antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002591 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class I namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class I." [GOC:add] exact_synonym: "positive regulation of peptide antigen processing and presentation via MHC class I" [] is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002589 ! regulation of antigen processing and presentation of peptide antigen via MHC class I [Term] id: GO:0002592 name: regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002475 ! antigen processing and presentation via MHC class Ib [Term] id: GO:0002593 name: negative regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib [Term] id: GO:0002594 name: positive regulation of antigen processing and presentation via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of antigen via MHC class Ib." [GOC:add] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib [Term] id: GO:0002595 name: regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] exact_synonym: "regulation of peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002583 ! regulation of antigen processing and presentation of peptide antigen is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib relationship: part_of GO:0002428 ! antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002596 name: negative regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] exact_synonym: "negative regulation of peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002584 ! negative regulation of antigen processing and presentation of peptide antigen is_a: GO:0002593 ! negative regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002595 ! regulation of antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002597 name: positive regulation of antigen processing and presentation of peptide antigen via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of peptide antigen via MHC class Ib." [GOC:add] exact_synonym: "positive regulation of peptide antigen processing and presentation via MHC class Ib" [] is_a: GO:0002585 ! positive regulation of antigen processing and presentation of peptide antigen is_a: GO:0002594 ! positive regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002595 ! regulation of antigen processing and presentation of peptide antigen via MHC class Ib [Term] id: GO:0002598 name: regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] exact_synonym: "regulation of lipid antigen processing and presentation via MHC class Ib" [] is_a: GO:0002592 ! regulation of antigen processing and presentation via MHC class Ib relationship: part_of GO:0048003 ! antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002599 name: negative regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] exact_synonym: "negative regulation of lipid antigen processing and presentation via MHC class Ib" [] is_a: GO:0002593 ! negative regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002598 ! regulation of antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002600 name: positive regulation of antigen processing and presentation of lipid antigen via MHC class Ib namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of lipid antigen via MHC class Ib." [GOC:add] exact_synonym: "positive regulation of lipid antigen processing and presentation via MHC class Ib" [] is_a: GO:0002594 ! positive regulation of antigen processing and presentation via MHC class Ib is_a: GO:0002598 ! regulation of antigen processing and presentation of lipid antigen via MHC class Ib [Term] id: GO:0002601 name: regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] exact_synonym: "regulation of polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002580 ! regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II relationship: part_of GO:0002505 ! antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002602 name: negative regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] exact_synonym: "negative regulation of polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002581 ! negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002601 ! regulation of antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002603 name: positive regulation of antigen processing and presentation of polysaccharide antigen via MHC class II namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antigen processing and presentation of polysaccharide antigen via MHC class II." [GOC:add] exact_synonym: "positive regulation of polysaccharide antigen processing and presentation via MHC class II" [] is_a: GO:0002582 ! positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II is_a: GO:0002601 ! regulation of antigen processing and presentation of polysaccharide antigen via MHC class II [Term] id: GO:0002604 name: regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002468 ! dendritic cell antigen processing and presentation [Term] id: GO:0002605 name: negative regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation [Term] id: GO:0002606 name: positive regulation of dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation [Term] id: GO:0002607 name: regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation relationship: part_of GO:0002469 ! myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002608 name: negative regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002605 ! negative regulation of dendritic cell antigen processing and presentation is_a: GO:0002607 ! regulation of myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002609 name: positive regulation of myeloid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002606 ! positive regulation of dendritic cell antigen processing and presentation is_a: GO:0002607 ! regulation of myeloid dendritic cell antigen processing and presentation [Term] id: GO:0002610 name: regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002604 ! regulation of dendritic cell antigen processing and presentation relationship: part_of GO:0002470 ! plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002611 name: negative regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002605 ! negative regulation of dendritic cell antigen processing and presentation is_a: GO:0002610 ! regulation of plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002612 name: positive regulation of plasmacytoid dendritic cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of plasmacytoid dendritic cell antigen processing and presentation." [GOC:add] is_a: GO:0002606 ! positive regulation of dendritic cell antigen processing and presentation is_a: GO:0002610 ! regulation of plasmacytoid dendritic cell antigen processing and presentation [Term] id: GO:0002613 name: regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of monocyte antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002471 ! monocyte antigen processing and presentation [Term] id: GO:0002614 name: negative regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of monocyte antigen processing and presentation." [GOC:add] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002613 ! regulation of monocyte antigen processing and presentation [Term] id: GO:0002615 name: positive regulation of monocyte antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of monocyte antigen processing and presentation." [GOC:add] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002613 ! regulation of monocyte antigen processing and presentation [Term] id: GO:0002616 name: regulation of macrophage antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of macrophage antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002472 ! macrophage antigen processing and presentation [Term] id: GO:0002617 name: negative regulation of macrophage antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of macrophage antigen processing and presentation." [GOC:add] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002616 ! regulation of macrophage antigen processing and presentation [Term] id: GO:0002618 name: positive regulation of macrophage antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of macrophage antigen processing and presentation." [GOC:add] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002616 ! regulation of macrophage antigen processing and presentation [Term] id: GO:0002619 name: regulation of non-professional antigen presenting cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of non-professional antigen presenting cell antigen processing and presentation." [GOC:add] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002473 ! non-professional antigen presenting cell antigen processing and presentation [Term] id: GO:0002620 name: negative regulation of non-professional antigen presenting cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of non-professional antigen presenting cell antigen processing and presentation." [GOC:add] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002619 ! regulation of non-professional antigen presenting cell antigen processing and presentation [Term] id: GO:0002621 name: positive regulation of non-professional antigen presenting cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of non-professional antigen presenting cell antigen processing and presentation." [GOC:add] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002619 ! regulation of non-professional antigen presenting cell antigen processing and presentation [Term] id: GO:0002622 name: regulation of B cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell antigen processing and presentation." [GOC:add] exact_synonym: "regulation of B lymphocyte antigen processing and presentation" [] exact_synonym: "regulation of B-cell antigen processing and presentation" [] exact_synonym: "regulation of B-lymphocyte antigen processing and presentation" [] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002450 ! B cell antigen processing and presentation [Term] id: GO:0002623 name: negative regulation of B cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell antigen processing and presentation." [GOC:add] exact_synonym: "negative regulation of B lymphocyte antigen processing and presentation" [] exact_synonym: "negative regulation of B-cell antigen processing and presentation" [] exact_synonym: "negative regulation of B-lymphocyte antigen processing and presentation" [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002622 ! regulation of B cell antigen processing and presentation [Term] id: GO:0002624 name: positive regulation of B cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell antigen processing and presentation." [GOC:add] exact_synonym: "positive regulation of B lymphocyte antigen processing and presentation" [] exact_synonym: "positive regulation of B-cell antigen processing and presentation" [] exact_synonym: "positive regulation of B-lymphocyte antigen processing and presentation" [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002622 ! regulation of B cell antigen processing and presentation [Term] id: GO:0002625 name: regulation of T cell antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell antigen processing and presentation." [GOC:add] exact_synonym: "regulation of T lymphocyte antigen processing and presentation" [] exact_synonym: "regulation of T-cell antigen processing and presentation" [] exact_synonym: "regulation of T-lymphocyte antigen processing and presentation" [] is_a: GO:0002577 ! regulation of antigen processing and presentation relationship: part_of GO:0002457 ! T cell antigen processing and presentation [Term] id: GO:0002626 name: negative regulation of T cell antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell antigen processing and presentation." [GOC:add] exact_synonym: "negative regulation of T lymphocyte antigen processing and presentation" [] exact_synonym: "negative regulation of T-cell antigen processing and presentation" [] exact_synonym: "negative regulation of T-lymphocyte antigen processing and presentation" [] is_a: GO:0002578 ! negative regulation of antigen processing and presentation is_a: GO:0002625 ! regulation of T cell antigen processing and presentation [Term] id: GO:0002627 name: positive regulation of T cell antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell antigen processing and presentation." [GOC:add] exact_synonym: "positive regulation of T lymphocyte antigen processing and presentation" [] exact_synonym: "positive regulation of T-cell antigen processing and presentation" [] exact_synonym: "positive regulation of T-lymphocyte antigen processing and presentation" [] is_a: GO:0002579 ! positive regulation of antigen processing and presentation is_a: GO:0002625 ! regulation of T cell antigen processing and presentation [Term] id: GO:0002628 name: regulation of proteolysis associated with antigen processing and presentation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of proteolysis associated with antigen processing and presentation." [GOC:add] relationship: part_of GO:0002496 ! proteolysis associated with antigen processing and presentation [Term] id: GO:0002629 name: negative regulation of proteolysis associated with antigen processing and presentation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of proteolysis associated with antigen processing and presentation." [GOC:add] is_a: GO:0002628 ! regulation of proteolysis associated with antigen processing and presentation [Term] id: GO:0002630 name: positive regulation of proteolysis associated with antigen processing and presentation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of proteolysis associated with antigen processing and presentation." [GOC:add] is_a: GO:0002628 ! regulation of proteolysis associated with antigen processing and presentation [Term] id: GO:0002631 name: regulation of granuloma formation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of granuloma formation." [GOC:add] is_a: GO:0002697 ! regulation of immune effector process relationship: part_of GO:0002432 ! granuloma formation [Term] id: GO:0002632 name: negative regulation of granuloma formation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of granuloma formation." [GOC:add] is_a: GO:0002631 ! regulation of granuloma formation is_a: GO:0002698 ! negative regulation of immune effector process [Term] id: GO:0002633 name: positive regulation of granuloma formation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of granuloma formation." [GOC:add] is_a: GO:0002631 ! regulation of granuloma formation is_a: GO:0002699 ! positive regulation of immune effector process [Term] id: GO:0002634 name: regulation of germinal center formation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of germinal center formation." [GOC:add] is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) relationship: part_of GO:0002467 ! germinal center formation [Term] id: GO:0002635 name: negative regulation of germinal center formation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of germinal center formation." [GOC:add] is_a: GO:0002634 ! regulation of germinal center formation is_a: GO:0002823 ! negative regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002636 name: positive regulation of germinal center formation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of germinal center formation." [GOC:add] is_a: GO:0002634 ! regulation of germinal center formation is_a: GO:0002824 ! positive regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002637 name: regulation of immunoglobulin production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of immunoglobulin production." [GOC:add] is_a: GO:0002700 ! regulation of production of molecular mediator of immune response relationship: part_of GO:0002377 ! immunoglobulin production [Term] id: GO:0002638 name: negative regulation of immunoglobulin production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of immunoglobulin production." [GOC:add] is_a: GO:0002637 ! regulation of immunoglobulin production is_a: GO:0002701 ! negative regulation of production of molecular mediator of immune response [Term] id: GO:0002639 name: positive regulation of immunoglobulin production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of immunoglobulin production." [GOC:add] is_a: GO:0002637 ! regulation of immunoglobulin production is_a: GO:0002702 ! positive regulation of production of molecular mediator of immune response [Term] id: GO:0002640 name: regulation of immunoglobulin biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of immunoglobulin biosynthesis." [GOC:add] is_a: GO:0006417 ! regulation of protein biosynthesis relationship: part_of GO:0002378 ! immunoglobulin biosynthesis [Term] id: GO:0002641 name: negative regulation of immunoglobulin biosynthesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of immunoglobulin biosynthesis." [GOC:add] is_a: GO:0002640 ! regulation of immunoglobulin biosynthesis is_a: GO:0017148 ! negative regulation of protein biosynthesis [Term] id: GO:0002642 name: positive regulation of immunoglobulin biosynthesis namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of immunoglobulin biosynthesis." [GOC:add] is_a: GO:0002640 ! regulation of immunoglobulin biosynthesis is_a: GO:0045727 ! positive regulation of protein biosynthesis [Term] id: GO:0002643 name: regulation of tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of tolerance induction." [GOC:add] is_a: GO:0002682 ! regulation of immune system process relationship: part_of GO:0002507 ! tolerance induction [Term] id: GO:0002644 name: negative regulation of tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction." [GOC:add] is_a: GO:0002643 ! regulation of tolerance induction is_a: GO:0002683 ! negative regulation of immune system process [Term] id: GO:0002645 name: positive regulation of tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of tolerance induction." [GOC:add] is_a: GO:0002643 ! regulation of tolerance induction is_a: GO:0002684 ! positive regulation of immune system process [Term] id: GO:0002646 name: regulation of central tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of central tolerance induction." [GOC:add] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002508 ! central tolerance induction [Term] id: GO:0002647 name: negative regulation of central tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of central tolerance induction." [GOC:add] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002646 ! regulation of central tolerance induction [Term] id: GO:0002648 name: positive regulation of central tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of central tolerance induction." [GOC:add] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002646 ! regulation of central tolerance induction [Term] id: GO:0002649 name: regulation of tolerance induction to self antigen namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of tolerance induction to self antigen." [GOC:add] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002513 ! tolerance induction to self antigen [Term] id: GO:0002650 name: negative regulation of tolerance induction to self antigen namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of toler.ance induction to self antigen." [GOC:add] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002649 ! regulation of tolerance induction to self antigen [Term] id: GO:0002651 name: positive regulation of tolerance induction to self antigen namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of tolerance induction to self antigen." [GOC:add] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002649 ! regulation of tolerance induction to self antigen [Term] id: GO:0002652 name: regulation of tolerance induction dependent upon immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of tolerance induction dependent upon immune response." [GOC:add] exact_synonym: "regulation of immune response-dependent tolerance induction" [] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002461 ! tolerance induction dependent upon immune response [Term] id: GO:0002653 name: negative regulation of tolerance induction dependent upon immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction dependent upon immune response." [GOC:add] exact_synonym: "negative regulation of immune response-dependent tolerance induction" [] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002652 ! regulation of tolerance induction dependent upon immune response [Term] id: GO:0002654 name: positive regulation of tolerance induction dependent upon immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of tolerance induction dependent upon immune response." [GOC:add] exact_synonym: "positive regulation of immune response-dependent tolerance induction" [] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002652 ! regulation of tolerance induction dependent upon immune response [Term] id: GO:0002655 name: regulation of tolerance induction to nonself antigen namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of tolerance induction to nonself antigen." [GOC:add] is_a: GO:0002652 ! regulation of tolerance induction dependent upon immune response relationship: part_of GO:0002462 ! tolerance induction to nonself antigen [Term] id: GO:0002656 name: negative regulation of tolerance induction to nonself antigen namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction to nonself antigen." [GOC:add] is_a: GO:0002653 ! negative regulation of tolerance induction dependent upon immune response is_a: GO:0002655 ! regulation of tolerance induction to nonself antigen [Term] id: GO:0002657 name: positive regulation of tolerance induction to nonself antigen namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of tolerance induction to nonself antigen." [GOC:add] is_a: GO:0002654 ! positive regulation of tolerance induction dependent upon immune response is_a: GO:0002655 ! regulation of tolerance induction to nonself antigen [Term] id: GO:0002658 name: regulation of peripheral tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peripheral tolerance induction." [GOC:add] is_a: GO:0002652 ! regulation of tolerance induction dependent upon immune response relationship: part_of GO:0002465 ! peripheral tolerance induction [Term] id: GO:0002659 name: negative regulation of peripheral tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral tolerance induction." [GOC:add] is_a: GO:0002653 ! negative regulation of tolerance induction dependent upon immune response is_a: GO:0002658 ! regulation of peripheral tolerance induction [Term] id: GO:0002660 name: positive regulation of peripheral tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peripheral tolerance induction." [GOC:add] is_a: GO:0002654 ! positive regulation of tolerance induction dependent upon immune response is_a: GO:0002658 ! regulation of peripheral tolerance induction [Term] id: GO:0002661 name: regulation of B cell tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell tolerance induction." [GOC:add] exact_synonym: "regulation of B lymphocyte tolerance induction" [] exact_synonym: "regulation of B-cell tolerance induction" [] exact_synonym: "regulation of B-lymphocyte tolerance induction" [] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002514 ! B cell tolerance induction [Term] id: GO:0002662 name: negative regulation of B cell tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell tolerance induction." [GOC:add] exact_synonym: "negative regulation of B lymphocyte tolerance induction" [] exact_synonym: "negative regulation of B-cell tolerance induction" [] exact_synonym: "negative regulation of B-lymphocyte tolerance induction" [] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002661 ! regulation of B cell tolerance induction [Term] id: GO:0002663 name: positive regulation of B cell tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell tolerance induction." [GOC:add] exact_synonym: "positive regulation of B lymphocyte tolerance induction" [] exact_synonym: "positive regulation of B-cell tolerance induction" [] exact_synonym: "positive regulation of B-lymphocyte tolerance induction" [] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002661 ! regulation of B cell tolerance induction [Term] id: GO:0002664 name: regulation of T cell tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell tolerance induction." [GOC:add] exact_synonym: "regulation of T lymphocyte tolerance induction" [] exact_synonym: "regulation of T-cell tolerance induction" [] exact_synonym: "regulation of T-lymphocyte tolerance induction" [] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002517 ! T cell tolerance induction [Term] id: GO:0002665 name: negative regulation of T cell tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell tolerance induction." [GOC:add] exact_synonym: "negative regulation of T lymphocyte tolerance induction" [] exact_synonym: "negative regulation of T-cell tolerance induction" [] exact_synonym: "negative regulation of T-lymphocyte tolerance induction" [] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002664 ! regulation of T cell tolerance induction [Term] id: GO:0002666 name: positive regulation of T cell tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell tolerance induction." [GOC:add] exact_synonym: "positive regulation of T lymphocyte tolerance induction" [] exact_synonym: "positive regulation of T-cell tolerance induction" [] exact_synonym: "positive regulation of T-lymphocyte tolerance induction" [] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002664 ! regulation of T cell tolerance induction [Term] id: GO:0002667 name: regulation of T cell anergy namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell anergy." [GOC:add] exact_synonym: "regulation of T lymphocyte anergy" [] exact_synonym: "regulation of T-cell anergy" [] exact_synonym: "regulation of T-lymphocyte anergy" [] is_a: GO:0002911 ! regulation of lymphocyte anergy relationship: part_of GO:0002870 ! T cell anergy [Term] id: GO:0002668 name: negative regulation of T cell anergy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell anergy." [GOC:add] exact_synonym: "negative regulation of T lymphocyte anergy" [] exact_synonym: "negative regulation of T-cell anergy" [] exact_synonym: "negative regulation of T-lymphocyte anergy" [] is_a: GO:0002667 ! regulation of T cell anergy is_a: GO:0002912 ! negative regulation of lymphocyte anergy [Term] id: GO:0002669 name: positive regulation of T cell anergy namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell anergy." [GOC:add] exact_synonym: "positive regulation of T lymphocyte anergy" [] exact_synonym: "positive regulation of T-cell anergy" [] exact_synonym: "positive regulation of T-lymphocyte anergy" [] is_a: GO:0002667 ! regulation of T cell anergy is_a: GO:0002913 ! positive regulation of lymphocyte anergy [Term] id: GO:0002670 name: regulation of B cell anergy namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell anergy." [GOC:add] exact_synonym: "regulation of B lymphocyte anergy" [] exact_synonym: "regulation of B-cell anergy" [] exact_synonym: "regulation of B-lymphocyte anergy" [] is_a: GO:0002911 ! regulation of lymphocyte anergy relationship: part_of GO:0002515 ! B cell anergy [Term] id: GO:0002671 name: negative regulation of B cell anergy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell anergy." [GOC:add] exact_synonym: "negative regulation of B lymphocyte anergy" [] exact_synonym: "negative regulation of B-cell anergy" [] exact_synonym: "negative regulation of B-lymphocyte anergy" [] is_a: GO:0002670 ! regulation of B cell anergy is_a: GO:0002912 ! negative regulation of lymphocyte anergy [Term] id: GO:0002672 name: positive regulation of B cell anergy namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell anergy." [GOC:add] exact_synonym: "positive regulation of B lymphocyte anergy" [] exact_synonym: "positive regulation of B-cell anergy" [] exact_synonym: "positive regulation of B-lymphocyte anergy" [] is_a: GO:0002670 ! regulation of B cell anergy is_a: GO:0002913 ! positive regulation of lymphocyte anergy [Term] id: GO:0002673 name: regulation of acute inflammatory response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an acute inflammatory response." [GOC:add] is_a: GO:0050727 ! regulation of inflammatory response relationship: part_of GO:0002526 ! acute inflammatory response [Term] id: GO:0002674 name: negative regulation of acute inflammatory response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an acute inflammatory response." [GOC:add] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0050728 ! negative regulation of inflammatory response [Term] id: GO:0002675 name: positive regulation of acute inflammatory response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an acute inflammatory response." [GOC:add] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0050729 ! positive regulation of inflammatory response [Term] id: GO:0002676 name: regulation of chronic inflammatory response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a chronic inflammatory response." [GOC:add] is_a: GO:0050727 ! regulation of inflammatory response relationship: part_of GO:0002544 ! chronic inflammatory response [Term] id: GO:0002677 name: negative regulation of chronic inflammatory response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a chronic inflammatory response." [GOC:add] is_a: GO:0002676 ! regulation of chronic inflammatory response is_a: GO:0050728 ! negative regulation of inflammatory response [Term] id: GO:0002678 name: positive regulation of chronic inflammatory response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a chronic inflammatory response." [GOC:add] is_a: GO:0002676 ! regulation of chronic inflammatory response is_a: GO:0050729 ! positive regulation of inflammatory response [Term] id: GO:0002679 name: respiratory burst during defense response namespace: biological_process def: "A phase of elevated metabolic activity, during which oxygen consumption increases made as a defense reponse ; this leads to the production, by an NADH dependent system, of hydrogen peroxide (H2O2), superoxide anions and hydroxyl radicals." [GOC:add, ISBN:0781735149, PMID:12789499] is_a: GO:0002252 ! immune effector process is_a: GO:0045087 ! innate immune response is_a: GO:0045730 ! respiratory burst [Term] id: GO:0002680 name: pro-T cell lineage commitment namespace: biological_process def: "The process by which a lymphoid progenitor cell becomes committed to becoming a pro-T cell." [GOC:add, ISBN:0781735149] exact_synonym: "pro-T cell fate commitment" [] exact_synonym: "pro-T lymphocyte fate commitment" [] exact_synonym: "pro-T lymphocyte lineage commitment" [] is_a: GO:0045165 ! cell fate commitment relationship: part_of GO:0002572 ! pro-T cell differentiation [Term] id: GO:0002681 name: somatic recombination of T cell receptor gene segments namespace: biological_process def: "The process by which T cell receptor genes are formed through recombination of the germline genetic elements, also known as T cell receptor gene segments." [GOC:add, ISBN:0781735149] exact_synonym: "somatic recombination of TCR gene segments" [] is_a: GO:0002562 ! somatic diversification of immune receptors via germline recombination within a single locus is_a: GO:0002568 ! somatic diversification of T cell receptor genes [Term] id: GO:0002682 name: regulation of immune system process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune system process." [GOC:add] is_a: GO:0051239 ! regulation of organismal physiological process relationship: part_of GO:0002376 ! immune system process [Term] id: GO:0002683 name: negative regulation of immune system process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune system process." [GOC:add] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0051241 ! negative regulation of organismal physiological process [Term] id: GO:0002684 name: positive regulation of immune system process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune system process." [GOC:add] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0051240 ! positive regulation of organismal physiological process [Term] id: GO:0002685 name: regulation of leukocyte migration namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte migration." [GOC:add] exact_synonym: "regulation of immune cell migration" [] exact_synonym: "regulation of leucocyte migration" [] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0030334 ! regulation of cell migration relationship: part_of GO:0050900 ! leukocyte migration [Term] id: GO:0002686 name: negative regulation of leukocyte migration namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte migration." [GOC:add] exact_synonym: "negative regulation of immune cell migration" [] exact_synonym: "negative regulation of leucocyte migration" [] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0002685 ! regulation of leukocyte migration is_a: GO:0030336 ! negative regulation of cell migration [Term] id: GO:0002687 name: positive regulation of leukocyte migration namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of leukocyte migration." [GOC:add] exact_synonym: "positive regulation of immune cell migration" [] exact_synonym: "positive regulation of leucocyte migration" [] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0002685 ! regulation of leukocyte migration is_a: GO:0030335 ! positive regulation of cell migration [Term] id: GO:0002688 name: regulation of leukocyte chemotaxis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte chemotaxis." [GOC:add] exact_synonym: "regulation of immune cell chemotaxis" [] exact_synonym: "regulation of leucocyte chemotaxis" [] is_a: GO:0002685 ! regulation of leukocyte migration relationship: part_of GO:0030595 ! leukocyte chemotaxis [Term] id: GO:0002689 name: negative regulation of leukocyte chemotaxis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte chemotaxis." [GOC:add] exact_synonym: "negative regulation of immune cell chemotaxis" [] exact_synonym: "negative regulation of leucocyte chemotaxis" [] is_a: GO:0002686 ! negative regulation of leukocyte migration is_a: GO:0002688 ! regulation of leukocyte chemotaxis [Term] id: GO:0002690 name: positive regulation of leukocyte chemotaxis namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of leukocyte chemotaxis." [GOC:add] exact_synonym: "positive regulation of immune cell chemotaxis" [] exact_synonym: "positive regulation of leucocyte chemotaxis" [] is_a: GO:0002687 ! positive regulation of leukocyte migration is_a: GO:0002688 ! regulation of leukocyte chemotaxis [Term] id: GO:0002691 name: regulation of cellular extravasation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of cellular extravasation." [GOC:add] is_a: GO:0002685 ! regulation of leukocyte migration relationship: part_of GO:0045123 ! cellular extravasation [Term] id: GO:0002692 name: negative regulation of cellular extravasation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of cellular extravasation." [GOC:add] is_a: GO:0002686 ! negative regulation of leukocyte migration is_a: GO:0002691 ! regulation of cellular extravasation [Term] id: GO:0002693 name: positive regulation of cellular extravasation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of cellular extravasation." [GOC:add] is_a: GO:0002687 ! positive regulation of leukocyte migration is_a: GO:0002691 ! regulation of cellular extravasation [Term] id: GO:0002694 name: regulation of leukocyte activation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte activation." [GOC:add] exact_synonym: "regulation of immune cell activation" [] exact_synonym: "regulation of leucocyte activation" [] is_a: GO:0002682 ! regulation of immune system process relationship: part_of GO:0045321 ! leukocyte activation [Term] id: GO:0002695 name: negative regulation of leukocyte activation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte activation." [GOC:add] exact_synonym: "negative regulation of immune cell activation" [] exact_synonym: "negative regulation of leucocyte activation" [] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0002694 ! regulation of leukocyte activation [Term] id: GO:0002696 name: positive regulation of leukocyte activation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of leukocyte activation." [GOC:add] exact_synonym: "positive regulation of immune cell activation" [] exact_synonym: "positive regulation of leucocyte activation" [] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0002694 ! regulation of leukocyte activation [Term] id: GO:0002697 name: regulation of immune effector process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune effector process." [GOC:add] is_a: GO:0002682 ! regulation of immune system process relationship: part_of GO:0002252 ! immune effector process [Term] id: GO:0002698 name: negative regulation of immune effector process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune effector process." [GOC:add] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0002697 ! regulation of immune effector process [Term] id: GO:0002699 name: positive regulation of immune effector process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune effector process." [GOC:add] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0002697 ! regulation of immune effector process [Term] id: GO:0002700 name: regulation of production of molecular mediator of immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of the production of molecular mediator of immune response." [GOC:add] is_a: GO:0002697 ! regulation of immune effector process relationship: part_of GO:0002440 ! production of molecular mediator of immune response [Term] id: GO:0002701 name: negative regulation of production of molecular mediator of immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of the production of molecular mediator of immune response." [GOC:add] is_a: GO:0002698 ! negative regulation of immune effector process is_a: GO:0002700 ! regulation of production of molecular mediator of immune response [Term] id: GO:0002702 name: positive regulation of production of molecular mediator of immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of the production of molecular mediator of immune response." [GOC:add] is_a: GO:0002699 ! positive regulation of immune effector process is_a: GO:0002700 ! regulation of production of molecular mediator of immune response [Term] id: GO:0002703 name: regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] exact_synonym: "regulation of immune cell mediated immunity" [] exact_synonym: "regulation of leucocyte mediated immunity" [] is_a: GO:0002697 ! regulation of immune effector process relationship: part_of GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002704 name: negative regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] exact_synonym: "negative regulation of immune cell mediated immunity" [] exact_synonym: "negative regulation of leucocyte mediated immunity" [] is_a: GO:0002698 ! negative regulation of immune effector process is_a: GO:0002703 ! regulation of leukocyte mediated immunity [Term] id: GO:0002705 name: positive regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] exact_synonym: "positive regulation of immune cell mediated immunity" [] exact_synonym: "positive regulation of leucocyte mediated immunity" [] is_a: GO:0002699 ! positive regulation of immune effector process is_a: GO:0002703 ! regulation of leukocyte mediated immunity [Term] id: GO:0002706 name: regulation of lymphocyte mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of lymphocyte mediated immunity." [GOC:add] is_a: GO:0002703 ! regulation of leukocyte mediated immunity relationship: part_of GO:0002449 ! lymphocyte mediated immunity [Term] id: GO:0002707 name: negative regulation of lymphocyte mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of lymphocyte mediated immunity." [GOC:add] is_a: GO:0002704 ! negative regulation of leukocyte mediated immunity is_a: GO:0002706 ! regulation of lymphocyte mediated immunity [Term] id: GO:0002708 name: positive regulation of lymphocyte mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of lymphocyte mediated immunity." [GOC:add] is_a: GO:0002705 ! positive regulation of leukocyte mediated immunity is_a: GO:0002706 ! regulation of lymphocyte mediated immunity [Term] id: GO:0002709 name: regulation of T cell mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell mediated immunity." [GOC:add] exact_synonym: "regulation of T lymphocyte mediated immunity" [] exact_synonym: "regulation of T-cell mediated immunity" [] exact_synonym: "regulation of T-lymphocyte mediated immunity" [] is_a: GO:0002706 ! regulation of lymphocyte mediated immunity is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) relationship: part_of GO:0002456 ! T cell mediated immunity [Term] id: GO:0002710 name: negative regulation of T cell mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell mediated immunity." [GOC:add] exact_synonym: "negative regulation of T lymphocyte mediated immunity" [] exact_synonym: "negative regulation of T-cell mediated immunity" [] exact_synonym: "negative regulation of T-lymphocyte mediated immunity" [] is_a: GO:0002707 ! negative regulation of lymphocyte mediated immunity is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002823 ! negative regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002711 name: positive regulation of T cell mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell mediated immunity." [GOC:add] exact_synonym: "positive regulation of T lymphocyte mediated immunity" [] exact_synonym: "positive regulation of T-cell mediated immunity" [] exact_synonym: "positive regulation of T-lymphocyte mediated immunity" [] is_a: GO:0002708 ! positive regulation of lymphocyte mediated immunity is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002824 ! positive regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002712 name: regulation of B cell mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell mediated immunity." [GOC:add] exact_synonym: "regulation of B lymphocyte mediated immunity" [] exact_synonym: "regulation of B-cell mediated immunity" [] exact_synonym: "regulation of B-lymphocyte mediated immunity" [] is_a: GO:0002706 ! regulation of lymphocyte mediated immunity is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) relationship: part_of GO:0019724 ! B cell mediated immunity [Term] id: GO:0002713 name: negative regulation of B cell mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell mediated immunity." [GOC:add] exact_synonym: "negative regulation of B lymphocyte mediated immunity" [] exact_synonym: "negative regulation of B-cell mediated immunity" [] exact_synonym: "negative regulation of B-lymphocyte mediated immunity" [] is_a: GO:0002707 ! negative regulation of lymphocyte mediated immunity is_a: GO:0002712 ! regulation of B cell mediated immunity is_a: GO:0002823 ! negative regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002714 name: positive regulation of B cell mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell mediated immunity." [GOC:add] exact_synonym: "positive regulation of B lymphocyte mediated immunity" [] exact_synonym: "positive regulation of B-cell mediated immunity" [] exact_synonym: "positive regulation of B-lymphocyte mediated immunity" [] is_a: GO:0002708 ! positive regulation of lymphocyte mediated immunity is_a: GO:0002712 ! regulation of B cell mediated immunity is_a: GO:0002824 ! positive regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002715 name: regulation of natural killer cell mediated immunity namespace: biological_process alt_id: GO:0045845 def: "Any process that modulates the frequency, rate, or extent of natural killer cell mediated immunity." [GOC:add] related_synonym: "regulation of natural killer cell activity" [] exact_synonym: "regulation of NK cell mediated immunity" [] is_a: GO:0002706 ! regulation of lymphocyte mediated immunity relationship: part_of GO:0002228 ! natural killer cell mediated immunity [Term] id: GO:0002716 name: negative regulation of natural killer cell mediated immunity namespace: biological_process alt_id: GO:0030102 def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell mediated immunity." [GOC:add] related_synonym: "negative regulation of natural killer cell activity" [] related_synonym: "negative regulation of NK cell activity" [] exact_synonym: "negative regulation of NK cell mediated immunity" [] is_a: GO:0002707 ! negative regulation of lymphocyte mediated immunity is_a: GO:0002715 ! regulation of natural killer cell mediated immunity [Term] id: GO:0002717 name: positive regulation of natural killer cell mediated immunity namespace: biological_process alt_id: GO:0045846 def: "Any process that activates or increases the frequency, rate, or extent of natural killer cell mediated immunity." [GOC:add] related_synonym: "positive regulation of natural killer cell activity" [] related_synonym: "positive regulation of NK cell activity" [] exact_synonym: "positive regulation of NK cell mediated immunity" [] is_a: GO:0002708 ! positive regulation of lymphocyte mediated immunity is_a: GO:0002715 ! regulation of natural killer cell mediated immunity [Term] id: GO:0002718 name: regulation of cytokine production during immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of cytokine production during immune response." [GOC:add] is_a: GO:0001817 ! regulation of cytokine production is_a: GO:0002700 ! regulation of production of molecular mediator of immune response relationship: part_of GO:0002367 ! cytokine production during immune response [Term] id: GO:0002719 name: negative regulation of cytokine production during immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of cytokine production during immune response." [GOC:add] is_a: GO:0001818 ! negative regulation of cytokine production is_a: GO:0002701 ! negative regulation of production of molecular mediator of immune response is_a: GO:0002718 ! regulation of cytokine production during immune response [Term] id: GO:0002720 name: positive regulation of cytokine production during immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of cytokine production during immune response." [GOC:add] is_a: GO:0001819 ! positive regulation of cytokine production is_a: GO:0002702 ! positive regulation of production of molecular mediator of immune response is_a: GO:0002718 ! regulation of cytokine production during immune response [Term] id: GO:0002721 name: regulation of B cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell cytokine production." [GOC:add] exact_synonym: "regulation of B lymphocyte cytokine production" [] exact_synonym: "regulation of B-cell cytokine production" [] exact_synonym: "regulation of B-lymphocyte cytokine production" [] is_a: GO:0002712 ! regulation of B cell mediated immunity is_a: GO:0002718 ! regulation of cytokine production during immune response relationship: part_of GO:0002368 ! B cell cytokine production [Term] id: GO:0002722 name: negative regulation of B cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell cytokine production." [GOC:add] exact_synonym: "negative regulation of B lymphocyte cytokine production" [] exact_synonym: "negative regulation of B-cell cytokine production" [] exact_synonym: "negative regulation of B-lymphocyte cytokine production" [] is_a: GO:0002713 ! negative regulation of B cell mediated immunity is_a: GO:0002719 ! negative regulation of cytokine production during immune response is_a: GO:0002721 ! regulation of B cell cytokine production [Term] id: GO:0002723 name: positive regulation of B cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell cytokine production." [GOC:add] exact_synonym: "positive regulation of B lymphocyte cytokine production" [] exact_synonym: "positive regulation of B-cell cytokine production" [] exact_synonym: "positive regulation of B-lymphocyte cytokine production" [] is_a: GO:0002714 ! positive regulation of B cell mediated immunity is_a: GO:0002720 ! positive regulation of cytokine production during immune response is_a: GO:0002721 ! regulation of B cell cytokine production [Term] id: GO:0002724 name: regulation of T cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell cytokine production." [GOC:add] exact_synonym: "regulation of T lymphocyte cytokine production" [] exact_synonym: "regulation of T-cell cytokine production" [] exact_synonym: "regulation of T-lymphocyte cytokine production" [] is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002718 ! regulation of cytokine production during immune response relationship: part_of GO:0002369 ! T cell cytokine production [Term] id: GO:0002725 name: negative regulation of T cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell cytokine production." [GOC:add] exact_synonym: "negative regulation of T lymphocyte cytokine production" [] exact_synonym: "negative regulation of T-cell cytokine production" [] exact_synonym: "negative regulation of T-lymphocyte cytokine production" [] is_a: GO:0002710 ! negative regulation of T cell mediated immunity is_a: GO:0002719 ! negative regulation of cytokine production during immune response is_a: GO:0002724 ! regulation of T cell cytokine production [Term] id: GO:0002726 name: positive regulation of T cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell cytokine production." [GOC:add] exact_synonym: "positive regulation of T lymphocyte cytokine production" [] exact_synonym: "positive regulation of T-cell cytokine production" [] exact_synonym: "positive regulation of T-lymphocyte cytokine production" [] is_a: GO:0002711 ! positive regulation of T cell mediated immunity is_a: GO:0002720 ! positive regulation of cytokine production during immune response is_a: GO:0002724 ! regulation of T cell cytokine production [Term] id: GO:0002727 name: regulation of natural killer cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of natural killer cell cytokine production." [GOC:add] exact_synonym: "regulation of NK cell cytokine production" [] is_a: GO:0002715 ! regulation of natural killer cell mediated immunity is_a: GO:0002718 ! regulation of cytokine production during immune response relationship: part_of GO:0002370 ! natural killer cell cytokine production [Term] id: GO:0002728 name: negative regulation of natural killer cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell cytokine production." [GOC:add] exact_synonym: "negative regulation of NK cell cytokine production" [] is_a: GO:0002716 ! negative regulation of natural killer cell mediated immunity is_a: GO:0002719 ! negative regulation of cytokine production during immune response is_a: GO:0002727 ! regulation of natural killer cell cytokine production [Term] id: GO:0002729 name: positive regulation of natural killer cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of natural killer cell cytokine production." [GOC:add] exact_synonym: "positive regulation of NK cell cytokine production" [] is_a: GO:0002717 ! positive regulation of natural killer cell mediated immunity is_a: GO:0002720 ! positive regulation of cytokine production during immune response is_a: GO:0002727 ! regulation of natural killer cell cytokine production [Term] id: GO:0002730 name: regulation of dendritic cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of dendritic cell cytokine production." [GOC:add] is_a: GO:0002718 ! regulation of cytokine production during immune response relationship: part_of GO:0002371 ! dendritic cell cytokine production [Term] id: GO:0002731 name: negative regulation of dendritic cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of dendritic cell cytokine production." [GOC:add] is_a: GO:0002719 ! negative regulation of cytokine production during immune response is_a: GO:0002730 ! regulation of dendritic cell cytokine production [Term] id: GO:0002732 name: positive regulation of dendritic cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of dendritic cell cytokine production." [GOC:add] is_a: GO:0002720 ! positive regulation of cytokine production during immune response is_a: GO:0002730 ! regulation of dendritic cell cytokine production [Term] id: GO:0002733 name: regulation of myeloid dendritic cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid dendritic cell cytokine production." [GOC:add] is_a: GO:0002730 ! regulation of dendritic cell cytokine production relationship: part_of GO:0002372 ! myeloid dendritic cell cytokine production [Term] id: GO:0002734 name: negative regulation of myeloid dendritic cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid dendritic cell cytokine production." [GOC:add] is_a: GO:0002731 ! negative regulation of dendritic cell cytokine production is_a: GO:0002733 ! regulation of myeloid dendritic cell cytokine production [Term] id: GO:0002735 name: positive regulation of myeloid dendritic cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid dendritic cell cytokine production." [GOC:add] is_a: GO:0002732 ! positive regulation of dendritic cell cytokine production is_a: GO:0002733 ! regulation of myeloid dendritic cell cytokine production [Term] id: GO:0002736 name: regulation of plasmacytoid dendritic cell cytokine production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of plasmacytoid dendritic cell cytokine production." [GOC:add] is_a: GO:0002730 ! regulation of dendritic cell cytokine production relationship: part_of GO:0002373 ! plasmacytoid dendritic cell cytokine production [Term] id: GO:0002737 name: negative regulation of plasmacytoid dendritic cell cytokine production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of plasmacytoid dendritic cell cytokine production." [GOC:add] is_a: GO:0002731 ! negative regulation of dendritic cell cytokine production is_a: GO:0002736 ! regulation of plasmacytoid dendritic cell cytokine production [Term] id: GO:0002738 name: positive regulation of plasmacytoid dendritic cell cytokine production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of plasmacytoid dendritic cell cytokine production." [GOC:add] is_a: GO:0002732 ! positive regulation of dendritic cell cytokine production is_a: GO:0002736 ! regulation of plasmacytoid dendritic cell cytokine production [Term] id: GO:0002739 name: regulation of cytokine secretion during immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of cytokine secretion during immune response." [GOC:add] is_a: GO:0050707 ! regulation of cytokine secretion relationship: part_of GO:0002374 ! cytokine secretion during immune response [Term] id: GO:0002740 name: negative regulation of cytokine secretion during immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of cytokine secretion during immune response." [GOC:add] is_a: GO:0002739 ! regulation of cytokine secretion during immune response is_a: GO:0050710 ! negative regulation of cytokine secretion [Term] id: GO:0002741 name: positive regulation of cytokine secretion during immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of cytokine secretion during immune response." [GOC:add] is_a: GO:0002739 ! regulation of cytokine secretion during immune response is_a: GO:0050715 ! positive regulation of cytokine secretion [Term] id: GO:0002742 name: regulation of cytokine biosynthesis during immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of cytokine biosynthesis during immune response." [GOC:add] is_a: GO:0042035 ! regulation of cytokine biosynthesis relationship: part_of GO:0002375 ! cytokine biosynthesis during immune response [Term] id: GO:0002743 name: negative regulation of cytokine biosynthesis during immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of cytokine biosynthesis during immune response." [GOC:add] is_a: GO:0002742 ! regulation of cytokine biosynthesis during immune response is_a: GO:0042036 ! negative regulation of cytokine biosynthesis [Term] id: GO:0002744 name: positive regulation of cytokine biosynthesis during immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of cytokine biosynthesis during immune response." [GOC:add] is_a: GO:0002742 ! regulation of cytokine biosynthesis during immune response is_a: GO:0042108 ! positive regulation of cytokine biosynthesis [Term] id: GO:0002745 name: antigen processing and presentation initiated by receptor mediated uptake of antigen namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen bound to a cell surface receptor." [GOC:add, ISBN:0781735149] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002746 name: antigen processing and presentation following pinocytosis namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen via pinocytosis." [GOC:add, ISBN:0781735149] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002747 name: antigen processing and presentation following phagocytosis namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen via phagocytosis." [GOC:add, ISBN:0781735149] is_a: GO:0019882 ! antigen processing and presentation [Term] id: GO:0002748 name: antigen processing and presentation initiated by pattern recognition receptor mediated uptake of antigen namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen bound to a cell surface pattern recognition receptor (PRR)." [GOC:add, ISBN:0781735149] exact_synonym: "antigen processing and presentation initiated by PAMP receptor mediated uptake of antigen" [] exact_synonym: "antigen processing and presentation initiated by PRR mediated uptake of antigen" [] is_a: GO:0002745 ! antigen processing and presentation initiated by receptor mediated uptake of antigen [Term] id: GO:0002749 name: antigen processing and presentation initiated by toll-like receptor mediated phagocytosis of antigen namespace: biological_process def: "Antigen processing and presentation which is initiated by phagocytosis of antigen bound directly or indirectly to a cell surface toll-like receptor (TLR)." [GOC:add, ISBN:0781735149, PMID:15596122] exact_synonym: "antigen processing and presentation initiated by TLR mediated phagocytosis of antigen" [] is_a: GO:0002747 ! antigen processing and presentation following phagocytosis is_a: GO:0002748 ! antigen processing and presentation initiated by pattern recognition receptor mediated uptake of antigen [Term] id: GO:0002750 name: antigen processing and presentation following macropinocytosis namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen via macropinocytosis." [GOC:add, PMID:16556257] is_a: GO:0002746 ! antigen processing and presentation following pinocytosis [Term] id: GO:0002751 name: antigen processing and presentation following receptor mediated endocytosis namespace: biological_process def: "Antigen processing and presentation which is initiated by uptake of antigen receptor-mediated endocytosis." [GOC:add, ISBN:0781735149] is_a: GO:0002745 ! antigen processing and presentation initiated by receptor mediated uptake of antigen [Term] id: GO:0002752 name: cell surface pattern recognition receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a cell surface pattern recognition receptor (PRR). Such receptors bind for molecular patterns based on a repeating or polymeric structures, like those of polysaccharides or peptidoglycans, which are sometimes associated with potential pathogens." [GOC:add, ISBN:0781735149, PMID:15199967] exact_synonym: "cell surface PAMP receptor signaling pathway" [] exact_synonym: "cell surface pathogen receptor signaling pathway" [] exact_synonym: "cell surface PRR signaling pathway" [] is_a: GO:0002220 ! innate immune response activating cell surface receptor signaling pathway is_a: GO:0002221 ! pattern recognition receptor signaling pathway [Term] id: GO:0002753 name: cytoplasmic pattern recognition receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a cytoplasmic pattern recognition receptor (PRR). Such receptors bind for molecular patterns based on a repeating or polymeric structures, like those of polysaccharides or peptidoglycans, which are sometimes associated with potential pathogens." [GOC:add, ISBN:0781735149, PMID:15199967] exact_synonym: "cytoplasmic PAMP receptor signaling pathway" [] exact_synonym: "cytoplasmic pathogen receptor signaling pathway" [] exact_synonym: "cytoplasmic PRR signaling pathway" [] is_a: GO:0002221 ! pattern recognition receptor signaling pathway [Term] id: GO:0002754 name: intracellular vesicle pattern recognition receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a pattern recognition receptor (PRR) located within the membrane of an intracellular vesicle such as an endosome or lysosome. Such receptors bind for molecular patterns based on a repeating or polymeric structures, like those of polysaccharides or peptidoglycans, which are sometimes associated with potential pathogens." [GOC:add, ISBN:0781735149, PMID:15199967] exact_synonym: "intracellular vesicle PAMP receptor signaling pathway" [] exact_synonym: "intracellular vesicle pathogen receptor signaling pathway" [] exact_synonym: "intracellular vesicle PRR signaling pathway" [] is_a: GO:0002221 ! pattern recognition receptor signaling pathway [Term] id: GO:0002755 name: MyD88-dependent toll-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a toll-like receptor and relying on the MyD88 adaptor molecule. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response." [GOC:add, ISBN:0781735149, PMID:12467241, PMID:12524386, PMID:12855817, PMID:15585605, PMID:15728447] exact_synonym: "MyD88-dependent TLR signaling pathway" [] is_a: GO:0002224 ! toll-like receptor signaling pathway [Term] id: GO:0002756 name: MyD88-independent toll-like receptor signaling pathway namespace: biological_process def: "Any series of molecular signals generated as a consequence of binding to a toll-like receptor not relying on the MyD88 adaptor molecule. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response." [GOC:add, ISBN:0781735149, PMID:12467241, PMID:12524386, PMID:12855817, PMID:15585605, PMID:15728447] exact_synonym: "MyD88-independent TLR signaling pathway" [] is_a: GO:0002224 ! toll-like receptor signaling pathway [Term] id: GO:0002757 name: immune response-activating signal transduction namespace: biological_process def: "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to activation or perpetuation of an immune response." [GOC:add] is_a: GO:0002253 ! activation of immune response is_a: GO:0002764 ! immune response-regulating signal transduction [Term] id: GO:0002758 name: innate immune response-activating signal transduction namespace: biological_process def: "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to activation or perpetuation of an innate immune response." [GOC:add] is_a: GO:0002218 ! activation of innate immune response is_a: GO:0002757 ! immune response-activating signal transduction [Term] id: GO:0002759 name: regulation of antimicrobial humoral response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an antimicrobial humoral response." [GOC:add] relationship: part_of GO:0019730 ! antimicrobial humoral response [Term] id: GO:0002760 name: positive regulation of antimicrobial humoral response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an antimicrobial humoral response." [GOC:add] is_a: GO:0002759 ! regulation of antimicrobial humoral response [Term] id: GO:0002761 name: regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] is_a: GO:0045637 ! regulation of myeloid cell differentiation relationship: part_of GO:0002573 ! myeloid leukocyte differentiation [Term] id: GO:0002762 name: negative regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] is_a: GO:0002761 ! regulation of myeloid leukocyte differentiation is_a: GO:0045638 ! negative regulation of myeloid cell differentiation [Term] id: GO:0002763 name: positive regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] is_a: GO:0002761 ! regulation of myeloid leukocyte differentiation is_a: GO:0045639 ! positive regulation of myeloid cell differentiation [Term] id: GO:0002764 name: immune response-regulating signal transduction namespace: biological_process def: "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to the activation, perpetuation, or inhibition of an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] is_a: GO:0007165 ! signal transduction [Term] id: GO:0002765 name: immune response-inhibiting signal transduction namespace: biological_process def: "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to inhibition of an immune response." [GOC:add, ISBN:0781735149] is_a: GO:0002764 ! immune response-regulating signal transduction [Term] id: GO:0002766 name: innate immune response-inhibiting signal transduction namespace: biological_process def: "The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately leading to inhibition of an innate immune response." [GOC:add, ISBN:0781735149, PMID:15771571] is_a: GO:0002765 ! immune response-inhibiting signal transduction [Term] id: GO:0002767 name: immune response-inhibiting cell surface receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell capable of inhibiting an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] is_a: GO:0002765 ! immune response-inhibiting signal transduction is_a: GO:0002768 ! immune response-regulating cell surface receptor signaling pathway [Term] id: GO:0002768 name: immune response-regulating cell surface receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell capable of activating, perpetuating, or inhibiting an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] is_a: GO:0002764 ! immune response-regulating signal transduction [Term] id: GO:0002769 name: natural killer cell inhibitory signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a natural killer cell capable of inhibiting an immune effector process contributing to an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] exact_synonym: "NK cell inhibitory signaling pathway" [] narrow_synonym: "inhibitory C-type lectin receptor signaling pathway" [] narrow_synonym: "inhibitory killer cell immunoglobulin-like receptor signaling pathway" [] narrow_synonym: "inhibitory KIR signaling pathway" [] narrow_synonym: "killer cell inhibitory receptor signaling pathway" [] narrow_synonym: "Ly49 inhibitory receptor signaling pathway" [] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002770 name: T cell inhibitory signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a T cell capable of inhibiting an immune effector process contributing to an immune response." [GOC:add, PMID:15258309] exact_synonym: "T lymphocyte inhibitory signaling pathway" [] exact_synonym: "T-cell inhibitory signaling pathway" [] exact_synonym: "T-lymphocyte inhibitory signaling pathway" [] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002771 name: inhibitory killer cell immunoglobulin-like receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a lymphocyte capable of inhibiting an immune effector process contributing to an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] exact_synonym: "killer cell inhibitory receptor signaling pathway" [] exact_synonym: "KIR signaling pathway" [] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002772 name: inhibitory C-type lectin receptor signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a natural killer cell capable of inhibiting an immune effector process contributing to an immune response." [GOC:add, ISBN:0781735149, PMID:15771571] narrow_synonym: "Ly49 inhibitory receptor signaling pathway" [] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002773 name: B cell inhibitory signaling pathway namespace: biological_process def: "A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of a B cell capable of inhibiting an immune effector process contributing to an immune response." [GOC:add, PMID:16413920] exact_synonym: "B lymphocyte inhibitory signaling pathwayBT-lymphocyte inhibitory signaling pathway" [] exact_synonym: "B-cell inhibitory signaling pathway" [] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002774 name: Fc receptor mediated inhibitory signaling pathway namespace: biological_process def: "A series of molecular signals generated as a consequence of a the binding of the Fc portion of an immunoglobulin by an Fc receptor capable of inhibiting an immune effector process contributing to an immune response. The Fc portion of an immunoglobulin is its C-terminal constant region." [GOC:add, ISBN:0781735149] is_a: GO:0002767 ! immune response-inhibiting cell surface receptor signaling pathway [Term] id: GO:0002775 name: antimicrobial peptide production namespace: biological_process def: "The synthesis or release of an antimicrobial peptide during an immune response, resulting in an increase in intracellular or extracellular levels. Such peptides may have protective properties against bacteria, fungi, viruses, or protozoa." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002440 ! production of molecular mediator of immune response relationship: part_of GO:0019730 ! antimicrobial humoral response [Term] id: GO:0002776 name: antimicrobial peptide secretion namespace: biological_process def: "The regulated release of an antimicrobial peptide from a cell or group of cells. Such peptides may have protective properties against bacteria, fungi, viruses, or protozoa." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002790 ! peptide secretion relationship: part_of GO:0002775 ! antimicrobial peptide production [Term] id: GO:0002777 name: antimicrobial peptide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an antimicrobial peptide. Such peptides may have protective properties against bacteria, fungi, viruses, or protozoa." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0043043 ! peptide biosynthesis relationship: part_of GO:0002775 ! antimicrobial peptide production [Term] id: GO:0002778 name: antibacterial peptide production namespace: biological_process def: "The synthesis or release of an antibacterial peptide during an immune response, resulting in an increase in intracellular or extracellular levels." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002775 ! antimicrobial peptide production relationship: part_of GO:0019731 ! antibacterial humoral response [Term] id: GO:0002779 name: antibacterial peptide secretion namespace: biological_process def: "The regulated release of an antibacterial peptide from a cell or group of cells." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002776 ! antimicrobial peptide secretion relationship: part_of GO:0002778 ! antibacterial peptide production [Term] id: GO:0002780 name: antibacterial peptide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an antibacterial peptide." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002777 ! antimicrobial peptide biosynthesis relationship: part_of GO:0002778 ! antibacterial peptide production [Term] id: GO:0002781 name: antifungal peptide production namespace: biological_process def: "The synthesis or release of an antifungal peptide during an immune response, resulting in an increase in intracellular or extracellular levels." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002775 ! antimicrobial peptide production relationship: part_of GO:0019732 ! antifungal humoral response [Term] id: GO:0002782 name: antifungal peptide secretion namespace: biological_process def: "The regulated release of an antifungal peptide from a cell or group of cells." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002776 ! antimicrobial peptide secretion relationship: part_of GO:0002781 ! antifungal peptide production [Term] id: GO:0002783 name: antifungal peptide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an antifungal peptide." [GOC:add, ISBN:0781735149, PMID:11807545, PMID:15638771] is_a: GO:0002777 ! antimicrobial peptide biosynthesis relationship: part_of GO:0002781 ! antifungal peptide production [Term] id: GO:0002784 name: regulation of antimicrobial peptide production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antimicrobial peptide production." [GOC:add] is_a: GO:0002700 ! regulation of production of molecular mediator of immune response relationship: part_of GO:0002775 ! antimicrobial peptide production [Term] id: GO:0002785 name: negative regulation of antimicrobial peptide production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antimicrobial peptide production." [GOC:add] is_a: GO:0002701 ! negative regulation of production of molecular mediator of immune response is_a: GO:0002784 ! regulation of antimicrobial peptide production [Term] id: GO:0002786 name: regulation of antibacterial peptide production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antibacterial peptide production." [GOC:add] is_a: GO:0002784 ! regulation of antimicrobial peptide production relationship: part_of GO:0002778 ! antibacterial peptide production [Term] id: GO:0002787 name: negative regulation of antibacterial peptide production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antibacterial peptide production." [GOC:add] is_a: GO:0002785 ! negative regulation of antimicrobial peptide production is_a: GO:0002786 ! regulation of antibacterial peptide production [Term] id: GO:0002788 name: regulation of antifungal peptide production namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antifungal peptide production." [GOC:add] is_a: GO:0002784 ! regulation of antimicrobial peptide production relationship: part_of GO:0002781 ! antifungal peptide production [Term] id: GO:0002789 name: negative regulation of antifungal peptide production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antifungal peptide production." [GOC:add] is_a: GO:0002788 ! regulation of antifungal peptide production [Term] id: GO:0002790 name: peptide secretion namespace: biological_process def: "The regulated release of a peptide from a cell or group of cells." [GOC:add] is_a: GO:0015833 ! peptide transport is_a: GO:0046903 ! secretion [Term] id: GO:0002791 name: regulation of peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peptide secretion." [GOC:add] is_a: GO:0051046 ! regulation of secretion relationship: part_of GO:0002790 ! peptide secretion [Term] id: GO:0002792 name: negative regulation of peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peptide secretion." [GOC:add] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051048 ! negative regulation of secretion [Term] id: GO:0002793 name: positive regulation of peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peptide secretion." [GOC:add] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051047 ! positive regulation of secretion [Term] id: GO:0002794 name: regulation of antimicrobial peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antimicrobial peptide secretion." [GOC:add] is_a: GO:0002791 ! regulation of peptide secretion relationship: part_of GO:0002776 ! antimicrobial peptide secretion [Term] id: GO:0002795 name: negative regulation of antimicrobial peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antimicrobial peptide secretion." [GOC:add] is_a: GO:0002792 ! negative regulation of peptide secretion is_a: GO:0002794 ! regulation of antimicrobial peptide secretion [Term] id: GO:0002796 name: positive regulation of antimicrobial peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antimicrobial peptide secretion." [GOC:add] is_a: GO:0002793 ! positive regulation of peptide secretion is_a: GO:0002794 ! regulation of antimicrobial peptide secretion [Term] id: GO:0002797 name: regulation of antibacterial peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antibacterial peptide secretion." [GOC:add] is_a: GO:0002794 ! regulation of antimicrobial peptide secretion relationship: part_of GO:0002779 ! antibacterial peptide secretion [Term] id: GO:0002798 name: negative regulation of antibacterial peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antibacterial peptide secretion." [GOC:add] is_a: GO:0002795 ! negative regulation of antimicrobial peptide secretion is_a: GO:0002797 ! regulation of antibacterial peptide secretion [Term] id: GO:0002799 name: positive regulation of antibacterial peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antibacterial peptide secretion." [GOC:add] is_a: GO:0002796 ! positive regulation of antimicrobial peptide secretion is_a: GO:0002797 ! regulation of antibacterial peptide secretion [Term] id: GO:0002800 name: regulation of antifungal peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of ." [GOC:add] is_a: GO:0002794 ! regulation of antimicrobial peptide secretion relationship: part_of GO:0002782 ! antifungal peptide secretion [Term] id: GO:0002801 name: negative regulation of antifungal peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of ." [GOC:add] is_a: GO:0002795 ! negative regulation of antimicrobial peptide secretion is_a: GO:0002800 ! regulation of antifungal peptide secretion [Term] id: GO:0002802 name: positive regulation of antifungal peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of ." [GOC:add] is_a: GO:0002796 ! positive regulation of antimicrobial peptide secretion is_a: GO:0002800 ! regulation of antifungal peptide secretion [Term] id: GO:0002803 name: positive regulation of antibacterial peptide production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antibacterial peptide production." [GOC:add] is_a: GO:0002225 ! positive regulation of antimicrobial peptide production is_a: GO:0002786 ! regulation of antibacterial peptide production [Term] id: GO:0002804 name: positive regulation of antifungal peptide production namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antifungal peptide production." [GOC:add] is_a: GO:0002225 ! positive regulation of antimicrobial peptide production is_a: GO:0002788 ! regulation of antifungal peptide production [Term] id: GO:0002805 name: regulation of antimicrobial peptide biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antimicrobial peptide biosynthesis." [GOC:add] relationship: part_of GO:0002777 ! antimicrobial peptide biosynthesis [Term] id: GO:0002806 name: negative regulation of antimicrobial peptide biosynthesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antimicrobial peptide biosynthesis." [GOC:add] is_a: GO:0002805 ! regulation of antimicrobial peptide biosynthesis [Term] id: GO:0002807 name: positive regulation of antimicrobial peptide biosynthesis namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of antimicrobial peptide biosynthesis." [GOC:add] is_a: GO:0002805 ! regulation of antimicrobial peptide biosynthesis [Term] id: GO:0002808 name: regulation of antibacterial peptide biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antibacterial peptide biosynthesis." [GOC:add] is_a: GO:0002805 ! regulation of antimicrobial peptide biosynthesis relationship: part_of GO:0002780 ! antibacterial peptide biosynthesis [Term] id: GO:0002809 name: negative regulation of antibacterial peptide biosynthesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antibacterial peptide biosynthesis." [GOC:add] is_a: GO:0002806 ! negative regulation of antimicrobial peptide biosynthesis is_a: GO:0002808 ! regulation of antibacterial peptide biosynthesis [Term] id: GO:0002810 name: regulation of antifungal peptide biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of antifungal peptide biosynthesis." [GOC:add] is_a: GO:0002805 ! regulation of antimicrobial peptide biosynthesis relationship: part_of GO:0002783 ! antifungal peptide biosynthesis [Term] id: GO:0002811 name: negative regulation of antifungal peptide biosynthesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of antifungal peptide biosynthesis." [GOC:add] is_a: GO:0002806 ! negative regulation of antimicrobial peptide biosynthesis is_a: GO:0002810 ! regulation of antifungal peptide biosynthesis [Term] id: GO:0002812 name: biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an antibacterial peptide with activity against Gram-negative bacteria." [GOC:add, PMID:11807545] is_a: GO:0002780 ! antibacterial peptide biosynthesis relationship: part_of GO:0050829 ! defense response to Gram-negative bacterium [Term] id: GO:0002813 name: regulation of biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria." [GOC:add] is_a: GO:0002808 ! regulation of antibacterial peptide biosynthesis relationship: part_of GO:0002812 ! biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria [Term] id: GO:0002814 name: negative regulation of biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria." [GOC:add] is_a: GO:0002809 ! negative regulation of antibacterial peptide biosynthesis is_a: GO:0002813 ! regulation of biosynthesis of antibacterial peptides active against anti-Gram-negative bacteria [Term] id: GO:0002815 name: biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an antibacterial peptide with activity against Gram-negative bacteria." [GOC:add] is_a: GO:0002780 ! antibacterial peptide biosynthesis relationship: part_of GO:0050830 ! defense response to Gram-positive bacterium [Term] id: GO:0002816 name: regulation of biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria." [GOC:add] is_a: GO:0002808 ! regulation of antibacterial peptide biosynthesis relationship: part_of GO:0002815 ! biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria [Term] id: GO:0002817 name: negative regulation of biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria." [GOC:add] is_a: GO:0002809 ! negative regulation of antibacterial peptide biosynthesis is_a: GO:0002816 ! regulation of biosynthesis of antibacterial peptides active against anti-Gram-positive bacteria [Term] id: GO:0002818 name: intracellular defense response namespace: biological_process def: "A physiological defense response which occurs intracellularly." [GOC:add] exact_synonym: "intracellular defence response" [] is_a: GO:0006968 ! cellular defense response [Term] id: GO:0002819 name: regulation of adaptive immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an adaptive immune response." [GOC:add] is_a: GO:0050776 ! regulation of immune response relationship: part_of GO:0002250 ! adaptive immune response [Term] id: GO:0002820 name: negative regulation of adaptive immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an adaptive immune response." [GOC:add] is_a: GO:0002819 ! regulation of adaptive immune response is_a: GO:0050777 ! negative regulation of immune response [Term] id: GO:0002821 name: positive regulation of adaptive immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an adaptive immune response." [GOC:add] is_a: GO:0002819 ! regulation of adaptive immune response is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002822 name: regulation of adaptive immune response (sensu Gnathostomata) namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an adaptive immune response, as in, but not restricted to, the jawed vertebrates (Gnathostomata, ncbi_taxonomy_id:7776)." [GOC:add] is_a: GO:0002819 ! regulation of adaptive immune response relationship: part_of GO:0002460 ! adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002823 name: negative regulation of adaptive immune response (sensu Gnathostomata) namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an adaptive immune response , as in, but not restricted to, the jawed vertebrates (Gnathostomata, ncbi_taxonomy_id:7776)." [GOC:add] is_a: GO:0002820 ! negative regulation of adaptive immune response is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002824 name: positive regulation of adaptive immune response (sensu Gnathostomata) namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an adaptive immune response, as in, but not restricted to, the jawed vertebrates (Gnathostomata, ncbi_taxonomy_id:7776)." [GOC:add] is_a: GO:0002821 ! positive regulation of adaptive immune response is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) [Term] id: GO:0002825 name: regulation of T-helper 1 type immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a T-helper 1 type immune response." [GOC:add] is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) relationship: part_of GO:0042088 ! T-helper 1 type immune response [Term] id: GO:0002826 name: negative regulation of T-helper 1 type immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a T-helper 1 type immune response." [GOC:add] is_a: GO:0002823 ! negative regulation of adaptive immune response (sensu Gnathostomata) is_a: GO:0002825 ! regulation of T-helper 1 type immune response [Term] id: GO:0002827 name: positive regulation of T-helper 1 type immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a T-helper 1 type immune response." [GOC:add] is_a: GO:0002824 ! positive regulation of adaptive immune response (sensu Gnathostomata) is_a: GO:0002825 ! regulation of T-helper 1 type immune response [Term] id: GO:0002828 name: regulation of T-helper 2 type immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a T-helper 2 type immune response." [GOC:add] is_a: GO:0002822 ! regulation of adaptive immune response (sensu Gnathostomata) relationship: part_of GO:0042092 ! T-helper 2 type immune response [Term] id: GO:0002829 name: negative regulation of T-helper 2 type immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a T-helper 2 type immune response." [GOC:add] is_a: GO:0002823 ! negative regulation of adaptive immune response (sensu Gnathostomata) is_a: GO:0002828 ! regulation of T-helper 2 type immune response [Term] id: GO:0002830 name: positive regulation of T-helper 2 type immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a T-helper 2 type immune response." [GOC:add] is_a: GO:0002824 ! positive regulation of adaptive immune response (sensu Gnathostomata) is_a: GO:0002828 ! regulation of T-helper 2 type immune response [Term] id: GO:0002831 name: regulation of response to biotic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] is_a: GO:0048583 ! regulation of response to stimulus relationship: part_of GO:0009607 ! response to biotic stimulus [Term] id: GO:0002832 name: negative regulation of response to biotic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] is_a: GO:0048585 ! negative regulation of response to stimulus [Term] id: GO:0002833 name: positive regulation of response to biotic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] is_a: GO:0048584 ! positive regulation of response to stimulus [Term] id: GO:0002834 name: regulation of response to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a response to tumor cell." [GOC:add] exact_synonym: "regulation of response to tumour cell" [] is_a: GO:0002831 ! regulation of response to biotic stimulus relationship: part_of GO:0002347 ! response to tumor cell [Term] id: GO:0002835 name: negative regulation of response to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a response to tumor cell." [GOC:add] exact_synonym: "negative regulation of response to tumour cell" [] is_a: GO:0002832 ! negative regulation of response to biotic stimulus is_a: GO:0002834 ! regulation of response to tumor cell [Term] id: GO:0002836 name: positive regulation of response to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a response to tumor cell." [GOC:add] exact_synonym: "positive regulation of response to tumour cell" [] is_a: GO:0002833 ! positive regulation of response to biotic stimulus is_a: GO:0002834 ! regulation of response to tumor cell [Term] id: GO:0002837 name: regulation of immune response to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune response to tumor cell." [GOC:add] exact_synonym: "regulation of immune response to tumour cell" [] is_a: GO:0002834 ! regulation of response to tumor cell is_a: GO:0050776 ! regulation of immune response relationship: part_of GO:0002418 ! immune response to tumor cell [Term] id: GO:0002838 name: negative regulation of immune response to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune response to tumor cell." [GOC:add] exact_synonym: "negative regulation of immune response to tumour cell" [] is_a: GO:0002835 ! negative regulation of response to tumor cell is_a: GO:0002837 ! regulation of immune response to tumor cell is_a: GO:0050777 ! negative regulation of immune response [Term] id: GO:0002839 name: positive regulation of immune response to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune response to tumor cell." [GOC:add] exact_synonym: "positive regulation of immune response to tumour cell" [] is_a: GO:0002836 ! positive regulation of response to tumor cell is_a: GO:0002837 ! regulation of immune response to tumor cell is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002840 name: regulation of T cell mediated immune response to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a T cell mediated immune response to tumor cell." [GOC:add] exact_synonym: "regulation of T cell mediated immune response to tumour cell" [] exact_synonym: "regulation of T lymphocyte mediated immune response to tumor cell" [] exact_synonym: "regulation of T-cell mediated immune response to tumor cell" [] exact_synonym: "regulation of T-lymphocyte mediated immune response to tumor cell" [] is_a: GO:0002709 ! regulation of T cell mediated immunity is_a: GO:0002837 ! regulation of immune response to tumor cell relationship: part_of GO:0002424 ! T cell mediated immune response to tumor cell [Term] id: GO:0002841 name: negative regulation of T cell mediated immune response to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a T cell mediated immune response to tumor cell." [GOC:add] exact_synonym: "negative regulation of T cell mediated immune response to tumour cell" [] exact_synonym: "negative regulation of T lymphocyte mediated immune response to tumor cell" [] exact_synonym: "negative regulation of T-cell mediated immune response to tumor cell" [] exact_synonym: "negative regulation of T-lymphocyte mediated immune response to tumor cell" [] is_a: GO:0002710 ! negative regulation of T cell mediated immunity is_a: GO:0002838 ! negative regulation of immune response to tumor cell is_a: GO:0002840 ! regulation of T cell mediated immune response to tumor cell [Term] id: GO:0002842 name: positive regulation of T cell mediated immune response to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a T cell mediated immune response to tumor cell." [GOC:add] exact_synonym: "positive regulation of T cell mediated immune response to tumour cell" [] exact_synonym: "positive regulation of T lymphocyte mediated immune response to tumor cell" [] exact_synonym: "positive regulation of T-cell mediated immune response to tumor cell" [] exact_synonym: "positive regulation of T-lymphocyte mediated immune response to tumor cell" [] is_a: GO:0002711 ! positive regulation of T cell mediated immunity is_a: GO:0002839 ! positive regulation of immune response to tumor cell is_a: GO:0002840 ! regulation of T cell mediated immune response to tumor cell [Term] id: GO:0002843 name: regulation of tolerance induction to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of tolerance induction to tumor cell." [GOC:add] exact_synonym: "regulation of tolerance induction to tumour cell" [] is_a: GO:0002658 ! regulation of peripheral tolerance induction is_a: GO:0002837 ! regulation of immune response to tumor cell relationship: part_of GO:0002413 ! tolerance induction to tumor cell [Term] id: GO:0002844 name: negative regulation of tolerance induction to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of tolerance induction to tumor cell." [GOC:add] exact_synonym: "negative regulation of tolerance induction to tumour cell" [] is_a: GO:0002659 ! negative regulation of peripheral tolerance induction is_a: GO:0002838 ! negative regulation of immune response to tumor cell is_a: GO:0002843 ! regulation of tolerance induction to tumor cell [Term] id: GO:0002845 name: positive regulation of tolerance induction to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of tolerance induction to tumor cell." [GOC:add] exact_synonym: "positive regulation of tolerance induction to tumour cell" [] is_a: GO:0002660 ! positive regulation of peripheral tolerance induction is_a: GO:0002839 ! positive regulation of immune response to tumor cell is_a: GO:0002843 ! regulation of tolerance induction to tumor cell [Term] id: GO:0002846 name: regulation of T cell tolerance induction to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell tolerance induction to tumor cell." [GOC:add] is_a: GO:0002840 ! regulation of T cell mediated immune response to tumor cell is_a: GO:0002843 ! regulation of tolerance induction to tumor cell is_a: GO:0002849 ! regulation of peripheral T cell tolerance induction relationship: part_of GO:0002411 ! T cell tolerance induction to tumor cell [Term] id: GO:0002847 name: negative regulation of T cell tolerance induction to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell tolerance induction to tumor cell." [GOC:add] is_a: GO:0002841 ! negative regulation of T cell mediated immune response to tumor cell is_a: GO:0002844 ! negative regulation of tolerance induction to tumor cell is_a: GO:0002846 ! regulation of T cell tolerance induction to tumor cell is_a: GO:0002850 ! negative regulation of peripheral T cell tolerance induction [Term] id: GO:0002848 name: positive regulation of T cell tolerance induction to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell tolerance induction to tumor cell." [GOC:add] is_a: GO:0002842 ! positive regulation of T cell mediated immune response to tumor cell is_a: GO:0002845 ! positive regulation of tolerance induction to tumor cell is_a: GO:0002846 ! regulation of T cell tolerance induction to tumor cell is_a: GO:0002851 ! positive regulation of peripheral T cell tolerance induction [Term] id: GO:0002849 name: regulation of peripheral T cell tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peripheral T cell tolerance induction." [GOC:add] is_a: GO:0002658 ! regulation of peripheral tolerance induction is_a: GO:0002664 ! regulation of T cell tolerance induction is_a: GO:0002709 ! regulation of T cell mediated immunity relationship: part_of GO:0002458 ! peripheral T cell tolerance induction [Term] id: GO:0002850 name: negative regulation of peripheral T cell tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral T cell tolerance induction." [GOC:add] is_a: GO:0002659 ! negative regulation of peripheral tolerance induction is_a: GO:0002665 ! negative regulation of T cell tolerance induction is_a: GO:0002710 ! negative regulation of T cell mediated immunity is_a: GO:0002849 ! regulation of peripheral T cell tolerance induction [Term] id: GO:0002851 name: positive regulation of peripheral T cell tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peripheral T cell tolerance induction." [GOC:add] is_a: GO:0002660 ! positive regulation of peripheral tolerance induction is_a: GO:0002666 ! positive regulation of T cell tolerance induction is_a: GO:0002711 ! positive regulation of T cell mediated immunity is_a: GO:0002849 ! regulation of peripheral T cell tolerance induction [Term] id: GO:0002852 name: regulation of T cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of T cell mediated cytotoxicity directed against a tumor cell target." [GOC:add] is_a: GO:0001914 ! regulation of T cell mediated cytotoxicity is_a: GO:0002840 ! regulation of T cell mediated immune response to tumor cell relationship: part_of GO:0002419 ! T cell mediated cytotoxicity directed against tumor cell target [Term] id: GO:0002853 name: negative regulation of T cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of T cell mediated cytotoxicity directed against a tumor cell target." [GOC:add] is_a: GO:0001915 ! negative regulation of T cell mediated cytotoxicity is_a: GO:0002841 ! negative regulation of T cell mediated immune response to tumor cell is_a: GO:0002852 ! regulation of T cell mediated cytotoxicity directed against tumor cell target [Term] id: GO:0002854 name: positive regulation of T cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of T cell mediated cytotoxicity directed against a tumor cell target." [GOC:add] is_a: GO:0001916 ! positive regulation of T cell mediated cytotoxicity is_a: GO:0002842 ! positive regulation of T cell mediated immune response to tumor cell is_a: GO:0002852 ! regulation of T cell mediated cytotoxicity directed against tumor cell target [Term] id: GO:0002855 name: regulation of natural killer cell mediated immune response to tumor cell namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of natural killer cell mediated immune response to a tumor cell." [GOC:add] is_a: GO:0002715 ! regulation of natural killer cell mediated immunity is_a: GO:0002837 ! regulation of immune response to tumor cell relationship: part_of GO:0002423 ! natural killer cell mediated immune response to tumor cell [Term] id: GO:0002856 name: negative regulation of natural killer cell mediated immune response to tumor cell namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell mediated immune response to a tumor cell." [GOC:add] is_a: GO:0002716 ! negative regulation of natural killer cell mediated immunity is_a: GO:0002838 ! negative regulation of immune response to tumor cell is_a: GO:0002855 ! regulation of natural killer cell mediated immune response to tumor cell [Term] id: GO:0002857 name: positive regulation of natural killer cell mediated immune response to tumor cell namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of natural killer cell mediated immune response to a tumor cell." [GOC:add] is_a: GO:0002717 ! positive regulation of natural killer cell mediated immunity is_a: GO:0002839 ! positive regulation of immune response to tumor cell is_a: GO:0002855 ! regulation of natural killer cell mediated immune response to tumor cell [Term] id: GO:0002858 name: regulation of natural killer cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of natural killer cell mediated cytotoxicity directed against tumor cell target." [GOC:add] is_a: GO:0002855 ! regulation of natural killer cell mediated immune response to tumor cell is_a: GO:0042269 ! regulation of natural killer cell mediated cytotoxicity relationship: part_of GO:0002420 ! natural killer cell mediated cytotoxicity directed against tumor cell target [Term] id: GO:0002859 name: negative regulation of natural killer cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell mediated cytotoxicity directed against tumor cell target." [GOC:add] is_a: GO:0002856 ! negative regulation of natural killer cell mediated immune response to tumor cell is_a: GO:0002858 ! regulation of natural killer cell mediated cytotoxicity directed against tumor cell target is_a: GO:0045953 ! negative regulation of natural killer cell mediated cytotoxicity [Term] id: GO:0002860 name: positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of natural killer cell mediated cytotoxicity directed against tumor cell target." [GOC:add] is_a: GO:0002857 ! positive regulation of natural killer cell mediated immune response to tumor cell is_a: GO:0002858 ! regulation of natural killer cell mediated cytotoxicity directed against tumor cell target is_a: GO:0045954 ! positive regulation of natural killer cell mediated cytotoxicity [Term] id: GO:0002861 name: regulation of inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0050727 ! regulation of inflammatory response is_a: GO:0050776 ! regulation of immune response relationship: part_of GO:0002437 ! inflammatory response to antigenic stimulus [Term] id: GO:0002862 name: negative regulation of inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002861 ! regulation of inflammatory response to antigenic stimulus is_a: GO:0050728 ! negative regulation of inflammatory response is_a: GO:0050777 ! negative regulation of immune response [Term] id: GO:0002863 name: positive regulation of inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002861 ! regulation of inflammatory response to antigenic stimulus is_a: GO:0050729 ! positive regulation of inflammatory response is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002864 name: regulation of acute inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an acute inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0002861 ! regulation of inflammatory response to antigenic stimulus relationship: part_of GO:0002438 ! acute inflammatory response to antigenic stimulus [Term] id: GO:0002865 name: negative regulation of acute inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an acute inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002674 ! negative regulation of acute inflammatory response is_a: GO:0002862 ! negative regulation of inflammatory response to antigenic stimulus [Term] id: GO:0002866 name: positive regulation of acute inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an acute inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002675 ! positive regulation of acute inflammatory response is_a: GO:0002863 ! positive regulation of inflammatory response to antigenic stimulus [Term] id: GO:0002867 name: regulation of B cell deletion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell deletion." [GOC:add] exact_synonym: "regulation of B lymphocyte deletion" [] exact_synonym: "regulation of B-cell deletion" [] exact_synonym: "regulation of B-lymphocyte deletion" [] is_a: GO:0002902 ! regulation of B cell apoptosis relationship: part_of GO:0002516 ! B cell deletion [Term] id: GO:0002868 name: negative regulation of B cell deletion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell deletion." [GOC:add] exact_synonym: "negative regulation of B lymphocyte deletion" [] exact_synonym: "negative regulation of B-cell deletion" [] exact_synonym: "negative regulation of B-lymphocyte deletion" [] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0002903 ! negative regulation of B cell apoptosis [Term] id: GO:0002869 name: positive regulation of B cell deletion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell deletion." [GOC:add] exact_synonym: "positive regulation of B lymphocyte deletion" [] exact_synonym: "positive regulation of B-cell deletion" [] exact_synonym: "positive regulation of B-lymphocyte deletion" [] is_a: GO:0002673 ! regulation of acute inflammatory response is_a: GO:0002904 ! positive regulation of B cell apoptosis [Term] id: GO:0002870 name: T cell anergy namespace: biological_process def: "Any process contributing to anergy in T cells, a state of functional inactivation which is part of T cell tolerance induction." [GOC:add, ISBN:0781735149] exact_synonym: "T lymphocyte anergy" [] exact_synonym: "T-cell anergy" [] exact_synonym: "T-lymphocyte anergy" [] is_a: GO:0002249 ! lymphocyte anergy relationship: part_of GO:0002517 ! T cell tolerance induction [Term] id: GO:0002871 name: regulation of natural killer cell tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of natural killer cell tolerance induction." [GOC:add] exact_synonym: "regulation of NK cell tolerance induction" [] is_a: GO:0002643 ! regulation of tolerance induction relationship: part_of GO:0002519 ! natural killer cell tolerance induction [Term] id: GO:0002872 name: negative regulation of natural killer cell tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of natural killer cell tolerance induction." [GOC:add] exact_synonym: "negative regulation of NK cell tolerance induction" [] is_a: GO:0002644 ! negative regulation of tolerance induction is_a: GO:0002673 ! regulation of acute inflammatory response [Term] id: GO:0002873 name: positive regulation of natural killer cell tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of natural killer cell tolerance induction." [GOC:add] exact_synonym: "positive regulation of NK cell tolerance induction" [] is_a: GO:0002645 ! positive regulation of tolerance induction is_a: GO:0002673 ! regulation of acute inflammatory response [Term] id: GO:0002874 name: regulation of chronic inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a chronic inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002676 ! regulation of chronic inflammatory response is_a: GO:0002861 ! regulation of inflammatory response to antigenic stimulus relationship: part_of GO:0002439 ! chronic inflammatory response to antigenic stimulus [Term] id: GO:0002875 name: negative regulation of chronic inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a chronic inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002677 ! negative regulation of chronic inflammatory response is_a: GO:0002862 ! negative regulation of inflammatory response to antigenic stimulus is_a: GO:0002874 ! regulation of chronic inflammatory response to antigenic stimulus [Term] id: GO:0002876 name: positive regulation of chronic inflammatory response to antigenic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a chronic inflammatory response to an antigenic stimulus." [GOC:add] is_a: GO:0002678 ! positive regulation of chronic inflammatory response is_a: GO:0002863 ! positive regulation of inflammatory response to antigenic stimulus is_a: GO:0002874 ! regulation of chronic inflammatory response to antigenic stimulus [Term] id: GO:0002877 name: regulation of acute inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an acute inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002673 ! regulation of acute inflammatory response relationship: part_of GO:0002525 ! acute inflammatory response to non-antigenic stimulus [Term] id: GO:0002878 name: negative regulation of acute inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an acute inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002674 ! negative regulation of acute inflammatory response is_a: GO:0002877 ! regulation of acute inflammatory response to non-antigenic stimulus [Term] id: GO:0002879 name: positive regulation of acute inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an acute inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002675 ! positive regulation of acute inflammatory response is_a: GO:0002877 ! regulation of acute inflammatory response to non-antigenic stimulus [Term] id: GO:0002880 name: regulation of chronic inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a chronic inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002676 ! regulation of chronic inflammatory response relationship: part_of GO:0002545 ! chronic inflammatory response to non-antigenic stimulus [Term] id: GO:0002881 name: negative regulation of chronic inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a chronic inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002677 ! negative regulation of chronic inflammatory response is_a: GO:0002880 ! regulation of chronic inflammatory response to non-antigenic stimulus [Term] id: GO:0002882 name: positive regulation of chronic inflammatory response to non-antigenic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a chronic inflammatory response to a non-antigenic stimulus." [GOC:add] is_a: GO:0002678 ! positive regulation of chronic inflammatory response is_a: GO:0002880 ! regulation of chronic inflammatory response to non-antigenic stimulus [Term] id: GO:0002883 name: regulation of hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of hypersensitivity." [GOC:add] is_a: GO:0002864 ! regulation of acute inflammatory response to antigenic stimulus relationship: part_of GO:0002524 ! hypersensitivity [Term] id: GO:0002884 name: negative regulation of hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of hypersensitivity." [GOC:add] is_a: GO:0002865 ! negative regulation of acute inflammatory response to antigenic stimulus is_a: GO:0002883 ! regulation of hypersensitivity [Term] id: GO:0002885 name: positive regulation of hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of hypersensitivity." [GOC:add] is_a: GO:0002866 ! positive regulation of acute inflammatory response to antigenic stimulus is_a: GO:0002883 ! regulation of hypersensitivity [Term] id: GO:0002886 name: regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] is_a: GO:0002703 ! regulation of leukocyte mediated immunity relationship: part_of GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002887 name: negative regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] is_a: GO:0002704 ! negative regulation of leukocyte mediated immunity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity [Term] id: GO:0002888 name: positive regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] is_a: GO:0002705 ! positive regulation of leukocyte mediated immunity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity [Term] id: GO:0002889 name: regulation of immunoglobulin mediated immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immunoglobulin mediated immune response." [GOC:add] is_a: GO:0002712 ! regulation of B cell mediated immunity relationship: part_of GO:0016064 ! immunoglobulin mediated immune response [Term] id: GO:0002890 name: negative regulation of immunoglobulin mediated immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immunoglobulin mediated immune response." [GOC:add] is_a: GO:0002713 ! negative regulation of B cell mediated immunity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response [Term] id: GO:0002891 name: positive regulation of immunoglobulin mediated immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immunoglobulin mediated immune response." [GOC:add] is_a: GO:0002714 ! positive regulation of B cell mediated immunity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response [Term] id: GO:0002892 name: regulation of type II hypersensitivity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of type II hypersensitivity." [GOC:add] is_a: GO:0002883 ! regulation of hypersensitivity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response relationship: part_of GO:0002445 ! type II hypersensitivity [Term] id: GO:0002893 name: negative regulation of type II hypersensitivity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of type II hypersensitivity." [GOC:add] is_a: GO:0002884 ! negative regulation of hypersensitivity is_a: GO:0002887 ! negative regulation of myeloid leukocyte mediated immunity is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response is_a: GO:0002892 ! regulation of type II hypersensitivity [Term] id: GO:0002894 name: positive regulation of type II hypersensitivity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of type II hypersensitivity." [GOC:add] is_a: GO:0002885 ! positive regulation of hypersensitivity is_a: GO:0002888 ! positive regulation of myeloid leukocyte mediated immunity is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response is_a: GO:0002892 ! regulation of type II hypersensitivity [Term] id: GO:0002895 name: regulation of central B cell tolerance induction namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of central B cell tolerance induction." [GOC:add] is_a: GO:0002646 ! regulation of central tolerance induction is_a: GO:0002661 ! regulation of B cell tolerance induction relationship: part_of GO:0002510 ! central B cell tolerance induction [Term] id: GO:0002896 name: negative regulation of central B cell tolerance induction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of central B cell tolerance induction." [GOC:add] is_a: GO:0002647 ! negative regulation of central tolerance induction is_a: GO:0002662 ! negative regulation of B cell tolerance induction is_a: GO:0002895 ! regulation of central B cell tolerance induction [Term] id: GO:0002897 name: positive regulation of central B cell tolerance induction namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of central B cell tolerance induction." [GOC:add] is_a: GO:0002648 ! positive regulation of central tolerance induction is_a: GO:0002663 ! positive regulation of B cell tolerance induction is_a: GO:0002895 ! regulation of central B cell tolerance induction [Term] id: GO:0002898 name: regulation of central B cell deletion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of central B cell deletion." [GOC:add] is_a: GO:0002867 ! regulation of B cell deletion relationship: part_of GO:0002342 ! central B cell deletion [Term] id: GO:0002899 name: negative regulation of central B cell deletion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of central B cell deletion." [GOC:add] is_a: GO:0002868 ! negative regulation of B cell deletion is_a: GO:0002898 ! regulation of central B cell deletion [Term] id: GO:0002900 name: positive regulation of central B cell deletion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of central B cell deletion." [GOC:add] is_a: GO:0002869 ! positive regulation of B cell deletion is_a: GO:0002898 ! regulation of central B cell deletion [Term] id: GO:0002901 name: mature B cell apoptosis namespace: biological_process def: "The process of apoptosis in mature B cells." [GOC:add, ISBN:0781735149] exact_synonym: "apoptosis of mature B cells" [] exact_synonym: "apoptosis of mature B lymphocytes" [] exact_synonym: "apoptosis of mature B-cells" [] exact_synonym: "apoptosis of mature B-lymphocytes" [] exact_synonym: "mature B cell programmed cell death by apoptosis" [] exact_synonym: "mature B lymphocyte apoptosis" [] exact_synonym: "mature B lymphocyte programmed cell death by apoptosis" [] exact_synonym: "mature B-cell apoptosis" [] exact_synonym: "mature B-cell programmed cell death by apoptosis" [] exact_synonym: "mature B-lymphocyte apoptosis" [] exact_synonym: "mature B-lymphocyte programmed cell death by apoptosis" [] exact_synonym: "programmed cell death of mature B cells by apoptosis" [] exact_synonym: "programmed cell death of mature B lymphocytes by apoptosis" [] exact_synonym: "programmed cell death of mature B-cells by apoptosis" [] exact_synonym: "programmed cell death of mature B-lymphocytes by apoptosis" [] exact_synonym: "programmed cell death, mature B cells" [] exact_synonym: "programmed cell death, mature B lymphocytes" [] exact_synonym: "programmed cell death, mature B-cells" [] exact_synonym: "programmed cell death, mature B-lymphocytes" [] is_a: GO:0001783 ! B cell apoptosis relationship: part_of GO:0001782 ! B cell homeostasis [Term] id: GO:0002902 name: regulation of B cell apoptosis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of B cell apoptosis." [GOC:add] is_a: GO:0042981 ! regulation of apoptosis relationship: part_of GO:0001783 ! B cell apoptosis [Term] id: GO:0002903 name: negative regulation of B cell apoptosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of B cell apoptosis." [GOC:add] is_a: GO:0002902 ! regulation of B cell apoptosis is_a: GO:0043066 ! negative regulation of apoptosis [Term] id: GO:0002904 name: positive regulation of B cell apoptosis namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of B cell apoptosis." [GOC:add] is_a: GO:0002902 ! regulation of B cell apoptosis is_a: GO:0043065 ! positive regulation of apoptosis [Term] id: GO:0002905 name: regulation of mature B cell apoptosis namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of mature B cell apoptosis." [GOC:add] is_a: GO:0002902 ! regulation of B cell apoptosis relationship: part_of GO:0002901 ! mature B cell apoptosis [Term] id: GO:0002906 name: negative regulation of mature B cell apoptosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of mature B cell apoptosis." [GOC:add] is_a: GO:0002903 ! negative regulation of B cell apoptosis is_a: GO:0002905 ! regulation of mature B cell apoptosis [Term] id: GO:0002907 name: positive regulation of mature B cell apoptosis namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of mature B cell apoptosis." [GOC:add] is_a: GO:0002904 ! positive regulation of B cell apoptosis is_a: GO:0002905 ! regulation of mature B cell apoptosis [Term] id: GO:0002908 name: regulation of peripheral B cell deletion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peripheral B cell deletion." [GOC:add] is_a: GO:0002867 ! regulation of B cell deletion relationship: part_of GO:0002454 ! peripheral B cell deletion [Term] id: GO:0002909 name: negative regulation of peripheral B cell deletion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral B cell deletion." [GOC:add] is_a: GO:0002868 ! negative regulation of B cell deletion is_a: GO:0002908 ! regulation of peripheral B cell deletion [Term] id: GO:0002910 name: positive regulation of peripheral B cell deletion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peripheral B cell deletion." [GOC:add] is_a: GO:0002869 ! positive regulation of B cell deletion is_a: GO:0002908 ! regulation of peripheral B cell deletion [Term] id: GO:0002911 name: regulation of lymphocyte anergy namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of lymphocyte anergy." [GOC:add] is_a: GO:0002682 ! regulation of immune system process relationship: part_of GO:0002249 ! lymphocyte anergy [Term] id: GO:0002912 name: negative regulation of lymphocyte anergy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of lymphocyte anergy." [GOC:add] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0002911 ! regulation of lymphocyte anergy [Term] id: GO:0002913 name: positive regulation of lymphocyte anergy namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of lymphocyte anergy." [GOC:add] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0002911 ! regulation of lymphocyte anergy [Term] id: GO:0002914 name: regulation of central B cell anergy namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of central B cell anergy." [GOC:add] is_a: GO:0002670 ! regulation of B cell anergy relationship: part_of GO:0002341 ! central B cell anergy [Term] id: GO:0002915 name: negative regulation of central B cell anergy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of central B cell anergy." [GOC:add] is_a: GO:0002671 ! negative regulation of B cell anergy is_a: GO:0002914 ! regulation of central B cell anergy [Term] id: GO:0002916 name: positive regulation of central B cell anergy namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of central B cell anergy." [GOC:add] is_a: GO:0002672 ! positive regulation of B cell anergy is_a: GO:0002914 ! regulation of central B cell anergy [Term] id: GO:0002917 name: regulation of peripheral B cell anergy namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peripheral B cell anergy." [GOC:add] is_a: GO:0002670 ! regulation of B cell anergy relationship: part_of GO:0002453 ! peripheral B cell anergy [Term] id: GO:0002918 name: negative regulation of peripheral B cell anergy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peripheral B cell anergy." [GOC:add] is_a: GO:0002671 ! negative regulation of B cell anergy is_a: GO:0002917 ! regulation of peripheral B cell anergy [Term] id: GO:0002919 name: positive regulation of peripheral B cell anergy namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peripheral B cell anergy." [GOC:add] is_a: GO:0002672 ! positive regulation of B cell anergy is_a: GO:0002917 ! regulation of peripheral B cell anergy [Term] id: GO:0002920 name: regulation of humoral immune response namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a humoral immune response." [GOC:add] is_a: GO:0050776 ! regulation of immune response relationship: part_of GO:0006959 ! humoral immune response [Term] id: GO:0002921 name: negative regulation of humoral immune response namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a humoral immune response." [GOC:add] is_a: GO:0002920 ! regulation of humoral immune response is_a: GO:0050777 ! negative regulation of immune response [Term] id: GO:0002922 name: positive regulation of humoral immune response namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a humoral immune response." [GOC:add] is_a: GO:0002920 ! regulation of humoral immune response is_a: GO:0050778 ! positive regulation of immune response [Term] id: GO:0002923 name: regulation of humoral immune response mediated by circulating immunoglobulin namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a humoral immune response mediated by circulating immunoglobulin." [GOC:add] is_a: GO:0002889 ! regulation of immunoglobulin mediated immune response is_a: GO:0002920 ! regulation of humoral immune response relationship: part_of GO:0002455 ! humoral immune response mediated by circulating immunoglobulin [Term] id: GO:0002924 name: negative regulation of humoral immune response mediated by circulating immunoglobulin namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a humoral immune response mediated by circulating immunoglobulin." [GOC:add] is_a: GO:0002890 ! negative regulation of immunoglobulin mediated immune response is_a: GO:0002921 ! negative regulation of humoral immune response [Term] id: GO:0002925 name: positive regulation of humoral immune response mediated by circulating immunoglobulin namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a humoral immune response mediated by circulating immunoglobulin." [GOC:add] is_a: GO:0002891 ! positive regulation of immunoglobulin mediated immune response is_a: GO:0002922 ! positive regulation of humoral immune response [Term] id: GO:0003673 name: Gene_Ontology namespace: biological_process def: "OBSOLETE. A controlled vocabulary that can be applied to all organisms even as knowledge of gene and protein roles in cells is accumulating and changing. GO provides three structured networks of defined terms to describe gene product attributes." [GOC:go_curators] comment: This term was made obsolete because more specific terms were created. is_obsolete: true [Term] id: GO:0003674 name: molecular_function namespace: molecular_function def: "Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions." [GOC:go_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok [Term] id: GO:0003675 name: protein namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0003676 name: nucleic acid binding namespace: molecular_function def: "Interacting selectively with any nucleic acid." [GOC:jl] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0003677 name: DNA binding namespace: molecular_function def: "Interacting selectively with DNA (deoxyribonucleic acid)." [GOC:jl] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "microtubule/chromatin interaction" [] narrow_synonym: "plasmid binding" [] is_a: GO:0003676 ! nucleic acid binding [Term] id: GO:0003678 name: DNA helicase activity namespace: molecular_function alt_id: GO:0003679 def: "Catalysis of the hydrolysis of ATP to unwind the DNA helix at the replication fork, allowing the resulting single strands to be copied." [GOC:jl, http://cancerweb.ncl.ac.uk/] comment: Consider also annotating to the molecular function term 'DNA binding ; GO:0003677'. subset: gosubset_prok is_a: GO:0004386 ! helicase activity [Term] id: GO:0003680 name: AT DNA binding namespace: molecular_function def: "Interacting selectively with oligo(A) and oligo(T) tracts of DNA (AT DNA)." [GOC:jl, UniProtKB:P13483] exact_synonym: "AT binding" [] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0003681 name: bent DNA binding namespace: molecular_function def: "Interacting selectively with DNA in a bent conformation." [GOC:jl, PMID:12627977] subset: gosubset_prok is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0003682 name: chromatin binding namespace: molecular_function def: "Interacting selectively with chromatin, the network of fibers of DNA and protein that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:jl, ISBN:0198506732] subset: goslim_generic subset: goslim_plant related_synonym: "microtubule/chromatin interaction" [] narrow_synonym: "nuclear membrane vesicle binding to chromatin" [] broad_synonym: "lamin/chromatin binding" [] is_a: GO:0005488 ! binding [Term] id: GO:0003683 name: lamin/chromatin binding namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents two functions. To update annotations, use the molecular function terms 'lamin binding ; GO:0005521' and 'chromatin binding ; GO:0003682'. is_obsolete: true [Term] id: GO:0003684 name: damaged DNA binding namespace: molecular_function def: "Interacting selectively with damaged DNA." [GOC:jl] subset: gosubset_prok related_synonym: "DNA repair enzyme" [] related_synonym: "DNA repair protein" [] related_synonym: "endonuclease VIII activity" [] xref_analog: Reactome:113678 xref_analog: Reactome:113683 xref_analog: Reactome:115888 xref_analog: Reactome:118517 xref_analog: Reactome:121126 xref_analog: Reactome:125366 xref_analog: Reactome:7372 is_a: GO:0003677 ! DNA binding [Term] id: GO:0003685 name: DNA repair protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:elh] comment: This term was made obsolete because it includes a process term. To update annotations, consider the function term 'damaged DNA binding ; GO:0003684' and its children. is_obsolete: true [Term] id: GO:0003686 name: DNA repair enzyme namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:elh] comment: This term was made obsolete because it includes a process term. To update annotations, consider the function term 'damaged DNA binding ; GO:0003684' and its children. is_obsolete: true [Term] id: GO:0003687 name: DNA replication factor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it does not represent a true molecular function. To update annotations, consider the biological process term 'DNA replication ; GO:0006260' and its children. is_obsolete: true [Term] id: GO:0003688 name: DNA replication origin binding namespace: molecular_function def: "Interacting selectively with the DNA replication origin, a unique DNA sequence of a replicon at which DNA replication is initiated and proceeds bidirectionally or unidirectionally." [GOC:jl, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok narrow_synonym: "ARS binding" [] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0003689 name: DNA clamp loader activity namespace: molecular_function def: "Activity that loads a ring-like DNA polymerase processivity factor, or sliding clamp, on to DNA, coupled to the hydrolysis of ATP." [PMID:16082778] subset: gosubset_prok exact_synonym: "DNA clamp loading ATPase activity" [] narrow_synonym: "PCNA loading activity" [] narrow_synonym: "PCNA loading complex activity" [] is_a: GO:0003677 ! DNA binding is_a: GO:0008094 ! DNA-dependent ATPase activity [Term] id: GO:0003690 name: double-stranded DNA binding namespace: molecular_function def: "Interacting selectively with double-stranded DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0003691 name: double-stranded telomeric DNA binding namespace: molecular_function def: "Interacting selectively with double-stranded telomere-associated DNA." [GOC:jl, ISBN:0321000382] is_a: GO:0003690 ! double-stranded DNA binding is_a: GO:0042162 ! telomeric DNA binding [Term] id: GO:0003692 name: left-handed Z-DNA binding namespace: molecular_function def: "Interacting selectively with DNA in the Z form, i.e. a left-handed helix in which the phosphate backbone zigzags." [ISBN:0716720094] is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0003693 name: P-element binding namespace: molecular_function def: "Interacting selectively with any P-element, a class of Drosophila transposon responsible for hybrid dysgenesis." [GOC:jl, http://cancerweb.ncl.ac.uk/] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0003694 name: plasmid binding namespace: molecular_function def: "OBSOLETE. Interacting selectively with a plasmid, an extrachromosomal genetic element usually characterized as a covalently continuous double stranded DNA molecule found in bacteria and some other microorganisms." [ISBN:0198506732] comment: This term was made obsolete because it refers to component information. To update annotations, consider the molecular function term 'DNA binding ; GO:0003677' and the cellular component term 'extrachromosomal circular DNA ; GO:0005727'. related_synonym: "plasmid-associated protein" [] is_obsolete: true [Term] id: GO:0003695 name: random coil DNA binding namespace: molecular_function alt_id: GO:0016017 def: "Interacting selectively with DNA in a random coil configuration." [GOC:mah] exact_synonym: "random coil binding" [] is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0003696 name: satellite DNA binding namespace: molecular_function def: "Interacting selectively with satellite DNA, DNA containing highly repetitive sequences which makes up a large proportion of the eukaryotic genome." [GOC:jl, http://cancerweb.ncl.ac.uk/] is_a: GO:0043565 ! sequence-specific DNA binding [Term] id: GO:0003697 name: single-stranded DNA binding namespace: molecular_function alt_id: GO:0003698 alt_id: GO:0003699 def: "Interacting selectively with single-stranded DNA." [GOC:elh] subset: gosubset_prok is_a: GO:0043566 ! structure-specific DNA binding [Term] id: GO:0003700 name: transcription factor activity namespace: molecular_function alt_id: GO:0000130 def: "The function of binding to a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex." [GOC:curators] subset: goslim_generic subset: goslim_plant subset: gosubset_prok is_a: GO:0003677 ! DNA binding is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003701 name: RNA polymerase I transcription factor activity namespace: molecular_function def: "Functions to initiate or regulate RNA polymerase I transcription." [GOC:jl] is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003702 name: RNA polymerase II transcription factor activity namespace: molecular_function def: "Functions to initiate or regulate RNA polymerase II transcription." [GOC:jl] is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003704 name: specific RNA polymerase II transcription factor activity namespace: molecular_function def: "Functions to enable the transcription of specific, or specific sets, of genes by RNA polymerase II." [GOC:ma] is_a: GO:0003702 ! RNA polymerase II transcription factor activity [Term] id: GO:0003705 name: RNA polymerase II transcription factor activity, enhancer binding namespace: molecular_function def: "Functions to initiate or regulate RNA polymerase II transcription by binding an enhancer region of DNA." [GOC:jl] is_a: GO:0003700 ! transcription factor activity is_a: GO:0003702 ! RNA polymerase II transcription factor activity [Term] id: GO:0003706 name: ligand-regulated transcription factor activity namespace: molecular_function is_a: GO:0003704 ! specific RNA polymerase II transcription factor activity [Term] id: GO:0003707 name: steroid hormone receptor activity namespace: molecular_function def: "Combining with a steroid hormone to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0004879 ! ligand-dependent nuclear receptor activity [Term] id: GO:0003708 name: retinoic acid receptor activity namespace: molecular_function def: "Combining with retinoic acid to initiate a change in cell activity. Retinoic acid is one of the forms of vitamin A." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. broad_synonym: "vitamin A receptor activity" [] is_a: GO:0004879 ! ligand-dependent nuclear receptor activity [Term] id: GO:0003709 name: RNA polymerase III transcription factor activity namespace: molecular_function def: "Functions to initiate or regulate RNA polymerase III transcription." [GOC:jl] is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003711 name: transcriptional elongation regulator activity namespace: molecular_function def: "Any activity that modulates the rate of transcription elongation, the addition of ribonucleotides to an RNA molecule following transcription initiation." [GOC:mah] subset: gosubset_prok is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003712 name: transcription cofactor activity namespace: molecular_function def: "The function that links a sequence-specific transcription factor to the core RNA polymerase II complex but does not bind DNA itself." [PMID:10213677] subset: gosubset_prok exact_synonym: "transcriptional co-regulator" [] is_a: GO:0008134 ! transcription factor binding is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003713 name: transcription coactivator activity namespace: molecular_function def: "The function of a transcription cofactor that activates transcription from a RNA polymerase II promoter; does not bind DNA itself." [GOC:ma] subset: gosubset_prok exact_synonym: "transcription co-activator activity" [] is_a: GO:0003712 ! transcription cofactor activity is_a: GO:0016563 ! transcriptional activator activity [Term] id: GO:0003714 name: transcription corepressor activity namespace: molecular_function def: "The function of a transcription cofactor that represses transcription from a RNA polymerase II promoter; does not bind DNA itself." [GOC:ma] exact_synonym: "transcription co-repressor activity" [] is_a: GO:0003712 ! transcription cofactor activity is_a: GO:0016564 ! transcriptional repressor activity [Term] id: GO:0003715 name: transcription termination factor activity namespace: molecular_function def: "Any activity that brings about termination of transcription." [GOC:mah] subset: gosubset_prok is_a: GO:0030528 ! transcription regulator activity [Term] id: GO:0003716 name: RNA polymerase I transcription termination factor activity namespace: molecular_function def: "Any activity that brings about termination of transcription by RNA polymerase I." [GOC:mah] exact_synonym: "Pol I transcription termination factor activity" [] is_a: GO:0003715 ! transcription termination factor activity [Term] id: GO:0003717 name: RNA polymerase II transcription termination factor activity namespace: molecular_function def: "Any activity that brings about termination of transcription by RNA polymerase II." [GOC:mah] exact_synonym: "Pol II transcription termination factor activity" [] is_a: GO:0003715 ! transcription termination factor activity [Term] id: GO:0003718 name: RNA polymerase III transcription termination factor activity namespace: molecular_function def: "Any activity that brings about termination of transcription by RNA polymerase III." [GOC:mah] exact_synonym: "Pol III transcription termination factor activity" [] is_a: GO:0003715 ! transcription termination factor activity [Term] id: GO:0003719 name: transcription factor binding, cytoplasmic sequestering namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because sequestering is a process rather than a function. To update annotations, use the biological process term 'cytoplasmic sequestering of transcription factor ; GO:0042994'. is_obsolete: true [Term] id: GO:0003720 name: telomerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Catalyzes extension of the 3'- end of a DNA strand by one deoxynucleotide at a time using an internal RNA template that encodes the telomeric repeat sequence." [GOC:krc] comment: Consider also annotating to the molecular function term 'telomeric DNA binding ; GO:0042162'. xref_analog: EC:2.7.7.- is_a: GO:0003964 ! RNA-directed DNA polymerase activity [Term] id: GO:0003721 name: telomeric template RNA reverse transcriptase activity namespace: molecular_function def: "Catalysis of the extension of the 3' end of a DNA strand by one deoxynucleotide at a time. Cannot initiate a chain de novo; uses the RNA subunit of the telomerase enzyme complex as its template." [EC:2.7.7.49, PMID:11812242] exact_synonym: "telomerase, catalyst" [] is_a: GO:0003720 ! telomerase activity [Term] id: GO:0003723 name: RNA binding namespace: molecular_function def: "Interacting selectively with an RNA molecule or a portion thereof." [GOC:mah] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0003676 ! nucleic acid binding [Term] id: GO:0003724 name: RNA helicase activity namespace: molecular_function def: "Catalysis of the unwinding of an RNA helix." [GOC:jl] comment: Consider also annotating to the molecular function term 'RNA binding ; GO:0003723'. subset: gosubset_prok xref_analog: EC:2.7.7.- xref_analog: Reactome:117603 xref_analog: Reactome:7008 xref_analog: Reactome:72645 is_a: GO:0004386 ! helicase activity [Term] id: GO:0003725 name: double-stranded RNA binding namespace: molecular_function def: "Interacting selectively with double-stranded RNA." [GOC:jl] subset: gosubset_prok is_a: GO:0003723 ! RNA binding [Term] id: GO:0003726 name: double-stranded RNA adenosine deaminase activity namespace: molecular_function subset: gosubset_prok xref_analog: Reactome:10576 xref_analog: Reactome:117831 xref_analog: Reactome:117834 xref_analog: Reactome:120456 xref_analog: Reactome:120459 xref_analog: Reactome:122789 xref_analog: Reactome:83526 xref_analog: Reactome:83527 is_a: GO:0003969 ! RNA editase activity is_a: GO:0004000 ! adenosine deaminase activity [Term] id: GO:0003727 name: single-stranded RNA binding namespace: molecular_function alt_id: GO:0003728 def: "Interacting selectively with single-stranded RNA." [GOC:jl] is_a: GO:0003723 ! RNA binding [Term] id: GO:0003729 name: mRNA binding namespace: molecular_function def: "Interacting selectively with pre-messenger RNA (pre-mRNA) or messenger RNA (mRNA)." [GOC:jl] subset: gosubset_prok is_a: GO:0003723 ! RNA binding [Term] id: GO:0003730 name: mRNA 3'-UTR binding namespace: molecular_function def: "Interacting selectively with the 3' untranslated region of an mRNA molecule." [GOC:mah] exact_synonym: "mRNA 3' UTR binding" [] is_a: GO:0003729 ! mRNA binding [Term] id: GO:0003731 name: mRNA cap binding namespace: molecular_function def: "OBSOLETE. Interacting selectively with the 7-methylguanosine cap at the 5' end of a nascent messenger RNA transcript." [GOC:mah] comment: This term was made obsolete because the functional distinction for cap binding is the structure of the cap, not the type of RNA it is attached to. To update annotations, consider the molecular function term 'RNA cap binding ; GO:0000339' and its children. is_obsolete: true [Term] id: GO:0003732 name: snRNA cap binding namespace: molecular_function def: "OBSOLETE. Interacting selectively with the cap structure at the 5' end of a small nuclear RNA molecule." [GOC:mah] comment: This term was made obsolete because the functional distinction for cap binding is the structure of the cap, not the type of RNA it is attached to. To update annotations, consider the molecular function term 'RNA cap binding ; GO:0000339' and its children. is_obsolete: true [Term] id: GO:0003733 name: ribonucleoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes a cellular component rather than a molecular function. To update annotations, use the cellular component term 'ribonucleoprotein complex ; GO:0030529'. is_obsolete: true [Term] id: GO:0003734 name: small nuclear ribonucleoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes a cellular component rather than a molecular function. To update annotations, use the cellular component term 'small nuclear ribonucleoprotein complex ; GO:0030532'. exact_synonym: "snRNP" [] is_obsolete: true [Term] id: GO:0003735 name: structural constituent of ribosome namespace: molecular_function alt_id: GO:0003736 alt_id: GO:0003737 alt_id: GO:0003738 alt_id: GO:0003739 alt_id: GO:0003740 alt_id: GO:0003741 alt_id: GO:0003742 def: "The action of a molecule that contributes to the structural integrity of the ribosome." [GOC:mah] comment: Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins. subset: gosubset_prok related_synonym: "ribosomal RNA" [] broad_synonym: "ribosomal protein" [] is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0003743 name: translation initiation factor activity namespace: molecular_function alt_id: GO:0003744 alt_id: GO:0003745 def: "Functions in the initiation of ribosome-mediated translation of mRNA into a polypeptide." [ISBN:0198506732] subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity, initiation" [] xref_analog: Reactome:10611 xref_analog: Reactome:118009 xref_analog: Reactome:120573 xref_analog: Reactome:122882 xref_analog: Reactome:124935 xref_analog: Reactome:72528 xref_analog: Reactome:72620 is_a: GO:0008135 ! translation factor activity, nucleic acid binding [Term] id: GO:0003746 name: translation elongation factor activity namespace: molecular_function alt_id: GO:0008182 alt_id: GO:0008183 def: "Functions in chain elongation during polypeptide synthesis at the ribosome." [ISBN:0198506732] subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity, elongation" [] is_a: GO:0008135 ! translation factor activity, nucleic acid binding [Term] id: GO:0003747 name: translation release factor activity namespace: molecular_function alt_id: GO:0003748 alt_id: GO:0003749 def: "Involved in catalyzing the release of a nascent polypeptide chain from a ribosome." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0008079 ! translation termination factor activity [Term] id: GO:0003750 name: cell cycle regulator namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it does not represent a single molecular function. To update annotations, use the biological process term 'regulation of progression through cell cycle ; GO:0000074'. is_obsolete: true [Term] id: GO:0003754 name: chaperone activity namespace: molecular_function alt_id: GO:0003757 alt_id: GO:0003758 alt_id: GO:0003760 alt_id: GO:0003761 def: "OBSOLETE. Assists in the correct non-covalent assembly of polypeptide-containing structures in vivo, but is not a component of these assembled structures when they are performing their normal biological function." [ISBN:0198547684] comment: This term was made obsolete because, as defined, it represents a class of gene products rather than a molecular function. The term string is also ambiguous, having connotations of involvement in transport processes. To update annotations, consider the molecular function term 'unfolded protein binding ; GO:0051082' and the biological process term 'protein folding ; GO:0006457' and its children. is_obsolete: true [Term] id: GO:0003755 name: peptidyl-prolyl cis-trans isomerase activity namespace: molecular_function alt_id: GO:0004752 def: "Catalysis of the reaction: peptidyl-proline (omega=180) = peptidyl-proline (omega=0)." [EC:5.2.1.8] subset: gosubset_prok related_synonym: "cyclophilin" [] related_synonym: "immunophilin" [] related_synonym: "parvulin" [] related_synonym: "peptidyl-prolyl isomerase B reaction" [] exact_synonym: "PPIase" [] exact_synonym: "rotamase" [] narrow_synonym: "cyclophilin-type peptidyl-prolyl cis-trans isomerase activity" [] narrow_synonym: "FK506-sensitive peptidyl-prolyl cis-trans isomerase" [] xref_analog: EC:5.2.1.8 xref_analog: MetaCyc:PEPTIDYLPROLYL-ISOMERASE-RXN is_a: GO:0016859 ! cis-trans isomerase activity [Term] id: GO:0003756 name: protein disulfide isomerase activity namespace: molecular_function def: "Catalysis of the rearrangement of both intrachain and interchain disulfide bonds in proteins." [EC:5.3.4.1] subset: gosubset_prok related_synonym: "protein cysteine-thiol oxidation" [] related_synonym: "protein disulfide-isomerase reaction" [] exact_synonym: "protein disulphide isomerase activity" [] xref_analog: EC:5.3.4.1 xref_analog: MetaCyc:5.3.4.1-RXN xref_analog: MetaCyc:DISULISOM-RXN is_a: GO:0016862 ! intramolecular oxidoreductase activity, interconverting keto- and enol-groups is_a: GO:0016864 ! intramolecular oxidoreductase activity, transposing S-S bonds [Term] id: GO:0003759 name: glycoprotein-specific chaperone activity namespace: molecular_function def: "OBSOLETE. Assists in the correct, non-covalent assembly of glycoproteins in vivo, but is not a component of the assembled structures when performing its normal biological function. Utilizes a lectin site as a means to associate with the unfolded glycoproteins." [GOC:jl, PMID:11337494] comment: This term was made obsolete because it represents a class of gene products and a biological process rather than a molecular function. To update annotations, consider the molecular function term 'unfolded protein binding ; GO:0051082' and the biological process term 'protein folding ; GO:0006457'. is_obsolete: true [Term] id: GO:0003762 name: histone-specific chaperone activity namespace: molecular_function def: "OBSOLETE. Assists in chromatin assembly by chaperoning histones on to replicating DNA, but is not a component of the assembled nucleosome when performing its normal biological function." [GOC:jl, PMID:7600578, PMID:9325046] comment: This term was made obsolete because it represents a class of gene products and a biological process rather than a molecular function. To update annotations, consider the molecular function terms 'unfolded protein binding ; GO:0051082' and 'histone binding ; GO:0042393', and the biological process terms 'chromatin assembly or disassembly ; GO:0006333' and 'nucleosome assembly ; GO:0006334'. exact_synonym: "nucleosome assembly chaperone" [] is_obsolete: true [Term] id: GO:0003763 name: chaperonin ATPase activity namespace: molecular_function alt_id: GO:0003764 alt_id: GO:0003765 alt_id: GO:0003766 def: "OBSOLETE. Catalysis of the reaction: ATP + H2O = ADP + phosphate. The hydrolysis of ATP involved in maintaining an unfolded polypeptide structure before folding or to entry into mitochondria and chloroplasts." [EC:3.6.4.9, ISBN:0198547684] comment: This term was made obsolete because it represents a class of gene products, and its definition incorporates process information. To update annotations, use the molecular function term 'ATPase activity, coupled ; GO:0042623', and consider the biological process term 'protein folding ; GO:0006457' or its children. exact_synonym: "chaperonin" [] is_obsolete: true [Term] id: GO:0003767 name: co-chaperone activity namespace: molecular_function alt_id: GO:0003768 alt_id: GO:0003769 alt_id: GO:0003770 alt_id: GO:0003771 def: "OBSOLETE. Co-chaperones are proteins that bind to chaperones and this complex then folds misfolded proteins. Co-chaperones by themselves do not possess chaperone activity." [GOC:rb] comment: This term was made obsolete because it represents a class of gene products rather than a molecular function. To update annotations, consider the molecular function term 'chaperone binding ; GO:0051087' and the biological process term 'protein folding ; GO:0006457' and its children. is_obsolete: true [Term] id: GO:0003772 name: co-chaperonin activity namespace: molecular_function def: "OBSOLETE. Co-chaperonins are proteins that bind to chaperones and this complex then folds misfolded proteins. Co-chaperonins by themselves do not possess chaperone activity." [GOC:rb] comment: This term was made obsolete because it represents a class of gene products rather than a molecular function. To update annotations, consider the molecular function term 'chaperone binding ; GO:0051087' and the biological process term 'protein folding ; GO:0006457' and its children. is_obsolete: true [Term] id: GO:0003773 name: heat shock protein activity namespace: molecular_function def: "OBSOLETE. Any of a group of specific proteins that are synthesized by both prokaryotic and eukaryotic cells after they have been exposed to a temperature that is higher than normal. Other stresses, e.g. free radical damage, have a similar effect. Many members of the hsp family are not induced but are present in all cells. They are characterized by their role as molecular chaperones." [ISBN:0198547684] comment: This term was made obsolete because it represents a class of gene products rather than a molecular function. To update annotations, consider the biological process terms 'response to unfolded protein ; GO:0006986' and 'protein refolding ; GO:0042026'. is_obsolete: true [Term] id: GO:0003774 name: motor activity namespace: molecular_function def: "Catalysis of movement along a polymeric molecule such as a microfilament or microtubule, coupled to the hydrolysis of a nucleoside triphosphate." [GOC:mah, ISBN:0815316194] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0003674 ! molecular_function [Term] id: GO:0003775 name: axonemal motor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it includes cellular component information. To update annotations, consider the molecular function term 'microtubule motor activity ; GO:0003777' and the cellular component term 'axoneme ; GO:0005930'. is_obsolete: true [Term] id: GO:0003776 name: muscle motor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it includes anatomy information. To update annotations, use the molecular function term 'microfilament motor activity ; GO:0000146' and consider the biological process term 'muscle contraction ; GO:0006936' and the cellular component term 'contractile fiber ; GO:0043292'. is_obsolete: true [Term] id: GO:0003777 name: microtubule motor activity namespace: molecular_function def: "Catalysis of movement along a microtubule, coupled to the hydrolysis of a nucleoside triphosphate (usually ATP)." [GOC:mah, ISBN:0815316194] comment: Consider also annotating to the molecular function term 'microtubule binding ; GO:0008017'. narrow_synonym: "axonemal motor activity" [] narrow_synonym: "dynein ATPase activity" [] narrow_synonym: "kinesin motor activity" [] narrow_synonym: "kinetochore motor activity" [] broad_synonym: "dynein" [] broad_synonym: "kinesin" [] is_a: GO:0003774 ! motor activity [Term] id: GO:0003778 name: dynactin motor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:hjd] comment: This term was made obsolete because the dynactin complex is not a motor as such, but does regulate the dynein motor complex. is_obsolete: true [Term] id: GO:0003779 name: actin binding namespace: molecular_function def: "Interacting selectively with monomeric or multimeric forms of actin, including actin filaments." [GOC:clt] subset: goslim_generic narrow_synonym: "membrane associated actin binding" [] is_a: GO:0008092 ! cytoskeletal protein binding [Term] id: GO:0003780 name: actin cross-linking activity namespace: molecular_function def: "OBSOLETE. Interacting selectively with two actin filaments to anchor them together." [GOC:jic] comment: This term was made obsolete because it represents a combination of molecular functions. To update annotations, use the molecular function terms 'actin filament binding ; GO:0051015' and 'protein binding, bridging ; GO:0030674'. is_obsolete: true [Term] id: GO:0003781 name: actin bundling activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a biological process. To update annotations, use the biological process term 'actin filament bundle formation ; GO:0051017'. is_obsolete: true [Term] id: GO:0003782 name: F-actin capping activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a biological process. To update annotations, use the biological process term 'barbed-end actin filament capping ; GO:0051016'. is_obsolete: true [Term] id: GO:0003783 name: barbed-end actin capping activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a biological process. To update annotations, use the biological process term 'barbed-end actin filament capping ; GO:0051016'. is_obsolete: true [Term] id: GO:0003784 name: barbed-end actin capping/severing activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes two biological processes. To update annotations, use the biological process terms 'barbed-end actin filament capping ; GO:0051016' and 'actin filament severing ; GO:0051014'. is_obsolete: true [Term] id: GO:0003785 name: actin monomer binding namespace: molecular_function def: "Interacting selectively with monomeric actin, also known as G-actin." [GOC:ai] exact_synonym: "G actin binding" [] is_a: GO:0003779 ! actin binding [Term] id: GO:0003786 name: actin lateral binding namespace: molecular_function def: "Interacting selectively with an actin filament along its length." [GOC:mah] is_a: GO:0051015 ! actin filament binding [Term] id: GO:0003787 name: actin depolymerizing activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a biological process. To update annotations, use the biological process term 'actin filament depolymerization ; GO:0030042'. is_obsolete: true [Term] id: GO:0003788 name: actin monomer sequestering activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because sequestering is a process, not an activity. To update annotations, use the biological process term 'sequestering of actin monomers ; GO:0042989'. is_obsolete: true [Term] id: GO:0003789 name: actin filament severing activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a biological process. To update annotations, use the biological process term 'actin filament severing ; GO:0051014'. is_obsolete: true [Term] id: GO:0003790 name: actin modulating activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not make sense. To update annotations, consider the biological process term 'actin cytoskeleton organization and biogenesis ; GO:0030036' and its children. is_obsolete: true [Term] id: GO:0003791 name: membrane associated actin binding namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'membrane ; GO:0016020' and the molecular function term 'actin binding ; GO:0003779'. is_obsolete: true [Term] id: GO:0003792 name: regulation of actin thin filament length activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because the concept belongs in the process ontology. To update annotations, use the biological process term 'regulation of actin filament length ; GO:0030832'. is_obsolete: true [Term] id: GO:0003793 name: defense/immunity protein activity namespace: molecular_function def: "OBSOLETE. Any activity that plays a role in the defense/immune response of an organism against infection and disease." [GOC:go_curators] comment: This term was made obsolete because it refers to involvement in a biological process. To update annotations, consider the biological process term 'defense response ; GO:0006952' and its children. exact_synonym: "defence/immunity protein activity" [] is_obsolete: true [Term] id: GO:0003794 name: acute-phase response protein activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to involvement in a biological process. To update annotations, consider the biological process term 'acute-phase response ; GO:0006953'. is_obsolete: true [Term] id: GO:0003795 name: antimicrobial peptide activity namespace: molecular_function def: "OBSOLETE. Inhibits the growth of, or directly kills, microbial cells." [GOC:go_curators] comment: This term was made obsolete because it describes involvement in a process and not a function. To update annotations, consider the biological process term 'defense response ; GO:0006952' and its children. is_obsolete: true [Term] id: GO:0003796 name: lysozyme activity namespace: molecular_function def: "Catalysis of the hydrolysis of the 1,4-beta-linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of the prokaryotes cell walls and between N-acetyl-D-glucosamine residues in chitodextrins." [EC:3.2.1.17] subset: gosubset_prok exact_synonym: "1,4-N-acetylmuramidase activity" [] exact_synonym: "mucopeptide glucohydrolase activity" [] exact_synonym: "mucopeptide N-acetylmuramoylhydrolase activity" [] exact_synonym: "muramidase activity" [] exact_synonym: "N,O-diacetylmuramidase activity" [] xref_analog: EC:3.2.1.17 xref_analog: MetaCyc:3.2.1.17-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0003797 name: antibacterial peptide activity namespace: molecular_function def: "OBSOLETE. Inhibits the growth of, or directly kills, bacterial cells." [GOC:go_curators] comment: This term was made obsolete because it describes involvement in a process and not a function. To update annotations, consider the biological process term 'defense response to bacteria ; GO:0042742' and its children. is_obsolete: true [Term] id: GO:0003798 name: male-specific antibacterial peptide activity namespace: molecular_function def: "OBSOLETE. Inhibits the growth of, or directly kills, bacterial cells, but which is only expressed in males." [GOC:go_curators] comment: This term was made obsolete because it describes involvement in a process and not a function. To update annotations, consider the biological process term 'male-specific defense response to bacteria ; GO:0050831' and its children. is_obsolete: true [Term] id: GO:0003799 name: antifungal peptide activity namespace: molecular_function def: "OBSOLETE. Inhibits the growth of, or directly kills, fungal cells." [GOC:go_curators] comment: This term was made obsolete because it describes involvement in a process and not a function. To update annotations, consider the biological process term 'defense response to fungi ; GO:0050832' and its children. is_obsolete: true [Term] id: GO:0003800 name: antiviral response protein activity namespace: molecular_function def: "OBSOLETE. A protein involved in an antiviral response." [GOC:ai] comment: This term was made obsolete because it refers to involvement in a biological process. To update annotations, consider the biological process term 'response to virus ; GO:0009615'. is_obsolete: true [Term] id: GO:0003801 name: blood coagulation factor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to involvement in a biological process. To update annotations, consider the molecular function term 'serine-type endopeptidase activity ; GO:0004252' and the biological process term 'blood coagulation ; GO:0007596'. is_obsolete: true [Term] id: GO:0003802 name: coagulation factor VIIa activity namespace: molecular_function def: "Catalysis of the selective cleavage of one Arg-Ile bond in factor X to form factor Xa, and on factor IX to form factor IXa beta." [EC:3.4.21.21, PMID:12496253] exact_synonym: "blood coagulation factor VII activity" [] xref_analog: EC:3.4.21.21 xref_analog: MetaCyc:3.4.21.21-RXN xref_analog: Reactome:11520 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003803 name: coagulation factor IXa activity namespace: molecular_function def: "Catalysis of the selective cleavage of the Arg-Ile bond in factor X to form factor Xa." [EC:3.4.21.22] exact_synonym: "blood coagulation factor IX activity" [] xref_analog: EC:3.4.21.22 xref_analog: MetaCyc:3.4.21.22-RXN xref_analog: Reactome:11522 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003804 name: coagulation factor Xa activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Arg-Thr and then Arg-Ile bonds in prothrombin to form thrombin, and on factor VII, which it converts to a two-chain form (factor VIIa)." [EC:3.4.21.6, GOC:jl, PMID:7354023] exact_synonym: "blood coagulation factor X activity" [] xref_analog: EC:3.4.21.6 xref_analog: MetaCyc:3.4.21.6-RXN xref_analog: Reactome:11523 is_a: GO:0004252 ! serine-type endopeptidase activity is_a: GO:0030567 ! prothrombin activator activity [Term] id: GO:0003805 name: coagulation factor XIa activity namespace: molecular_function def: "Catalysis of the selective cleavage of Arg-Ala and Arg-Val bonds in factor IX to form factor IXa." [EC:3.4.21.27] exact_synonym: "blood coagulation factor XI activity" [] xref_analog: EC:3.4.21.27 xref_analog: MetaCyc:3.4.21.27-RXN xref_analog: Reactome:11530 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003806 name: coagulation factor XIIa activity namespace: molecular_function def: "Catalysis of the selective cleavage of Arg-Ile bonds in factor VII to form factor VIIa and factor XI to form factor XIa." [EC:3.4.21.38] exact_synonym: "blood coagulation factor XII activity" [] xref_analog: EC:3.4.21.38 xref_analog: MetaCyc:3.4.21.38-RXN xref_analog: Reactome:11532 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003807 name: plasma kallikrein activity namespace: molecular_function def: "Catalysis of the selective cleavage of Arg-Xaa and Lys-Xaa bonds, including Lys-Arg and Arg-Ser bonds in (human) kininogen to release bradykinin." [EC:3.4.21.34] xref_analog: EC:3.4.21.34 xref_analog: MetaCyc:3.4.21.34-RXN xref_analog: Reactome:11535 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003808 name: protein C (activated) activity namespace: molecular_function def: "Catalysis of the degradation of blood coagulation factors Va and VIIIa." [EC:3.4.21.69] xref_analog: EC:3.4.21.69 xref_analog: MetaCyc:3.4.21.69-RXN xref_analog: Reactome:11537 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003809 name: thrombin activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Arg-Gly; activates fibrinogen to fibrin and releases fibrinopeptide A and B." [EC:3.4.21.5] xref_analog: EC:3.4.21.5 xref_analog: MetaCyc:3.4.21.5-RXN xref_analog: Reactome:11540 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003810 name: protein-glutamine gamma-glutamyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: protein glutamine + alkylamine = protein N5-alkylglutamine + NH3. This reaction is the formation of the N6-(L-isoglutamyl)-L-lysine isopeptide, resulting in cross-linking polypeptide chains; the gamma-carboxamide groups of peptidyl-glutamine residues act as acyl donors, and the 6-amino-groups of peptidyl-lysine residues act as acceptors, to give intra- and intermolecular N6-(5-glutamyl)lysine cross-links." [EC:2.3.2.13, RESID:AA0124] subset: gosubset_prok exact_synonym: "fibrinoligase activity" [] exact_synonym: "TGase activity" [] exact_synonym: "transglutaminase activity" [] xref_analog: EC:2.3.2.13 xref_analog: MetaCyc:2.3.2.13-RXN xref_analog: Reactome:11549 xref_analog: RESID:AA0124 is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0003811 name: complement activity namespace: molecular_function def: "OBSOLETE. Any of a set of activities involved in the complement cascade." [GOC:jl] comment: This term was made obsolete because it refers to involvement in a biological process. To update annotations, consider the biological process term 'complement activation ; GO:0006956' and its children. is_obsolete: true [Term] id: GO:0003812 name: alternative-complement-pathway C3/C5 convertase activity namespace: molecular_function def: "Catalysis of the cleavage of Arg-Ser bond in complement component C3 alpha-chain to yield C3a and C3b, and Arg bond in complement component C5 alpha-chain to yield C5a and C5b." [EC:3.4.21.47] exact_synonym: "proenzyme factor B" [] xref_analog: EC:3.4.21.47 xref_analog: MetaCyc:3.4.21.47-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003813 name: classical-complement-pathway C3/C5 convertase activity namespace: molecular_function def: "Catalysis of the selective cleavage of Arg-Ser bond in complement component C3 alpha-chain to form C3a and C3b, and Arg bond in complement component C5 alpha-chain to form C5a and C5b." [EC:3.4.21.43] xref_analog: EC:3.4.21.43 xref_analog: MetaCyc:3.4.21.43-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003815 name: complement component C1r activity namespace: molecular_function def: "Catalysis of the selective cleavage of Lys(or Arg)-Ile bond in complement subcomponent C1s to form the active form of C1s (EC:3.4.21.42)." [EC:3.4.21.41] xref_analog: EC:3.4.21.41 xref_analog: MetaCyc:3.4.21.41-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003816 name: complement component C1s activity namespace: molecular_function def: "Catalysis of the cleavage of component C4 to C4a and C4b (Arg-Ala bond), and component C2 to C2a and C2b (Lys-Lys or Arg-Lys bond)." [EC:3.4.21.42] xref_analog: EC:3.4.21.42 xref_analog: MetaCyc:3.4.21.42-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003817 name: complement factor D activity namespace: molecular_function def: "Catalysis of the cleavage of component factor B (Arg-Lys) when in complex with C3b or with cobra venom factor (CVF)." [EC:3.4.21.46] exact_synonym: "adipsin" [] xref_analog: EC:3.4.21.46 xref_analog: MetaCyc:3.4.21.46-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003818 name: complement factor I activity namespace: molecular_function def: "Catalysis of the inactivation of complement subcomponents C3b, iC3b and C4b by proteolytic cleavage." [EC:3.4.21.45] xref_analog: EC:3.4.21.45 xref_analog: MetaCyc:3.4.21.45-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0003819 name: major histocompatibility complex antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. exact_synonym: "MHC protein" [] is_obsolete: true [Term] id: GO:0003820 name: class I major histocompatibility complex antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. To update annotations, consider the molecular function term 'MHC class I receptor activity ; GO:0030106'. is_obsolete: true [Term] id: GO:0003821 name: class II major histocompatibility complex antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. To update annotations, consider the molecular function term 'MHC class II receptor activity ; GO:0045012'. is_obsolete: true [Term] id: GO:0003822 name: MHC-interacting protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. is_obsolete: true [Term] id: GO:0003823 name: antigen binding namespace: molecular_function def: "Interacting selectively with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen." [GOC:jl, ISBN:0198506732, ISBN:0721662544] related_synonym: "antibody" [] related_synonym: "B cell receptor activity" [] related_synonym: "immunoglobulin" [] related_synonym: "opsonin activity" [] is_a: GO:0005488 ! binding [Term] id: GO:0003824 name: catalytic activity namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [ISBN:0198506732] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok related_synonym: "enzyme activity" [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0003825 name: alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity namespace: molecular_function def: "Catalysis of the reaction: UDP-glucose + D-glucose 6-phosphate = UDP + alpha,alpha-trehalose 6-phosphate." [EC:2.4.1.15] subset: gosubset_prok exact_synonym: "transglucosylase activity" [] exact_synonym: "trehalose 6-phosphate synthase activity" [] exact_synonym: "trehalose 6-phosphate synthetase activity" [] exact_synonym: "trehalose-phosphate synthase activity" [] exact_synonym: "trehalose-phosphate synthetase activity" [] exact_synonym: "trehalosephosphate-UDP glucosyl transferase activity" [] exact_synonym: "trehalosephosphate-UDP glucosyltransferase activity" [] exact_synonym: "UDP-glucose-glucose-phosphate glucosyltransferase activity" [] exact_synonym: "UDP-glucose:D-glucose-6-phosphate 1-alpha-D-glucosyltransferase" [] xref_analog: EC:2.4.1.15 xref_analog: MetaCyc:TREHALOSE6PSYN-RXN is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] id: GO:0003826 name: alpha-ketoacid dehydrogenase activity namespace: molecular_function subset: gosubset_prok is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0003827 name: alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + alpha-D-mannosyl-1,3-(R1)-beta-D-mannosyl-R2 = UDP + N-acetyl-beta-D-glucosaminyl-1,2-alpha-D-mannosyl-1,3-(R1)-beta-D-mannosyl-R2." [EC:2.4.1.101] exact_synonym: "alpha-1,3-mannosylglycoprotein beta-1,2-N-acetylglucosaminyltransferase activity" [] xref_analog: EC:2.4.1.101 xref_analog: MetaCyc:2.4.1.101-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0003828 name: alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + alpha-N-acetylneuraminyl-2,3-beta-D-galactosyl-R = CMP + alpha-N-acetylneuraminyl-2,8-alpha-N-acetylneuraminyl-2,3-beta-D-galactosyl-R." [EC:2.4.99.8] exact_synonym: "alpha-N-acetylneuraminide alpha-2,8-sialyltransferase activity" [] xref_analog: EC:2.4.99.8 xref_analog: MetaCyc:2.4.99.8-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0003829 name: beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + beta-D-galactosyl-1,3-N-acetyl-D-galactosaminyl-R = UDP + beta-D-galactosyl-1,3-(N-acetyl-beta-D-glucosaminyl-1,6)-N-acetyl-D-galactosaminyl-R." [EC:2.4.1.102] xref_analog: EC:2.4.1.102 xref_analog: MetaCyc:2.4.1.102-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0003830 name: beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + beta-D-mannosyl-R = UDP + 4-(N-acetyl-beta-D-glucosaminyl)-beta-D-mannosyl-R." [EC:2.4.1.144] subset: gosubset_prok xref_analog: EC:2.4.1.144 xref_analog: MetaCyc:2.4.1.144-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0003831 name: beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-galactose + N-acetyl-beta-D-glucosaminylglycopeptide = UDP + beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosaminylglycopeptide." [EC:2.4.1.38] xref_analog: EC:2.4.1.38 xref_analog: MetaCyc:2.4.1.38-RXN is_a: GO:0035250 ! UDP-galactosyltransferase activity [Term] id: GO:0003832 name: beta-alanyl-dopamine hydrolase activity namespace: molecular_function def: "Catalysis of the conversion of beta-alanyl dopamine to dopamine (3,4-dihydroxyphenylethylamine)." [GOC:bf, ISBN:0198506732, PMID:12957543] exact_synonym: "N-beta-alanyl-dopamine hydrolase activity" [] exact_synonym: "NBAD hydrolase" [] is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0003833 name: beta-alanyl-dopamine synthase activity namespace: molecular_function def: "Catalysis of the synthesis of beta-alanyl-dopamine from the precursor dopamine (3,4-dihydroxyphenylethylamine)." [GOC:bf, ISBN:0198506732, PMID:12957543] exact_synonym: "N-beta-alanyl dopamine synthetase activity" [] exact_synonym: "NBAD transferase activity" [] is_a: GO:0016874 ! ligase activity [Term] id: GO:0003834 name: beta-carotene 15,15'-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: beta-carotene + O2 = 2 retinal." [EC:1.14.99.36] comment: Note that this function was formerly EC:1.13.11.21. exact_synonym: "beta-carotene 15,15'-dioxygenase activity" [] xref_analog: EC:1.14.99.36 xref_analog: MetaCyc:BETA-CAROTENE-15,15'-DIOXYGENASE-RXN is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0003835 name: beta-galactoside alpha-2,6-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + beta-D-galactosyl-1,4-acetyl-beta-D-glucosamine = CMP + alpha-N-acetylneuraminyl-2,6-beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosamine." [EC:2.4.99.1] exact_synonym: "beta-galactosamide alpha-2,6-sialyltransferase activity" [] xref_analog: EC:2.4.99.1 xref_analog: MetaCyc:2.4.99.1-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0003836 name: beta-galactoside alpha-2,3-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + beta-D-galactosyl-1,3-N-acetyl-alpha-D-galactosaminyl-R = CMP + alpha-N-acetylneuraminyl-2,3-beta-D-galactosyl-1,3-N-acetyl-alpha-D-galactosaminyl-R." [EC:2.4.99.4] xref_analog: EC:2.4.99.4 xref_analog: MetaCyc:2.4.99.4-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0003837 name: beta-ureidopropionase activity namespace: molecular_function def: "Catalysis of the reaction: N-carbamoyl-beta-alanine + H2O = beta-alanine + CO2 + NH3." [EC:3.5.1.6] subset: gosubset_prok xref_analog: EC:3.5.1.6 xref_analog: MetaCyc:BETA-UREIDOPROPIONASE-RXN xref_analog: Reactome:115065 xref_analog: Reactome:11609 xref_analog: Reactome:117529 xref_analog: Reactome:120212 xref_analog: Reactome:122606 xref_analog: Reactome:124663 xref_analog: Reactome:73466 is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0003838 name: sterol 24-C-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + 5-alpha-cholest-8,24-dien-3-beta-ol = S-adenosyl-L-homocysteine + 24-methylene-5-alpha-cholest-8-en-3-beta-ol." [EC:2.1.1.41] subset: gosubset_prok exact_synonym: "delta(24)-sterol C-methyltransferase activity" [] xref_analog: EC:2.1.1.41 xref_analog: MetaCyc:RXN3O-178 is_a: GO:0008169 ! C-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0003839 name: gamma-glutamylcyclotransferase activity namespace: molecular_function def: "Catalysis of the reaction: (5-L-glutamyl)-L-amino acid = 5-oxoproline + L-amino acid." [EC:2.3.2.4] xref_analog: EC:2.3.2.4 xref_analog: MetaCyc:GAMMA-GLUTAMYLCYCLOTRANSFERASE-RXN is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0003840 name: gamma-glutamyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: (5-L-glutamyl)-peptide + an amino acid = peptide + 5-L-glutamyl-amino acid." [EC:2.3.2.2] subset: gosubset_prok xref_analog: EC:2.3.2.2 xref_analog: MetaCyc:GAMMA-GLUTAMYLTRANSFERASE-RXN is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0003841 name: 1-acylglycerol-3-phosphate O-acyltransferase activity namespace: molecular_function alt_id: GO:0004469 def: "Catalysis of the reaction: acyl-CoA + 1-acyl-sn-glycerol 3-phosphate = CoA + 1,2-diacyl-sn-glycerol 3-phosphate." [EC:2.3.1.51] subset: gosubset_prok exact_synonym: "1-acyl-sn-glycerol-3-phosphate acyltransferase activity" [] exact_synonym: "lysophosphatidate acyltransferase activity" [] xref_analog: EC:2.3.1.51 xref_analog: MetaCyc:RXN-1623 is_a: GO:0016411 ! acylglycerol O-acyltransferase activity [Term] id: GO:0003842 name: 1-pyrroline-5-carboxylate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 1-pyrroline-5-carboxylate + NAD+ + H2O = L-glutamate + NADH + H+." [EC:1.5.1.12] subset: gosubset_prok xref_analog: EC:1.5.1.12 xref_analog: MetaCyc:PYRROLINECARBDEHYDROG-RXN xref_analog: Reactome:115752 xref_analog: Reactome:11630 xref_analog: Reactome:118370 xref_analog: Reactome:123162 xref_analog: Reactome:125228 xref_analog: Reactome:70678 is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0003843 name: 1,3-beta-glucan synthase activity namespace: molecular_function alt_id: GO:0009981 def: "Catalysis of the reaction: UDP-glucose + 1,3-beta-D-glucosyl(n) = UDP + 1,3-beta-D-glucosyl(n+1)." [EC:2.4.1.34] exact_synonym: "callose synthase activity" [] xref_analog: EC:2.4.1.34 xref_analog: MetaCyc:1,3-BETA-GLUCAN-SYNTHASE-RXN is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] id: GO:0003844 name: 1,4-alpha-glucan branching enzyme activity namespace: molecular_function def: "Catalysis of the transfer of a segment of a 1,4-a-D-glucan chain to a primary hydroxyl group in a similar glucan chain." [EC:2.4.1.18] subset: gosubset_prok exact_synonym: "glycogen branching enzyme" [] xref_analog: EC:2.4.1.18 xref_analog: MetaCyc:GLYCOGEN-BRANCH-RXN xref_analog: Reactome:11632 xref_analog: Reactome:121282 xref_analog: Reactome:123368 xref_analog: Reactome:125486 xref_analog: Reactome:71577 is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0003845 name: 11-beta-hydroxysteroid dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: an 11-beta-hydroxysteroid + NADP+ = an 11-oxosteroid + NADPH + H+." [EC:1.1.1.146] subset: gosubset_prok xref_analog: EC:1.1.1.146 xref_analog: MetaCyc:11-BETA-HYDROXYSTEROID-DEHYDROGENASE-RXN is_a: GO:0016229 ! steroid dehydrogenase activity [Term] id: GO:0003846 name: 2-acylglycerol O-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + 2-acylglycerol = CoA + diacylglycerol." [EC:2.3.1.22] xref_analog: EC:2.3.1.22 xref_analog: MetaCyc:2-ACYLGLYCEROL-O-ACYLTRANSFERASE-RXN is_a: GO:0016411 ! acylglycerol O-acyltransferase activity [Term] id: GO:0003847 name: 1-alkyl-2-acetylglycerophosphocholine esterase activity namespace: molecular_function def: "Catalysis of the reaction: 2-acetyl-1-alkyl-sn-glycero-3-phosphocholine + H2O = 1-alkyl-sn-glycero-3-phosphocholine + acetate." [EC:3.1.1.47] subset: gosubset_prok exact_synonym: "2-acetyl-1-alkylglycerophosphocholine esterase activity" [] xref_analog: EC:3.1.1.47 xref_analog: MetaCyc:3.1.1.47-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0003848 name: 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine = AMP + 2-amino-7,8-dihydro-4-hydroxy-6-(diphosphooxymethyl)pteridine." [EC:2.7.6.3] subset: gosubset_prok exact_synonym: "2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase activity" [] xref_analog: EC:2.7.6.3 xref_analog: MetaCyc:H2PTERIDINEPYROPHOSPHOKIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016778 ! diphosphotransferase activity [Term] id: GO:0003849 name: 3-deoxy-7-phosphoheptulonate synthase activity namespace: molecular_function def: "Catalysis of the reaction: phosphoenolpyruvate + D-erythrose 4-phosphate + H2O = 2-dehydro-3-deoxy-D-arabino-heptonate 7-phosphate + phosphate." [EC:2.5.1.54] comment: Note that this function was formerly EC:4.1.2.15. subset: gosubset_prok exact_synonym: "2-dehydro-3-deoxyphosphoheptonate aldolase activity" [] xref_analog: EC:2.5.1.54 xref_analog: MetaCyc:DAHPSYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0003850 name: 2-deoxyglucose-6-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 2-deoxy-D-glucose 6-phosphate + H2O = 2-deoxy-D-glucose + phosphate." [EC:3.1.3.68] xref_analog: EC:3.1.3.68 xref_analog: MetaCyc:3.1.3.68-RXN is_a: GO:0019203 ! carbohydrate phosphatase activity [Term] id: GO:0003851 name: 2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-galactose + 2-(2-hydroxyacyl)sphingosine = UDP + 1-(beta-D-galactosyl)-2-(2-hydroxyacyl)sphingosine." [EC:2.4.1.45] xref_analog: EC:2.4.1.45 xref_analog: MetaCyc:2.4.1.45-RXN is_a: GO:0035250 ! UDP-galactosyltransferase activity [Term] id: GO:0003852 name: 2-isopropylmalate synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + 3-methyl-2-oxobutanoate + H2O = (2S)-2-isopropylmalate + CoA." [EC:2.3.3.13] comment: Note that this function was formerly EC:4.1.3.12. subset: gosubset_prok xref_analog: EC:2.3.3.13 xref_analog: MetaCyc:2-ISOPROPYLMALATESYN-RXN is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0003853 name: 2-methylacyl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 2-methylbutanoyl-CoA + acceptor = 2-methylbut-2-enoyl-CoA + reduced acceptor." [EC:1.3.99.12] xref_analog: EC:1.3.99.12 xref_analog: MetaCyc:2-METHYLACYL-COA-DEHYDROGENASE-RXN is_a: GO:0003995 ! acyl-CoA dehydrogenase activity [Term] id: GO:0003854 name: 3-beta-hydroxy-delta5-steroid dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-beta-hydroxy-delta(5)-steroid + NAD+ = 3-oxo-delta(5)-steroid + NADH + H+." [EC:1.1.1.145] subset: gosubset_prok exact_synonym: "3-beta-hydroxy-D5-steroid dehydrogenase activity" [] xref_analog: EC:1.1.1.145 xref_analog: MetaCyc:1.1.1.145-RXN is_a: GO:0016229 ! steroid dehydrogenase activity [Term] id: GO:0003855 name: 3-dehydroquinate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: 3-dehydroquinate = 3-dehydroshikimate + H2O." [EC:4.2.1.10] subset: gosubset_prok xref_analog: EC:4.2.1.10 xref_analog: MetaCyc:3-DEHYDROQUINATE-DEHYDRATASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0003856 name: 3-dehydroquinate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 3-deoxy-arabino-heptulosonate 7-phosphate = 3-dehydroquinate + phosphate." [EC:4.2.3.4] subset: gosubset_prok xref_analog: EC:4.2.3.4 xref_analog: MetaCyc:3-DEHYDROQUINATE-SYNTHASE-RXN is_a: GO:0016838 ! carbon-oxygen lyase activity, acting on phosphates [Term] id: GO:0003857 name: 3-hydroxyacyl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-3-hydroxyacyl-CoA + NAD+ = 3-oxoacyl-CoA + NADH + H+." [EC:1.1.1.35] subset: gosubset_prok xref_analog: EC:1.1.1.35 xref_analog: MetaCyc:OHACYL-COA-DEHYDROG-RXN xref_analog: Reactome:114276 xref_analog: Reactome:114848 xref_analog: Reactome:11645 xref_analog: Reactome:116635 xref_analog: Reactome:116642 xref_analog: Reactome:117290 xref_analog: Reactome:119363 xref_analog: Reactome:119370 xref_analog: Reactome:120007 xref_analog: Reactome:121901 xref_analog: Reactome:122430 xref_analog: Reactome:123909 xref_analog: Reactome:123916 xref_analog: Reactome:70835 xref_analog: Reactome:71061 xref_analog: Reactome:77282 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003858 name: 3-hydroxybutyrate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-3-hydroxybutanoate + NAD+ = acetoacetate + NADH + H+." [EC:1.1.1.30] subset: gosubset_prok xref_analog: EC:1.1.1.30 xref_analog: MetaCyc:3-HYDROXYBUTYRATE-DEHYDROGENASE-RXN xref_analog: Reactome:11646 xref_analog: Reactome:117764 xref_analog: Reactome:120409 xref_analog: Reactome:124820 xref_analog: Reactome:74155 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003859 name: 3-hydroxybutyryl-CoA dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: (3R)-3-hydroxybutanoyl-CoA = crotonoyl-CoA + H2O." [EC:4.2.1.55] subset: gosubset_prok xref_analog: EC:4.2.1.55 xref_analog: MetaCyc:3-HYDROXBUTYRYL-COA-DEHYDRATASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0003860 name: 3-hydroxyisobutyryl-CoA hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: 3-hydroxy-2-methylpropanoyl-CoA + H2O = CoA + 3-hydroxy-2-methylpropanoate." [EC:3.1.2.4] subset: gosubset_prok xref_analog: EC:3.1.2.4 xref_analog: MetaCyc:3-HYDROXYISOBUTYRYL-COA-HYDROLASE-RXN xref_analog: Reactome:11660 xref_analog: Reactome:70880 is_a: GO:0016289 ! CoA hydrolase activity [Term] id: GO:0003861 name: 3-isopropylmalate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: 3-isopropylmalate = 2-isopropylmaleate + H2O." [EC:4.2.1.33] subset: gosubset_prok xref_analog: EC:4.2.1.33 xref_analog: MetaCyc:3-ISOPROPYLMALISOM-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0003862 name: 3-isopropylmalate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-carboxy-2-hydroxy-4-methylpentanoate + NAD+ = 3-carboxy-4-methyl-2-oxopentanoate + NADH + H+." [EC:1.1.1.85] subset: gosubset_prok xref_analog: EC:1.1.1.85 xref_analog: MetaCyc:3-ISOPROPYLMALDEHYDROG-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003863 name: 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity namespace: molecular_function def: "Catalysis of the reaction: 3-methyl-2-oxobutanoate + lipoamide = S-(2-methylpropanoyl)dihydrolipoamide + CO2." [EC:1.2.4.4] subset: gosubset_prok exact_synonym: "3-methyl-2-oxobutanoate dehydrogenase (lipoamide) activity" [] xref_analog: EC:1.2.4.4 xref_analog: MetaCyc:1.2.4.4-RXN xref_analog: Reactome:11663 xref_analog: Reactome:117274 xref_analog: Reactome:119991 xref_analog: Reactome:70029 is_a: GO:0016624 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor [Term] id: GO:0003864 name: 3-methyl-2-oxobutanoate hydroxymethyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + 3-methyl-2-oxobutanoate = tetrahydrofolate + 2-dehydropantoate." [EC:2.1.2.11] subset: gosubset_prok xref_analog: EC:2.1.2.11 xref_analog: MetaCyc:3-CH3-2-OXOBUTANOATE-OH-CH3-XFER-RXN is_a: GO:0016742 ! hydroxymethyl-, formyl- and related transferase activity [Term] id: GO:0003865 name: 3-oxo-5-alpha-steroid 4-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: a 3-oxo-5-alpha-steroid + acceptor = a 3-oxo-delta(4)-steroid + reduced acceptor." [EC:1.3.99.5] exact_synonym: "steroid 5 alpha reductase" [] xref_analog: EC:1.3.99.5 xref_analog: MetaCyc:1.3.99.5-RXN is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0003866 name: 3-phosphoshikimate 1-carboxyvinyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: phosphoenolpyruvate + 3-phosphoshikimate = phosphate + 5-O-(1-carboxyvinyl)-3-phosphoshikimate." [EC:2.5.1.19] subset: gosubset_prok xref_analog: EC:2.5.1.19 xref_analog: MetaCyc:2.5.1.19-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0003867 name: 4-aminobutyrate transaminase activity namespace: molecular_function def: "Catalysis of the reaction: 4-aminobutanoate + 2-oxoglutarate = succinate semialdehyde + L-glutamate." [EC:2.6.1.19] subset: gosubset_prok exact_synonym: "4-aminobutanoate transaminase activity" [] exact_synonym: "4-aminobutyrate aminotransferase activity" [] exact_synonym: "GABA transaminase activity" [] exact_synonym: "gamma-aminobutyric acid transaminase activity" [] xref_analog: EC:2.6.1.19 xref_analog: MetaCyc:GABATRANSAM-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0003868 name: 4-hydroxyphenylpyruvate dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: 4-hydroxyphenylpyruvate + O2 = homogentisate + CO2." [EC:1.13.11.27] subset: gosubset_prok xref_analog: EC:1.13.11.27 xref_analog: MetaCyc:4-HYDROXYPHENYLPYRUVATE-DIOXYGENASE-RXN xref_analog: Reactome:115897 xref_analog: Reactome:11670 xref_analog: Reactome:118526 xref_analog: Reactome:121135 xref_analog: Reactome:123261 xref_analog: Reactome:125375 xref_analog: Reactome:71162 xref_analog: UM-BBD_enzymeID:e0126 is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0003869 name: 4-nitrophenylphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 4-nitrophenyl phosphate + H2O = 4-nitrophenol + phosphate." [EC:3.1.3.41] subset: gosubset_prok xref_analog: EC:3.1.3.41 xref_analog: MetaCyc:4-NITROPHENYLPHOSPHATASE-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0003870 name: 5-aminolevulinate synthase activity namespace: molecular_function def: "Catalysis of the reaction: succinyl-CoA + glycine = 5-aminolevulinate + CoA + CO2." [EC:2.3.1.37] subset: gosubset_prok xref_analog: EC:2.3.1.37 xref_analog: MetaCyc:5-AMINOLEVULINIC-ACID-SYNTHASE-RXN is_a: GO:0016749 ! N-succinyltransferase activity [Term] id: GO:0003871 name: 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 5-methyltetrahydropteroyltri-L-glutamate + L-homocysteine = tetrahydropteroyltri-L-glutamate + L-methionine." [EC:2.1.1.14] subset: gosubset_prok xref_analog: EC:2.1.1.14 xref_analog: MetaCyc:HOMOCYSMET-RXN is_a: GO:0008172 ! S-methyltransferase activity is_a: GO:0042085 ! 5-methyltetrahydropteroyltri-L-glutamate-dependent methyltransferase activity [Term] id: GO:0003872 name: 6-phosphofructokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-fructose 6-phosphate = ADP + D-fructose 1,6-bisphosphate." [EC:2.7.1.11] subset: gosubset_prok exact_synonym: "6-phosphofructokinase reduction" [] xref_analog: EC:2.7.1.11 xref_analog: MetaCyc:6PFRUCTPHOS-RXN xref_analog: Reactome:114974 xref_analog: Reactome:114981 xref_analog: Reactome:114984 xref_analog: Reactome:114987 xref_analog: Reactome:114990 xref_analog: Reactome:114993 xref_analog: Reactome:114998 xref_analog: Reactome:11692 xref_analog: Reactome:117438 xref_analog: Reactome:117445 xref_analog: Reactome:117448 xref_analog: Reactome:117451 xref_analog: Reactome:117454 xref_analog: Reactome:117457 xref_analog: Reactome:117462 xref_analog: Reactome:120126 xref_analog: Reactome:120133 xref_analog: Reactome:120136 xref_analog: Reactome:120139 xref_analog: Reactome:120142 xref_analog: Reactome:120145 xref_analog: Reactome:120150 xref_analog: Reactome:122543 xref_analog: Reactome:122548 xref_analog: Reactome:122553 xref_analog: Reactome:124607 xref_analog: Reactome:124612 xref_analog: Reactome:124617 xref_analog: Reactome:70462 xref_analog: Reactome:70464 xref_analog: Reactome:70466 xref_analog: Reactome:71454 xref_analog: Reactome:71476 xref_analog: Reactome:71484 xref_analog: Reactome:71796 is_a: GO:0008443 ! phosphofructokinase activity [Term] id: GO:0003873 name: 6-phosphofructo-2-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate." [EC:2.7.1.105] xref_analog: EC:2.7.1.105 xref_analog: MetaCyc:6-PHOSPHOFRUCTO-2-KINASE-RXN xref_analog: Reactome:115003 xref_analog: Reactome:115008 xref_analog: Reactome:115013 xref_analog: Reactome:11695 xref_analog: Reactome:117467 xref_analog: Reactome:117472 xref_analog: Reactome:117477 xref_analog: Reactome:120155 xref_analog: Reactome:120160 xref_analog: Reactome:120165 xref_analog: Reactome:122558 xref_analog: Reactome:122563 xref_analog: Reactome:122568 xref_analog: Reactome:124622 xref_analog: Reactome:124627 xref_analog: Reactome:71787 xref_analog: Reactome:71792 xref_analog: Reactome:71800 is_a: GO:0008443 ! phosphofructokinase activity [Term] id: GO:0003874 name: 6-pyruvoyltetrahydropterin synthase activity namespace: molecular_function def: "Catalysis of the reaction: 6-[(1S,2R)-1,2-dihydroxy-3-triphosphooxypropyl]-7,8-dihydropterin = 6-pyruvoyl-5,6,7,8-tetrahydropterin + triphosphate." [EC:4.2.3.12] subset: gosubset_prok xref_analog: EC:4.2.3.12 xref_analog: MetaCyc:4.2.3.12-RXN is_a: GO:0016838 ! carbon-oxygen lyase activity, acting on phosphates [Term] id: GO:0003875 name: ADP-ribosylarginine hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: N2-(ADP-D-ribosyl)-L-arginine + H2O = L-arginine + ADP-ribose." [EC:3.2.2.19] subset: gosubset_prok exact_synonym: "ADPribosylarginine hydrolase activity" [] xref_analog: EC:3.2.2.19 xref_analog: MetaCyc:ADP-RIBOSYLARGININE-HYDROLASE-RXN is_a: GO:0016799 ! hydrolase activity, hydrolyzing N-glycosyl compounds [Term] id: GO:0003876 name: AMP deaminase activity namespace: molecular_function def: "Catalysis of the reaction: AMP + H2O = IMP + NH3." [EC:3.5.4.6] exact_synonym: "adenylate deaminase reaction" [] xref_analog: EC:3.5.4.6 xref_analog: MetaCyc:AMP-DEAMINASE-RXN xref_analog: Reactome:114750 xref_analog: Reactome:114755 xref_analog: Reactome:114760 xref_analog: Reactome:117175 xref_analog: Reactome:117180 xref_analog: Reactome:117185 xref_analog: Reactome:119900 xref_analog: Reactome:119905 xref_analog: Reactome:119910 xref_analog: Reactome:122343 xref_analog: Reactome:122348 xref_analog: Reactome:122353 xref_analog: Reactome:124390 xref_analog: Reactome:76587 xref_analog: Reactome:76596 xref_analog: Reactome:76602 is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0003877 name: ATP adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ADP + ATP = phosphate + P(1),P(4)-bis(5'-adenosyl)tetraphosphate." [EC:2.7.7.53] subset: gosubset_prok exact_synonym: "ADP:ATP adenylyltransferase" [] xref_analog: EC:2.7.7.53 xref_analog: MetaCyc:ATP-ADENYLYLTRANSFERASE-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003878 name: ATP citrate synthase activity namespace: molecular_function alt_id: GO:0046913 def: "Catalysis of the reaction: ADP + phosphate + acetyl-CoA + oxaloacetate = ATP + citrate + CoA." [EC:2.3.3.8] comment: Note that this function was formerly EC:4.1.3.8. exact_synonym: "ATP-citrate (pro-S)-lyase activity" [] xref_analog: EC:2.3.3.8 xref_analog: MetaCyc:ATP-CITRATE-(PRO-S-)-LYASE-RXN is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0003879 name: ATP phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 1-(5-phospho-D-ribosyl)-ATP + diphosphate = ATP + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.17] subset: gosubset_prok xref_analog: EC:2.4.2.17 xref_analog: MetaCyc:ATPPHOSPHORIBOSYLTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0003880 name: C-terminal protein carboxyl methyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a methyl group to the carbon atom of the C-terminal residue of a protein." [PMID:8428937] subset: gosubset_prok xref_analog: EC:2.1.1.- is_a: GO:0008276 ! protein methyltransferase activity [Term] id: GO:0003881 name: CDP-diacylglycerol-inositol 3-phosphatidyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CDP-diacylglycerol + myo-inositol = CMP + phosphatidyl-1D-myo-inositol." [EC:2.7.8.11] subset: gosubset_prok exact_synonym: "phosphatidylinositol synthase activity" [] xref_analog: EC:2.7.8.11 xref_analog: MetaCyc:2.7.8.11-RXN is_a: GO:0017169 ! CDP-alcohol phosphatidyltransferase activity [Term] id: GO:0003882 name: CDP-diacylglycerol-serine O-phosphatidyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CDP-diacylglycerol + L-serine = CMP + O-sn-phosphatidyl-L-serine." [EC:2.7.8.8] subset: gosubset_prok exact_synonym: "phosphatidylserine synthase" [] broad_synonym: "serine exchange enzyme" [] xref_analog: EC:2.7.8.8 xref_analog: MetaCyc:PHOSPHASERSYN-RXN is_a: GO:0017169 ! CDP-alcohol phosphatidyltransferase activity [Term] id: GO:0003883 name: CTP synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + UTP + NH3 = ADP + phosphate + CTP." [EC:6.3.4.2] subset: gosubset_prok xref_analog: EC:6.3.4.2 xref_analog: MetaCyc:CTPSYN-RXN xref_analog: Reactome:116226 xref_analog: Reactome:11718 xref_analog: Reactome:118918 xref_analog: Reactome:121504 xref_analog: Reactome:123541 xref_analog: Reactome:125675 xref_analog: Reactome:73537 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0003884 name: D-amino-acid oxidase activity namespace: molecular_function def: "Catalysis of the reaction: a D-amino acid + H2O + O2 = a 2-oxo acid + NH3 + H2O2." [EC:1.4.3.3] subset: gosubset_prok xref_analog: EC:1.4.3.3 xref_analog: MetaCyc:D-AMINO-ACID-OXIDASE-RXN is_a: GO:0016641 ! oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor [Term] id: GO:0003885 name: D-arabinono-1,4-lactone oxidase activity namespace: molecular_function def: "Catalysis of the reaction: D-arabinono-1,4-lactone + O2 = D-erythro-ascorbate + H2O2." [EC:1.1.3.37] subset: gosubset_prok xref_analog: EC:1.1.3.37 xref_analog: MetaCyc:1.1.3.37-RXN is_a: GO:0016899 ! oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor [Term] id: GO:0003886 name: DNA (cytosine-5-)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + DNA containing cytosine = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine." [EC:2.1.1.37] comment: Note that the enzyme DNA (cytosine-5-)-methyltransferase also has the activity represented by the molecular function term 'site-specific DNA-methyltransferase (cytosine-specific) activity ; GO:0008326'. subset: gosubset_prok xref_analog: EC:2.1.1.37 xref_analog: MetaCyc:DNA-(CYTOSINE-5-)-METHYLTRANSFERASE-RXN is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity is_a: GO:0009008 ! DNA-methyltransferase activity [Term] id: GO:0003887 name: DNA-directed DNA polymerase activity namespace: molecular_function alt_id: GO:0003888 def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); the synthesis of DNA from deoxyribonucleotide triphosphates in the presence of a DNA template or primer." [EC:2.7.7.7, ISBN:0198547684] subset: gosubset_prok xref_analog: EC:2.7.7.7 xref_analog: MetaCyc:DNA-DIRECTED-DNA-POLYMERASE-RXN xref_analog: Reactome:110309 xref_analog: Reactome:110323 xref_analog: Reactome:110367 xref_analog: Reactome:111299 xref_analog: Reactome:115422 xref_analog: Reactome:116091 xref_analog: Reactome:11722 xref_analog: Reactome:117978 xref_analog: Reactome:118740 xref_analog: Reactome:121367 xref_analog: Reactome:68480 xref_analog: Reactome:68484 xref_analog: Reactome:68508 xref_analog: Reactome:69799 is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003889 name: alpha DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). A DNA polymerase that functions during the priming of DNA replication." [EC:2.7.7.7, PMID:11205330] is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003890 name: beta DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)." [EC:2.7.7.7] xref_analog: Reactome:110377 xref_analog: Reactome:116034 xref_analog: Reactome:11738 xref_analog: Reactome:118659 xref_analog: Reactome:121278 xref_analog: Reactome:123364 xref_analog: Reactome:125543 is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003891 name: delta DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). A DNA polymerase function with both polymerase and 3'-exonuclease activities; functions in DNA replication, mismatch repair and excision repair." [EC:2.7.7.7, ISBN:0198547684, PMID:11205330] xref_analog: Reactome:114267 xref_analog: Reactome:116626 xref_analog: Reactome:69114 xref_analog: Reactome:69115 is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003892 name: proliferating cell nuclear antigen namespace: molecular_function alt_id: GO:0005661 def: "OBSOLETE. A nuclear protein that associates as a trimer and then interacts with delta DNA polymerase and epsilon DNA polymerase, acting as an auxiliary factor for DNA replication and DNA repair." [ISBN:0123668387] comment: This term was made obsolete because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. exact_synonym: "PCNA" [] is_obsolete: true [Term] id: GO:0003893 name: epsilon DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Cannot initiate a chain de novo. Requires a primer, which may be DNA or RNA." [EC:2.7.7.7] is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003894 name: zeta DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). A DNA-directed DNA polymerase that functions during replication, to promote the extension of forks whose progression is stopped for any reason; a non-processive enzyme with no 3'-5' exonuclease activity; possesses deoxycytidyl transferase activity, incorporating deoxycytidyl opposite abasic sites. Functions during DNA repair and mutagenesis. Composed of two subunits." [EC:2.7.7.7, PMID:11205328, PMID:9745046] is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003895 name: gamma DNA-directed DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). The DNA-directed DNA polymerase responsible for the replication of mitochondrial DNA." [EC:2.7.7.7, GOC:ma] is_a: GO:0003887 ! DNA-directed DNA polymerase activity [Term] id: GO:0003896 name: DNA primase activity namespace: molecular_function alt_id: GO:0003897 alt_id: GO:0003898 def: "Catalysis of the synthesis of short RNA primers for the Okazaki fragments on both DNA template strands at the replication fork. A DNA-directed RNA polymerase that forms a complex with alpha DNA polymerase." [ISBN:0198547684] subset: gosubset_prok xref_analog: EC:2.7.7.- is_a: GO:0003899 ! DNA-directed RNA polymerase activity [Term] id: GO:0003899 name: DNA-directed RNA polymerase activity namespace: molecular_function alt_id: GO:0000129 def: "Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'." [EC:2.7.7.6] subset: gosubset_prok narrow_synonym: "DNA-directed RNA polymerase I activity" [] narrow_synonym: "DNA-directed RNA polymerase II activity" [] narrow_synonym: "DNA-directed RNA polymerase III activity" [] xref_analog: EC:2.7.7.6 xref_analog: MetaCyc:DNA-DIRECTED-RNA-POLYMERASE-RXN xref_analog: Reactome:109910 xref_analog: Reactome:11745 xref_analog: Reactome:68509 xref_analog: Reactome:83751 is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003900 name: DNA-directed RNA polymerase I activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)." [EC:2.7.7.6] comment: This term was made obsolete because it represents the specific complex represented by the cellular component term 'DNA-directed RNA polymerase I complex ; GO:0005736'. To update annotations, use the molecular function term 'DNA-directed RNA polymerase activity ; GO:0003899'. is_obsolete: true [Term] id: GO:0003901 name: DNA-directed RNA polymerase II activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)." [EC:2.7.7.6] comment: This term was made obsolete because it represents the specific complex represented by the cellular component term 'DNA-directed RNA polymerase II, core complex ; GO:0005665'. To update annotations, use the molecular function term 'DNA-directed RNA polymerase activity ; GO:0003899'. is_obsolete: true [Term] id: GO:0003902 name: DNA-directed RNA polymerase III activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)." [EC:2.7.7.6] comment: This term was made obsolete because it represents the specific complex represented by the cellular component term 'DNA-directed RNA polymerase III complex ; GO:0005666'. To update annotations, use the molecular function term 'DNA-directed RNA polymerase activity ; GO:0003899'. is_obsolete: true [Term] id: GO:0003904 name: deoxyribodipyrimidine photo-lyase activity namespace: molecular_function def: "Catalysis of the reaction: cyclobutadipyrimidine (in DNA) = 2 pyrimidine residues (in DNA). The enzyme catalyzes the reactivation by light of irradiated DNA. A similar reactivation of irradiated RNA is probably due to a separate enzyme." [EC:4.1.99.3] comment: Consider also annotating to the molecular function term 'damaged DNA binding ; GO:0003684'. subset: gosubset_prok exact_synonym: "deoxyribodipyrimidine photolyase activity" [] xref_analog: EC:4.1.99.3 xref_analog: MetaCyc:DEOXYRIBODIPYRIMIDINE-PHOTOLYASE-RXN is_a: GO:0003913 ! DNA photolyase activity [Term] id: GO:0003905 name: alkylbase DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the hydrolysis of alkylated DNA; recognizes and removes alkylated purines and pyrimidines by cleaving the N-C1' glycosidic bond between the target damaged DNA base and the deoxyribose sugar. The reaction releases a free base and leaves an apurinic or apyrimidinic (AP) site. Enzyme has broad substrate specificity, being able to recognize alkylpurines, alkylpyrimidines or ethenopurines." [EC:3.2.2.21, GOC:elh, PMID:10872450, PMID:9224623] subset: gosubset_prok exact_synonym: "DNA-3-methyladenine glycosidase II activity" [] xref_analog: EC:3.2.2.21 xref_analog: MetaCyc:3.2.2.21-RXN is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0003906 name: DNA-(apurinic or apyrimidinic site) lyase activity namespace: molecular_function def: "Catalysis of the cleavage of the C-O-P bond 3' to the apurinic or apyrimidinic site in DNA by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate." [EC:4.2.99.18] comment: Consider also annotating to the molecular function term 'damaged DNA binding ; GO:0003684'. subset: gosubset_prok related_synonym: "endonuclease VIII activity" [] xref_analog: EC:4.2.99.18 xref_analog: MetaCyc:4.2.99.18-RXN xref_analog: Reactome:110374 xref_analog: Reactome:115457 xref_analog: Reactome:118027 xref_analog: Reactome:120610 xref_analog: Reactome:122890 xref_analog: Reactome:12450 is_a: GO:0016835 ! carbon-oxygen lyase activity [Term] id: GO:0003908 name: methylated-DNA-[protein]-cysteine S-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: DNA (containing 6-O-methylguanine) + (protein)-L-cysteine = DNA (without 6-O-methylguanine) + protein S-methyl-L-cysteine." [EC:2.1.1.63] comment: Consider also annotating to the molecular function term 'damaged DNA binding ; GO:0003684'. subset: gosubset_prok exact_synonym: "DNA-6-O-methylguanine:[protein]-L-cysteine S-methyltransferase" [] exact_synonym: "MGMT" [] broad_synonym: "O6-alkylguanine-DNA alkyltransferase" [] xref_analog: EC:2.1.1.63 xref_analog: MetaCyc:2.1.1.63-RXN xref_analog: Reactome:110074 xref_analog: Reactome:115837 xref_analog: Reactome:118468 xref_analog: Reactome:121065 xref_analog: Reactome:123224 xref_analog: Reactome:12455 xref_analog: Reactome:125313 is_a: GO:0008172 ! S-methyltransferase activity [Term] id: GO:0003909 name: DNA ligase activity namespace: molecular_function def: "Catalysis of the formation of a phosphodiester bond between the 3'-hydroxyl group at the end of one DNA chain and the 5'-phosphate group at the end of another; requires an energy source such as ATP or NAD+." [ISBN:0716720094] subset: gosubset_prok xref_analog: EC:6.5.1.- xref_analog: Reactome:109965 xref_analog: Reactome:110379 xref_analog: Reactome:115413 xref_analog: Reactome:115770 xref_analog: Reactome:117969 xref_analog: Reactome:118388 xref_analog: Reactome:120552 xref_analog: Reactome:122868 xref_analog: Reactome:123178 xref_analog: Reactome:12459 xref_analog: Reactome:124914 xref_analog: Reactome:125245 xref_analog: Reactome:69171 xref_analog: Reactome:75926 is_a: GO:0016886 ! ligase activity, forming phosphoric ester bonds [Term] id: GO:0003910 name: DNA ligase (ATP) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + deoxyribonucleotide(n) + deoxyribonucleotide(m) = AMP + diphosphate + deoxyribonucleotide(n+m)." [EC:6.5.1.1] subset: gosubset_prok xref_analog: EC:6.5.1.1 xref_analog: MetaCyc:DNA-LIGASE-(ATP)-RXN is_a: GO:0003909 ! DNA ligase activity [Term] id: GO:0003911 name: DNA ligase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: NAD+ + deoxyribonucleotide(n) + deoxyribonucleotide(m) = AMP + nicotinamide nucleotide + deoxyribonucleotide(n+m)." [EC:6.5.1.2] subset: gosubset_prok xref_analog: EC:6.5.1.2 xref_analog: MetaCyc:DNA-LIGASE-(NAD(+))-RXN is_a: GO:0003909 ! DNA ligase activity [Term] id: GO:0003912 name: DNA nucleotidylexotransferase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)." [EC:2.7.7.31] xref_analog: EC:2.7.7.31 xref_analog: MetaCyc:DNA-NUCLEOTIDYLEXOTRANSFERASE-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003913 name: DNA photolyase activity namespace: molecular_function def: "Catalysis of the repair of a photoproduct resulting from ultraviolet irradiation of two adjacent pyrimidine residues in DNA." [GOC:mah, PMID:11124949] subset: gosubset_prok xref_analog: EC:4.1.99.- is_a: GO:0016830 ! carbon-carbon lyase activity [Term] id: GO:0003914 name: DNA (6-4) photolyase activity namespace: molecular_function def: "Catalysis of the reaction: pyrimidine-pyrimidone (6-4) photoproduct (in DNA) = 2 pyrimidine residues (in DNA). Catalyzes the reactivation of ultraviolet-irradiated DNA." [GOC:mah, PMID:11124949] is_a: GO:0003913 ! DNA photolyase activity [Term] id: GO:0003916 name: DNA topoisomerase activity namespace: molecular_function alt_id: GO:0009387 def: "Catalysis of a topological transformation in double-stranded DNA by a covalent or non-covalent mechanism." [GOC:mah] subset: gosubset_prok exact_synonym: "DNA supercoiling activity" [] xref_analog: EC:5.99.1.- is_a: GO:0003677 ! DNA binding is_a: GO:0016853 ! isomerase activity [Term] id: GO:0003917 name: DNA topoisomerase type I activity namespace: molecular_function def: "Catalysis of a DNA topological transformation by transiently cleaving one DNA strand at a time to allow passage of another strand; changes the linking number by +1 per catalytic cycle." [PMID:8811192] comment: Note that a further distinction, between type IA and type IB topoisomerases, is based on sequence or structural similarity between gene products that possess type I catalytic activity. subset: gosubset_prok narrow_synonym: "DNA topoisomerase I activity" [] xref_analog: EC:5.99.1.2 xref_analog: MetaCyc:5.99.1.2-RXN is_a: GO:0003916 ! DNA topoisomerase activity [Term] id: GO:0003918 name: DNA topoisomerase (ATP-hydrolyzing) activity namespace: molecular_function def: "Catalysis of a DNA topological transformation by transiently cleaving a pair of complementary DNA strands to form a gate through which a second double-stranded DNA segment is passed, after which the severed strands in the first DNA segment are rejoined; product release is coupled to ATP binding and hydrolysis; changes the linking number in multiples of 2." [PMID:8811192] subset: gosubset_prok exact_synonym: "DNA topoisomerase IV activity" [] exact_synonym: "DNA topoisomerase type II activity" [] exact_synonym: "topoisomerase II" [] narrow_synonym: "DNA gyrase activity" [] xref_analog: EC:5.99.1.3 xref_analog: MetaCyc:5.99.1.3-RXN is_a: GO:0003916 ! DNA topoisomerase activity [Term] id: GO:0003919 name: FMN adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + FMN = diphosphate + FAD." [EC:2.7.7.2] subset: gosubset_prok exact_synonym: "ATP:FMN adenylyltransferase activity" [] exact_synonym: "FAD synthetase" [] xref_analog: EC:2.7.7.2 xref_analog: MetaCyc:FADSYN-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003920 name: GMP reductase activity namespace: molecular_function def: "Catalysis of the reaction: inosine 5'-phosphate + NH3 + NADP+ = guanosine 5'-phosphate + NADPH + H+." [EC:1.7.1.7] comment: Note that this function was formerly EC:1.6.6.8. subset: gosubset_prok xref_analog: EC:1.7.1.7 xref_analog: MetaCyc:GMP-REDUCT-RXN is_a: GO:0016657 ! oxidoreductase activity, acting on NADH or NADPH, nitrogenous group as acceptor [Term] id: GO:0003921 name: GMP synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + xanthosine 5'-phosphate + NH3 = AMP + diphosphate + GMP." [EC:6.3.4.1] xref_analog: EC:6.3.4.1 xref_analog: MetaCyc:GMP-SYN-NH3-RXN xref_analog: Reactome:116242 xref_analog: Reactome:118942 xref_analog: Reactome:121524 xref_analog: Reactome:123563 xref_analog: Reactome:12506 xref_analog: Reactome:125697 xref_analog: Reactome:73785 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0003922 name: GMP synthase (glutamine-hydrolyzing) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + xanthosine 5'-phosphate + L-glutamine + H2O = AMP + diphosphate + GMP + L-glutamate." [EC:6.3.5.2] subset: gosubset_prok xref_analog: EC:6.3.5.2 xref_analog: MetaCyc:GMP-SYN-GLUT-RXN is_a: GO:0016884 ! carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Term] id: GO:0003923 name: GPI-anchor transamidase activity namespace: molecular_function def: "Catalysis of the formation of the linkage between a protein and a glycosylphosphatidylinositol anchor. The reaction probably occurs by subjecting a peptide bond to nucleophilic attack by the amino group of ethanolamine-GPI, transferring the protein from a signal peptide to the GPI anchor." [ISBN:0471331309] xref_analog: EC:3.-.-.- xref_analog: Reactome:12511 is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0003924 name: GTPase activity namespace: molecular_function def: "Catalysis of the reaction: GTP + H2O = GDP + phosphate." [ISBN:0198547684] comment: Consider also annotating to the molecular function term 'GTP binding ; GO:0005525'. subset: gosubset_prok related_synonym: "heterotrimeric G-protein GTPase, alpha-subunit" [] related_synonym: "heterotrimeric G-protein GTPase, beta-subunit" [] related_synonym: "heterotrimeric G-protein GTPase, gamma-subunit" [] narrow_synonym: "ARF small monomeric GTPase activity" [] narrow_synonym: "dynamin GTPase activity" [] narrow_synonym: "heterotrimeric G-protein GTPase activity" [] narrow_synonym: "protein-synthesizing GTPase activity" [] narrow_synonym: "protein-synthesizing GTPase activity, elongation" [] narrow_synonym: "protein-synthesizing GTPase activity, initiation" [] narrow_synonym: "protein-synthesizing GTPase activity, termination" [] narrow_synonym: "RAB small monomeric GTPase activity" [] narrow_synonym: "RAN small monomeric GTPase activity" [] narrow_synonym: "RAS small monomeric GTPase activity" [] narrow_synonym: "RHEB small monomeric GTPase activity" [] narrow_synonym: "Rho small monomeric GTPase activity" [] narrow_synonym: "SAR small monomeric GTPase activity" [] narrow_synonym: "signal-recognition-particle GTPase activity" [] narrow_synonym: "small monomeric GTPase activity" [] narrow_synonym: "tubulin GTPase activity" [] broad_synonym: "hydrolase activity, acting on acid anhydrides, acting on GTP, involved in cellular and subcellular movement" [] xref_analog: Reactome:12513 is_a: GO:0017111 ! nucleoside-triphosphatase activity [Term] id: GO:0003925 name: small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate. Small monomeric enzymes with a molecular mass of 21 kDa that are distantly related to the alpha-subunit of heterotrimeric G-protein GTPase. They are involved in cell-growth regulation (RAS subfamily), membrane vesicle traffic and uncoating (RAB and ARF subfamilies), nuclear protein import (RAN subfamily) and organization of the cytoskeleton (Rho and Rac subfamilies)." [EC:3.6.5.2, GOC:mah, ISBN:0198547684, MetaCyc:3.6.1.47-RXN] comment: This term was made obsolete because it represents a gene product and contains cellular component information. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924'. is_obsolete: true [Term] id: GO:0003926 name: ARF small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate." [EC:3.6.1.47] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process terms 'synaptic vesicle uncoating ; GO:0016191' and 'vesicle-mediated transport ; GO:0016192'. is_obsolete: true [Term] id: GO:0003927 name: heterotrimeric G-protein GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate. GTP-hydrolyzing enzymes, where GTP and GDP alternate in binding. Includes stimulatory and inhibitory G-proteins such as Gs, Gi, Go and Golf, targeting adenylate cyclase and/or potassium ion and calcium ion channels; Gq stimulating phospholipase C; transducin activating cGMP phosphodiesterase; gustducin activating cAMP phosphodiesterase." [EC:3.6.5.1, ISBN:0198547684, MetaCyc:3.6.1.46-RXN] comment: This term was made obsolete because it represents a cellular component. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'. is_obsolete: true [Term] id: GO:0003928 name: RAB small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate." [EC:3.6.1.47] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process terms 'synaptic vesicle uncoating ; GO:0016191' and 'vesicle-mediated transport ; GO:0016192'. is_obsolete: true [Term] id: GO:0003929 name: RAN small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate." [EC:3.6.1.47] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process term 'protein import into nucleus ; GO:0006606'. is_obsolete: true [Term] id: GO:0003930 name: RAS small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate." [EC:3.6.1.47] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process term 'regulation of cell growth ; GO:0001558'. is_obsolete: true [Term] id: GO:0003931 name: Rho small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate. Any member of the Rho subfamily of the RAS superfamily of monomeric GTPases. Proteins in the Rho subfamily are involved in relaying signals from cell-surface receptors to the actin cytoskeleton." [EC:3.6.1.47, GOC:mah, ISBN:0198547684] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process term 'cytoskeleton organization and biogenesis ; GO:0007010'. is_obsolete: true [Term] id: GO:0003932 name: SAR small monomeric GTPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: GTP + H2O = GDP + phosphate." [EC:3.6.1.47] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'GTPase activity ; GO:0003924' and consider the biological process term 'secretion ; GO:0046903'. is_obsolete: true [Term] id: GO:0003933 name: GTP cyclohydrolase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the imidazole ring of GTP, releasing formate. Two C-N bonds are hydrolyzed and the pentase unit is isomerized." [GOC:jl, http://cancerweb.ncl.ac.uk] subset: gosubset_prok xref_analog: EC:3.5.4.- is_a: GO:0019238 ! cyclohydrolase activity [Term] id: GO:0003934 name: GTP cyclohydrolase I activity namespace: molecular_function def: "Catalysis of the reaction: GTP + 2 H2O = formate + 2-amino-4-hydroxy-6-(erythro-1,2,3-trihydroxypropyl)-dihydropteridine triphosphate." [EC:3.5.4.16] subset: gosubset_prok xref_analog: EC:3.5.4.16 xref_analog: MetaCyc:GTP-CYCLOHYDRO-I-RXN is_a: GO:0003933 ! GTP cyclohydrolase activity [Term] id: GO:0003935 name: GTP cyclohydrolase II activity namespace: molecular_function def: "Catalysis of the reaction: GTP + 3 H2O = formate + 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + diphosphate." [EC:3.5.4.25] subset: gosubset_prok xref_analog: EC:3.5.4.25 xref_analog: MetaCyc:GTP-CYCLOHYDRO-II-RXN is_a: GO:0003933 ! GTP cyclohydrolase activity [Term] id: GO:0003936 name: hydrogen-transporting two-sector ATPase activity namespace: molecular_function alt_id: GO:0004006 alt_id: GO:0008729 def: "OBSOLETE. Catalysis of the reaction: ATP + H2O + H+(in) = ADP + phosphate + H+(out)." [EC:3.6.3.14, TC:3.A.3.-.-] comment: This term was made obsolete because it refers to a bifunctional gene product. To update annotations, consider the molecular function terms 'hydrogen-transporting ATPase activity, rotational mechanism ; GO:0046961' and 'hydrogen-transporting ATP synthase activity, rotational mechanism ; GO:0046933'. exact_synonym: "proton-transporting two-sector ATPase" [] is_obsolete: true [Term] id: GO:0003937 name: IMP cyclohydrolase activity namespace: molecular_function def: "Catalysis of the reaction: IMP + H2O = 5-formamido-1-(5-phosphoribosyl)imidazole-4-carboxamide." [EC:3.5.4.10] subset: gosubset_prok exact_synonym: "inosinicase" [] xref_analog: EC:3.5.4.10 xref_analog: MetaCyc:IMPCYCLOHYDROLASE-RXN xref_analog: Reactome:114566 xref_analog: Reactome:116976 xref_analog: Reactome:119739 xref_analog: Reactome:122170 xref_analog: Reactome:124198 xref_analog: Reactome:12558 xref_analog: Reactome:73795 is_a: GO:0019238 ! cyclohydrolase activity [Term] id: GO:0003938 name: IMP dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: inosine 5'-phosphate + NAD+ + H2O = xanthosine 5'-phosphate + NADH + H+." [EC:1.1.1.205] subset: gosubset_prok xref_analog: EC:1.1.1.205 xref_analog: MetaCyc:IMP-DEHYDROG-RXN xref_analog: Reactome:111592 xref_analog: Reactome:115691 xref_analog: Reactome:118277 xref_analog: Reactome:120902 xref_analog: Reactome:123092 xref_analog: Reactome:123097 xref_analog: Reactome:125162 xref_analog: Reactome:12563 xref_analog: Reactome:73793 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003939 name: L-iditol 2-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-iditol + NAD+ = L-sorbose + NADH + H+." [EC:1.1.1.14] subset: gosubset_prok exact_synonym: "sorbitol dehydrogenase activity" [] xref_analog: EC:1.1.1.14 xref_analog: MetaCyc:L-IDITOL-2-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003940 name: L-iduronidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of alpha-L-iduronosidic linkages in desulfated dermatan." [EC:3.2.1.76] xref_analog: EC:3.2.1.76 xref_analog: MetaCyc:3.2.1.76-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0003941 name: L-serine ammonia-lyase activity namespace: molecular_function def: "Catalysis of the reaction: L-serine = pyruvate + NH3." [EC:4.3.1.17] comment: Note that this function was formerly EC:4.3.1.13. subset: gosubset_prok exact_synonym: "L-serine deaminase activity" [] exact_synonym: "L-serine dehydratase activity" [] exact_synonym: "L-serine hydro-lyase (deaminating) activity" [] exact_synonym: "serine deaminase activity" [] broad_synonym: "L-hydroxyaminoacid dehydratase activity" [] xref_analog: EC:4.3.1.17 xref_analog: MetaCyc:4.3.1.17-RXN is_a: GO:0016841 ! ammonia-lyase activity [Term] id: GO:0003942 name: N-acetyl-gamma-glutamyl-phosphate reductase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-L-glutamate 5-semialdehyde + NADP+ + phosphate = N-acetyl-5-glutamyl phosphate + NADPH + H+." [EC:1.2.1.38] subset: gosubset_prok xref_analog: EC:1.2.1.38 xref_analog: MetaCyc:N-ACETYLGLUTPREDUCT-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0003943 name: N-acetylgalactosamine-4-sulfatase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the 4-sulfate groups of the N-acetyl-D-galactosamine 4-sulfate units of chondroitin sulfate and dermatan sulfate." [EC:3.1.6.12] subset: gosubset_prok exact_synonym: "arylsulfatase B" [] exact_synonym: "N-acetylgalactosamine-4-sulphatase activity" [] xref_analog: EC:3.1.6.12 xref_analog: MetaCyc:3.1.6.12-RXN is_a: GO:0008484 ! sulfuric ester hydrolase activity [Term] id: GO:0003944 name: N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase activity namespace: molecular_function def: "Catalysis of the reaction: glycoprotein N-acetyl-D-glucosaminyl-phospho-D-mannose + H2O = N-acetyl-D-glucosamine + glycoprotein phospho-D-mannose." [EC:3.1.4.45] xref_analog: EC:3.1.4.45 xref_analog: MetaCyc:3.1.4.45-RXN is_a: GO:0015929 ! hexosaminidase activity [Term] id: GO:0003945 name: N-acetyllactosamine synthase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-galactose + N-acetyl-D-glucosamine = UDP + N-acetyllactosamine." [EC:2.4.1.90] subset: gosubset_prok exact_synonym: "UDP-galactose:N-acetyl-D-glucosamine 4-beta-D-galactosyltransferase" [] xref_analog: EC:2.4.1.90 xref_analog: MetaCyc:N-ACETYLLACTOSAMINE-SYNTHASE-RXN is_a: GO:0035250 ! UDP-galactosyltransferase activity [Term] id: GO:0003947 name: (N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-galactosamine + (N-acetylneuraminyl)-D-galactosyl-D-glucosylceramide = UDP + N-acetyl-D-galactosaminyl-(N-acetylneuraminyl)-D-galactosyl-D-glucosylceramide." [EC:2.4.1.92] xref_analog: EC:2.4.1.92 xref_analog: MetaCyc:2.4.1.92-RXN is_a: GO:0008376 ! acetylgalactosaminyltransferase activity [Term] id: GO:0003948 name: N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity namespace: molecular_function def: "Catalysis of the reaction: N(4)-(beta-N-acetyl-D-glucosaminyl)-L-asparagine + H2O = N-acetyl-beta-glucosaminylamine + L-aspartate." [EC:3.5.1.26] subset: gosubset_prok xref_analog: EC:3.5.1.26 xref_analog: MetaCyc:3.5.1.26-RXN is_a: GO:0004067 ! asparaginase activity [Term] id: GO:0003949 name: 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity namespace: molecular_function def: "Catalysis of the reaction: N-(5'-phospho-D-ribosylformimino)-5-amino-1-(5''-phosphoribosyl)-4-imidazolecarboxamide = N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phosphoribosyl)-4-imidazolecarboxamide." [EC:5.3.1.16] subset: gosubset_prok xref_analog: EC:5.3.1.16 xref_analog: MetaCyc:PRIBFAICARPISOM-RXN is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0003950 name: NAD+ ADP-ribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: NAD+ + (ADP-D-ribosyl)(n)-acceptor = nicotinamide + (ADP-D-ribosyl)(n+1)-acceptor." [EC:2.4.2.30] subset: gosubset_prok exact_synonym: "NAD ADP-ribosyltransferase activity" [] xref_analog: EC:2.4.2.30 xref_analog: MetaCyc:NAD(+)-ADP-RIBOSYLTRANSFERASE-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0003951 name: NAD+ kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + NAD+ = ADP + NADP+." [EC:2.7.1.23] subset: gosubset_prok exact_synonym: "NAD kinase activity" [] xref_analog: EC:2.7.1.23 xref_analog: MetaCyc:NAD-KIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0003952 name: NAD+ synthase (glutamine-hydrolyzing) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + deamido-NAD+ + L-glutamine + H2O = AMP + diphosphate + NAD+ + L-glutamate." [EC:6.3.5.1] subset: gosubset_prok exact_synonym: "NAD synthase (glutamine-hydrolyzing) activity" [] xref_analog: EC:6.3.5.1 xref_analog: MetaCyc:NAD-SYNTH-GLN-RXN is_a: GO:0016884 ! carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Term] id: GO:0003953 name: NAD+ nucleosidase activity namespace: molecular_function def: "Catalysis of the reaction: NAD+ + H2O = nicotinamide + ADP-ribose." [EC:3.2.2.5] subset: gosubset_prok exact_synonym: "NAD nucleosidase activity" [] xref_analog: EC:3.2.2.5 xref_analog: MetaCyc:NADNUCLEOSID-RXN is_a: GO:0016799 ! hydrolase activity, hydrolyzing N-glycosyl compounds [Term] id: GO:0003954 name: NADH dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: NADH + H+ + acceptor = NAD+ + reduced acceptor." [EC:1.6.99.3] subset: gosubset_prok related_synonym: "cytochrome c reductase" [] xref_analog: EC:1.6.99.3 xref_analog: MetaCyc:NADH-DEHYDROGENASE-RXN is_a: GO:0009055 ! electron carrier activity is_a: GO:0016651 ! oxidoreductase activity, acting on NADH or NADPH [Term] id: GO:0003955 name: NAD(P)H dehydrogenase (quinone) activity namespace: molecular_function def: "Catalysis of the reaction: NAD(P)H + H+ + a quinone = NAD(P)(+) + a hydroquinone." [EC:1.6.99.2] subset: gosubset_prok exact_synonym: "quinone reductase" [] xref_analog: EC:1.6.5.2 xref_analog: MetaCyc:NQOR-RXN is_a: GO:0016655 ! oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor [Term] id: GO:0003956 name: NAD(P)+-protein-arginine ADP-ribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: NAD(P)+ + L-arginine = nicotinamide + N2-(ADP-D-ribosyl)-L-arginine." [EC:2.4.2.31] exact_synonym: "NAD(P)+-arginine ADP-ribosyltransferase activity" [] exact_synonym: "NAD(P)-arginine ADP-ribosyltransferase activity" [] xref_analog: EC:2.4.2.31 xref_analog: MetaCyc:2.4.2.31-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0003957 name: NAD(P)+ transhydrogenase (B-specific) activity namespace: molecular_function def: "Catalysis of the reaction: NADPH + H+ + NAD+ = NADP+ + NADH + H+." [EC:1.6.1.1] subset: gosubset_prok exact_synonym: "NAD(P) transhydrogenase (B-specific) activity" [] exact_synonym: "pyridine nucleotide transhydrogenase" [] xref_analog: EC:1.6.1.1 xref_analog: MetaCyc:PYRNUTRANSHYDROGEN-RXN xref_analog: TC:3.D.2.1.- is_a: GO:0008746 ! NAD(P) transhydrogenase activity is_a: GO:0015078 ! hydrogen ion transporter activity [Term] id: GO:0003958 name: NADPH-hemoprotein reductase activity namespace: molecular_function def: "Catalysis of the reaction: NADPH + H+ + n oxidized hemoprotein = NADP+ + n reduced hemoprotein." [EC:1.6.2.4] subset: gosubset_prok exact_synonym: "NADPH-ferrihemoprotein reductase activity" [] exact_synonym: "NADPH:cytochrome c reductase" [] exact_synonym: "NADPH:cytochrome P450 reductase" [] xref_analog: EC:1.6.2.4 xref_analog: MetaCyc:NADPH--FERRIHEMOPROTEIN-REDUCTASE-RXN is_a: GO:0009055 ! electron carrier activity is_a: GO:0016652 ! oxidoreductase activity, acting on NADH or NADPH, NAD or NADP as acceptor [Term] id: GO:0003959 name: NADPH dehydrogenase activity namespace: molecular_function alt_id: GO:0008468 alt_id: GO:0016660 def: "Catalysis of the reaction: NADPH + H+ + acceptor = NADP+ + reduced acceptor." [EC:1.6.99.1] subset: gosubset_prok xref_analog: EC:1.6.99.1 xref_analog: MetaCyc:NADPH-DEHYDROGENASE-RXN is_a: GO:0009055 ! electron carrier activity is_a: GO:0016651 ! oxidoreductase activity, acting on NADH or NADPH [Term] id: GO:0003960 name: NADPH:quinone reductase activity namespace: molecular_function def: "Catalysis of the reaction: NADPH + H+ + quinone = NADP+ + semiquinone." [EC:1.6.5.5] subset: gosubset_prok xref_analog: EC:1.6.5.5 xref_analog: MetaCyc:QOR-RXN is_a: GO:0016655 ! oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor [Term] id: GO:0003961 name: O-acetylhomoserine aminocarboxypropyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: O-acetyl-L-homoserine + methanethiol = L-methionine + acetate." [EC:2.5.1.49] comment: Note that this function was formerly EC:4.2.99.10. subset: gosubset_prok exact_synonym: "O-acetylhomoserine (thiol)-lyase activity" [] xref_analog: EC:2.5.1.49 xref_analog: MetaCyc:O-ACETYLHOMOSERINE-(THIOL)-LYASE-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0003962 name: cystathionine gamma-synthase activity namespace: molecular_function alt_id: GO:0000505 def: "Catalysis of the reaction: O-succinyl-L-homoserine + L-cysteine = cystathionine + succinate." [EC:2.5.1.48] subset: gosubset_prok exact_synonym: "CTT gamma synthase activity" [] exact_synonym: "cystathionine g-synthase" [] exact_synonym: "cystathionine gamma synthase activity" [] exact_synonym: "O-succinyl-L-homoserine (thiol)-lyase activity" [] exact_synonym: "O-succinyl-L-homoserine succinate-lyase activity" [] xref_analog: EC:2.5.1.48 xref_analog: MetaCyc:O-SUCCHOMOSERLYASE-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0003963 name: RNA-3'-phosphate cyclase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate." [EC:6.5.1.4] subset: gosubset_prok xref_analog: EC:6.5.1.4 xref_analog: MetaCyc:RNA-3'-PHOSPHATE-CYCLASE-RXN is_a: GO:0009975 ! cyclase activity is_a: GO:0016886 ! ligase activity, forming phosphoric ester bonds [Term] id: GO:0003964 name: RNA-directed DNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Catalyzes RNA-template-directed extension of the 3'- end of a DNA strand by one deoxynucleotide at a time." [EC:2.7.7.49] subset: gosubset_prok exact_synonym: "reverse transcriptase" [] narrow_synonym: "RNA-directed DNA polymerase, group II intron encoded" [] narrow_synonym: "RNA-directed DNA polymerase, transposon encoded" [] xref_analog: EC:2.7.7.49 xref_analog: MetaCyc:RNA-DIRECTED-DNA-POLYMERASE-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003966 name: RNA-directed DNA polymerase, transposon encoded namespace: molecular_function def: "OBSOLETE. Catalysis of RNA-template-directed extension of the 3'- end of a DNA strand by one deoxynucleotide at a time; cannot initiate a chain de novo." [EC:2.7.7.49] comment: This term was made obsolete because it does not represent a function distinct from its parent term 'RNA-directed DNA polymerase'. To update annotations, use the molecular function term 'RNA-directed DNA polymerase activity ; GO:0003964'. is_obsolete: true [Term] id: GO:0003967 name: RNA-directed DNA polymerase, group II intron encoded namespace: molecular_function def: "OBSOLETE. Catalysis of RNA-template-directed extension of the 3'- end of a DNA strand by one deoxynucleotide at a time; cannot initiate a chain de novo." [EC:2.7.7.49] comment: This term was made obsolete because it does not represent a function distinct from its parent term 'RNA-directed DNA polymerase'. To update annotations, use the molecular function term 'RNA-directed DNA polymerase activity ; GO:0003964'. is_obsolete: true [Term] id: GO:0003968 name: RNA-directed RNA polymerase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside triphosphate + RNA (n) = diphosphate + RNA (n+1); uses an RNA template." [EC:2.7.7.48, GOC:mah] subset: gosubset_prok xref_analog: EC:2.7.7.48 xref_analog: MetaCyc:RNA-DIRECTED-RNA-POLYMERASE-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003969 name: RNA editase activity namespace: molecular_function subset: gosubset_prok is_a: GO:0003824 ! catalytic activity [Term] id: GO:0003971 name: double-stranded RNA specific editase activity namespace: molecular_function is_a: GO:0003969 ! RNA editase activity [Term] id: GO:0003972 name: RNA ligase (ATP) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + ribonucleotide (n) + ribonucleotide (m) = AMP + diphosphate + ribonucleotide (n+m)." [EC:6.5.1.3] subset: gosubset_prok xref_analog: EC:6.5.1.3 xref_analog: MetaCyc:RNA-LIGASE-(ATP)-RXN is_a: GO:0008452 ! RNA ligase activity [Term] id: GO:0003973 name: (S)-2-hydroxy-acid oxidase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-2-hydroxy-acid + O2 = 2-oxo acid + H2O2." [EC:1.1.3.15] subset: gosubset_prok xref_analog: EC:1.1.3.15 xref_analog: MetaCyc:(S)-2-HYDROXY-ACID-OXIDASE-RXN is_a: GO:0016899 ! oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor [Term] id: GO:0003974 name: UDP-N-acetylglucosamine 4-epimerase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine = UDP-N-acetyl-D-galactosamine." [EC:5.1.3.7] subset: gosubset_prok xref_analog: EC:5.1.3.7 xref_analog: MetaCyc:UDP-N-ACETYLGLUCOSAMINE-4-EPIMERASE-RXN is_a: GO:0016857 ! racemase and epimerase activity, acting on carbohydrates and derivatives [Term] id: GO:0003975 name: UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + dolichyl phosphate = UMP + N-acetyl-D-glucosaminyl-diphosphodolichol." [EC:2.7.8.15] subset: gosubset_prok exact_synonym: "UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosamine-1-phosphate transferase activity" [] xref_analog: EC:2.7.8.15 xref_analog: MetaCyc:2.7.8.15-RXN is_a: GO:0016780 ! phosphotransferase activity, for other substituted phosphate groups [Term] id: GO:0003976 name: UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + lysosomal-enzyme D-mannose = UMP + lysosomal-enzyme N-acetyl-D-glucosaminyl-phospho-D-mannose." [EC:2.7.8.17] xref_analog: EC:2.7.8.17 xref_analog: MetaCyc:2.7.8.17-RXN is_a: GO:0016780 ! phosphotransferase activity, for other substituted phosphate groups [Term] id: GO:0003977 name: UDP-N-acetylglucosamine diphosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: UTP + N-acetyl-alpha-D-glucosamine 1-phosphate = diphosphate + UDP-N-acetyl-D-glucosamine." [EC:2.7.7.23] subset: gosubset_prok exact_synonym: "UDP-N-acetylglucosamine pyrophosphorylase activity" [] xref_analog: EC:2.7.7.23 xref_analog: MetaCyc:NAG1P-URIDYLTRANS-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0003978 name: UDP-glucose 4-epimerase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-glucose = UDP-galactose." [EC:5.1.3.2] subset: gosubset_prok xref_analog: EC:5.1.3.2 xref_analog: MetaCyc:UDPGLUCEPIM-RXN xref_analog: Reactome:116193 xref_analog: Reactome:118890 xref_analog: Reactome:121478 xref_analog: Reactome:123517 xref_analog: Reactome:125648 xref_analog: Reactome:12673 xref_analog: Reactome:70368 is_a: GO:0016857 ! racemase and epimerase activity, acting on carbohydrates and derivatives [Term] id: GO:0003979 name: UDP-glucose 6-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-glucose + 2 NAD+ + H2O = UDP-glucuronate + 2 NADH + H+." [EC:1.1.1.22] subset: gosubset_prok xref_analog: EC:1.1.1.22 xref_analog: MetaCyc:UGD-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0003980 name: UDP-glucose:glycoprotein glucosyltransferase activity namespace: molecular_function def: "Catalysis of the addition of UDP-glucose on to asparagine-linked (N-linked) oligosaccharides of the form Man7-9GlcNAc2 on incorrectly folded glycoproteins." [PMID:10764828] exact_synonym: "UGGT activity" [] xref_analog: EC:2.4.1.- is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] id: GO:0003983 name: UTP:glucose-1-phosphate uridylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UTP + alpha-D-glucose 1-phosphate = diphosphate + UDP-glucose." [EC:2.7.7.9] subset: gosubset_prok xref_analog: EC:2.7.7.9 xref_analog: MetaCyc:GLUC1PURIDYLTRANS-RXN xref_analog: Reactome:118935 xref_analog: Reactome:121517 xref_analog: Reactome:123556 xref_analog: Reactome:125691 xref_analog: Reactome:12708 xref_analog: Reactome:70285 xref_analog: Reactome:71560 is_a: GO:0051748 ! UDP-sugar pyrophosphorylase activity [Term] id: GO:0003984 name: acetolactate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 2 pyruvate = 2-acetolactate + CO2." [EC:2.2.1.6] comment: Note that this function was formerly EC:4.1.3.18. subset: gosubset_prok xref_analog: EC:2.2.1.6 xref_analog: MetaCyc:ACETOLACTSYN-RXN is_a: GO:0016744 ! transferase activity, transferring aldehyde or ketonic groups [Term] id: GO:0003985 name: acetyl-CoA C-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 2 acetyl-CoA = CoA + acetoacetyl-CoA." [EC:2.3.1.9] subset: gosubset_prok xref_analog: EC:2.3.1.9 xref_analog: MetaCyc:ACETYL-COA-ACETYLTRANSFER-RXN xref_analog: UM-BBD_enzymeID:e0144 is_a: GO:0016453 ! C-acetyltransferase activity [Term] id: GO:0003986 name: acetyl-CoA hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + H2O = CoA + acetate." [EC:3.1.2.1] subset: gosubset_prok xref_analog: EC:3.1.2.1 xref_analog: MetaCyc:ACETYL-COA-HYDROLASE-RXN is_a: GO:0016289 ! CoA hydrolase activity [Term] id: GO:0003987 name: acetate-CoA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + acetate + CoA = AMP + diphosphate + acetyl-CoA." [EC:6.2.1.1] subset: gosubset_prok related_synonym: "acetate to acetyl-CoA" [] exact_synonym: "acetyl-CoA synthetase" [] xref_analog: EC:6.2.1.1 xref_analog: MetaCyc:ACETATE--COA-LIGASE-RXN xref_analog: Reactome:114948 xref_analog: Reactome:117416 xref_analog: Reactome:120096 xref_analog: Reactome:122534 xref_analog: Reactome:124585 xref_analog: Reactome:12714 xref_analog: Reactome:71734 is_a: GO:0016405 ! CoA-ligase activity is_a: GO:0016878 ! acid-thiol ligase activity [Term] id: GO:0003988 name: acetyl-CoA C-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + acetyl-CoA = CoA + 3-oxoacyl-CoA." [EC:2.3.1.16] subset: gosubset_prok exact_synonym: "2-keto-acyl thiolase" [] exact_synonym: "3-ketoacyl-CoA thiolase activity" [] xref_analog: EC:2.3.1.16 xref_analog: MetaCyc:KETOACYLCOATHIOL-RXN is_a: GO:0016408 ! C-acyltransferase activity [Term] id: GO:0003989 name: acetyl-CoA carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + acetyl-CoA + HCO3- = ADP + phosphate + malonyl-CoA." [EC:6.4.1.2] subset: gosubset_prok xref_analog: EC:6.4.1.2 xref_analog: MetaCyc:ACETYL-COA-CARBOXYLTRANSFER-RXN xref_analog: Reactome:118092 xref_analog: Reactome:120680 xref_analog: Reactome:125006 xref_analog: Reactome:12716 xref_analog: Reactome:76186 is_a: GO:0016421 ! CoA carboxylase activity [Term] id: GO:0003990 name: acetylcholinesterase activity namespace: molecular_function def: "Catalysis of the reaction: acetylcholine + H2O = choline + acetate." [EC:3.1.1.7] subset: gosubset_prok xref_analog: EC:3.1.1.7 xref_analog: MetaCyc:ACETYLCHOLINESTERASE-RXN is_a: GO:0004091 ! carboxylesterase activity [Term] id: GO:0003991 name: acetylglutamate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + N-acetyl-L-glutamate = ADP + N-acetyl-L-glutamate 5-phosphate." [EC:2.7.2.8] subset: gosubset_prok xref_analog: EC:2.7.2.8 xref_analog: MetaCyc:ACETYLGLUTKIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016774 ! phosphotransferase activity, carboxyl group as acceptor [Term] id: GO:0003992 name: acetylornithine transaminase activity namespace: molecular_function alt_id: GO:0047318 def: "Catalysis of the reaction: N2-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L-glutamate 5-semialdehyde + L-glutamate." [EC:2.6.1.11] subset: gosubset_prok exact_synonym: "acetylornithine aminotransferase activity" [] exact_synonym: "N2-acetylornithine 5-aminotransferase activity" [] xref_analog: EC:2.6.1.11 xref_analog: MetaCyc:ACETYLORNTRANSAM-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0003993 name: acid phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate." [EC:3.1.3.2] subset: gosubset_prok xref_analog: EC:3.1.3.2 xref_analog: MetaCyc:ACID-PHOSPHATASE-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0003994 name: aconitate hydratase activity namespace: molecular_function def: "Catalysis of the reaction: citrate = cis-aconitate + H2O = isocitrate; i.e. the interconversion of citrate and isocitrate via the labile, enzyme-bound intermediate cis-aconitate. Water is removed from one part of the citrate molecule and added back to a different atom to form isocitrate." [EC:4.2.1.3] subset: gosubset_prok exact_synonym: "aconitase activity" [] xref_analog: EC:4.2.1.3 xref_analog: MetaCyc:ACONITATEDEHYDR-RXN xref_analog: Reactome:115118 xref_analog: Reactome:117621 xref_analog: Reactome:120284 xref_analog: Reactome:122657 xref_analog: Reactome:124701 xref_analog: Reactome:12740 xref_analog: Reactome:70969 is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0003995 name: acyl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + acceptor = 2,3-dehydroacyl-CoA + reduced acceptor." [EC:1.3.99.3] subset: gosubset_prok xref_analog: EC:1.3.99.3 xref_analog: MetaCyc:ACYLCOADEHYDROG-RXN xref_analog: Reactome:114853 xref_analog: Reactome:115102 xref_analog: Reactome:115312 xref_analog: Reactome:115721 xref_analog: Reactome:115764 xref_analog: Reactome:115902 xref_analog: Reactome:117295 xref_analog: Reactome:117585 xref_analog: Reactome:117839 xref_analog: Reactome:118325 xref_analog: Reactome:118382 xref_analog: Reactome:118531 xref_analog: Reactome:120012 xref_analog: Reactome:120270 xref_analog: Reactome:120464 xref_analog: Reactome:120936 xref_analog: Reactome:120987 xref_analog: Reactome:121140 xref_analog: Reactome:122435 xref_analog: Reactome:122648 xref_analog: Reactome:122794 xref_analog: Reactome:123131 xref_analog: Reactome:123174 xref_analog: Reactome:123266 xref_analog: Reactome:124479 xref_analog: Reactome:124687 xref_analog: Reactome:125202 xref_analog: Reactome:125240 xref_analog: Reactome:4266 xref_analog: Reactome:70798 xref_analog: Reactome:70857 xref_analog: Reactome:77259 xref_analog: Reactome:77280 xref_analog: Reactome:77317 xref_analog: Reactome:77336 is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0003996 name: acyl-CoA ligase activity namespace: molecular_function subset: gosubset_prok xref_analog: EC:6.2.1.- is_a: GO:0016405 ! CoA-ligase activity is_a: GO:0016878 ! acid-thiol ligase activity [Term] id: GO:0003997 name: acyl-CoA oxidase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + O2 = trans-2,3-dehydroacyl-CoA + H2O2." [EC:1.3.3.6] subset: gosubset_prok xref_analog: EC:1.3.3.6 xref_analog: MetaCyc:ACYL-COA-OXIDASE-RXN is_a: GO:0016634 ! oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor [Term] id: GO:0003998 name: acylphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: an acyl phosphate + H2O = a carboxylate + phosphate." [EC:3.6.1.7] subset: gosubset_prok xref_analog: EC:3.6.1.7 xref_analog: MetaCyc:ACYLPHOSPHATASE-RXN is_a: GO:0016818 ! hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides [Term] id: GO:0003999 name: adenine phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.7] subset: gosubset_prok xref_analog: EC:2.4.2.7 xref_analog: MetaCyc:ADENPRIBOSYLTRAN-RXN xref_analog: Reactome:114653 xref_analog: Reactome:117111 xref_analog: Reactome:119831 xref_analog: Reactome:122269 xref_analog: Reactome:74212 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004000 name: adenosine deaminase activity namespace: molecular_function def: "Catalysis of the reaction: adenosine + H2O = inosine + NH3." [EC:3.5.4.4] subset: gosubset_prok exact_synonym: "adenosine deaminase reaction" [] xref_analog: EC:3.5.4.4 xref_analog: MetaCyc:ADENODEAMIN-RXN xref_analog: Reactome:114343 xref_analog: Reactome:116710 xref_analog: Reactome:119438 xref_analog: Reactome:121960 xref_analog: Reactome:123974 xref_analog: Reactome:6985 xref_analog: Reactome:74234 is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004001 name: adenosine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + adenosine = ADP + AMP." [EC:2.7.1.20, PMID:11223943] subset: gosubset_prok exact_synonym: "adenosine 5-phosphotransferase" [] xref_analog: EC:2.7.1.20 xref_analog: MetaCyc:ADENOSINE-KINASE-RXN xref_analog: Reactome:114329 xref_analog: Reactome:116696 xref_analog: Reactome:119424 xref_analog: Reactome:121946 xref_analog: Reactome:123965 xref_analog: Reactome:6989 xref_analog: Reactome:76547 is_a: GO:0019206 ! nucleoside kinase activity [Term] id: GO:0004003 name: ATP-dependent DNA helicase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O = ADP + phosphate, driving the unwinding of the DNA helix." [EC:3.6.1.3, GOC:jl] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok is_a: GO:0003678 ! DNA helicase activity is_a: GO:0008026 ! ATP-dependent helicase activity is_a: GO:0008094 ! DNA-dependent ATPase activity [Term] id: GO:0004004 name: ATP-dependent RNA helicase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O = ADP + phosphate, driving the unwinding of an RNA helix." [EC:3.6.1.3, GOC:jl] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok is_a: GO:0003724 ! RNA helicase activity is_a: GO:0008026 ! ATP-dependent helicase activity is_a: GO:0008186 ! RNA-dependent ATPase activity [Term] id: GO:0004005 name: plasma membrane cation-transporting ATPase namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'plasma membrane ; GO:0005886' and the molecular function term 'cation-transporting ATPase activity ; GO:0019829'. is_obsolete: true [Term] id: GO:0004007 name: heavy metal-exporting ATPase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: heavy metal ion(in) + ATP + H2O = heavy metal ion(out) + ADP + phosphate." [GOC:ai] comment: This term was made obsolete because 'heavy metal' is an ambiguous grouping term which has no set meaning (see Pure Appl. Chem. Vol. 74, No. 5, pp. 793-807, 2002, for more information). To update annotations, consider the biological process term 'metal ion transporter activity ; GO:0046873' and its children. is_obsolete: true [Term] id: GO:0004008 name: copper-exporting ATPase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O + Cu2+(in) = ADP + phosphate + Cu2+(out)." [EC:3.6.3.4] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok exact_synonym: "copper exporting ATPase activity" [] xref_analog: EC:3.6.3.4 xref_analog: MetaCyc:3.6.3.4-RXN is_a: GO:0005375 ! copper ion transporter activity is_a: GO:0015662 ! ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism [Term] id: GO:0004009 name: ATP-binding cassette (ABC) transporter activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because ABC transporters are a protein family rather than a functional grouping. To update annotations, consider the molecular function term 'ATPase activity, coupled to transmembrane movement of substances ; GO:0042626' and its children and the cellular component term 'ATP-binding cassette (ABC) transporter complex ; GO:0043190'. is_obsolete: true [Term] id: GO:0004012 name: phospholipid-translocating ATPase activity namespace: molecular_function alt_id: GO:0008557 def: "Catalysis of the movement of phospholipids from one membrane face to the other ('flippase' activity), driven by the hydrolysis of ATP." [EC:3.6.3.1, PMID:9099684] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok related_synonym: "magnesium-ATPase" [] exact_synonym: "phospholipid translocating ATPase activity" [] narrow_synonym: "aminophospholipid-transporting ATPase" [] broad_synonym: "flippase" [] xref_analog: EC:3.6.3.1 xref_analog: MetaCyc:3.6.3.1-RXN is_a: GO:0015247 ! aminophospholipid transporter activity is_a: GO:0015662 ! ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism [Term] id: GO:0004013 name: adenosylhomocysteinase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-homocysteine + H2O = adenosine + L-homocysteine." [EC:3.3.1.1] subset: gosubset_prok xref_analog: EC:3.3.1.1 xref_analog: MetaCyc:ADENOSYLHOMOCYSTEINASE-RXN is_a: GO:0016802 ! trialkylsulfonium hydrolase activity [Term] id: GO:0004014 name: adenosylmethionine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine = (5-deoxy-5-adenosyl)(3-aminopropyl) methylsulfonium salt + CO2." [EC:4.1.1.50] subset: gosubset_prok exact_synonym: "adenosyl methionine decarboxylase activity" [] xref_analog: EC:4.1.1.50 xref_analog: MetaCyc:SAMDECARB-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004015 name: adenosylmethionine-8-amino-7-oxononanoate transaminase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + 8-amino-7-oxononanoate = S-adenosyl-4-methylthio-2-oxobutanoate + 7,8-diaminononanoate." [EC:2.6.1.62] subset: gosubset_prok exact_synonym: "adenosyl methionine-8-amino-7-oxononanoate transaminase activity" [] exact_synonym: "adenosylmethionine-8-amino-7-oxononanoate aminotransferase activity" [] xref_analog: EC:2.6.1.62 xref_analog: MetaCyc:DAPASYN-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004016 name: adenylate cyclase activity namespace: molecular_function def: "Catalysis of the reaction: ATP = 3',5'-cyclic AMP + diphosphate." [EC:4.6.1.1] subset: gosubset_prok related_synonym: "cAMP generating peptide activity" [] exact_synonym: "adenylyl cyclase activity" [] xref_analog: EC:4.6.1.1 xref_analog: MetaCyc:ADENYLATECYC-RXN is_a: GO:0009975 ! cyclase activity is_a: GO:0016849 ! phosphorus-oxygen lyase activity [Term] id: GO:0004017 name: adenylate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + AMP = 2 ADP." [EC:2.7.4.3] subset: gosubset_prok xref_analog: EC:2.7.4.3 xref_analog: MetaCyc:ADENYL-KIN-RXN is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor is_a: GO:0019201 ! nucleotide kinase activity [Term] id: GO:0004018 name: adenylosuccinate lyase activity namespace: molecular_function def: "Catalysis of the reaction: N6-(1,2-dicarboxyethyl)AMP = fumarate + AMP." [EC:4.3.2.2] subset: gosubset_prok xref_analog: EC:4.3.2.2 xref_analog: MetaCyc:AMPSYN-RXN xref_analog: Reactome:114564 xref_analog: Reactome:116974 xref_analog: Reactome:119737 xref_analog: Reactome:122168 xref_analog: Reactome:124196 xref_analog: Reactome:7065 xref_analog: Reactome:73799 is_a: GO:0016842 ! amidine-lyase activity [Term] id: GO:0004019 name: adenylosuccinate synthase activity namespace: molecular_function def: "Catalysis of the reaction: GTP + IMP + L-aspartate = GDP + phosphate + N6-(1,2-dicarboxyethyl)-AMP." [EC:6.3.4.4] subset: gosubset_prok xref_analog: EC:6.3.4.4 xref_analog: MetaCyc:ADENYLOSUCCINATE-SYNTHASE-RXN xref_analog: Reactome:111492 xref_analog: Reactome:111493 xref_analog: Reactome:111494 xref_analog: Reactome:118283 xref_analog: Reactome:120908 xref_analog: Reactome:125168 xref_analog: Reactome:125174 xref_analog: Reactome:7069 xref_analog: Reactome:73826 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004020 name: adenylylsulfate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + adenylylsulfate = ADP + 3'-phosphoadenosine 5'-phosphosulfate." [EC:2.7.1.25] subset: gosubset_prok exact_synonym: "adenosine-5'-phosphosulfate 3'-phosphotransferase" [] exact_synonym: "adenosine-5'-phosphosulphate 3'-phosphotransferase" [] exact_synonym: "adenylyl-sulfate kinase activity" [] exact_synonym: "adenylyl-sulphate kinase activity" [] xref_analog: EC:2.7.1.25 xref_analog: MetaCyc:ADENYLYLSULFKIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004021 name: alanine transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-alanine + 2-oxoglutarate = pyruvate + L-glutamate." [EC:2.6.1.2] subset: gosubset_prok exact_synonym: "alanine aminotransferase activity" [] xref_analog: EC:2.6.1.2 xref_analog: MetaCyc:ALANINE-AMINOTRANSFERASE-RXN xref_analog: Reactome:114797 xref_analog: Reactome:70522 xref_analog: Reactome:7079 is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004022 name: alcohol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+." [EC:1.1.1.1] subset: gosubset_prok narrow_synonym: "alcohol dehydrogenase (NAD) activity" [] xref_analog: EC:1.1.1.1 xref_analog: MetaCyc:ALCOHOL-DEHYDROG-GENERIC-RXN xref_analog: UM-BBD_enzymeID:e0023 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004023 name: alcohol dehydrogenase activity, metal ion-independent namespace: molecular_function def: "Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+." [EC:1.1.1.1] is_a: GO:0004022 ! alcohol dehydrogenase activity [Term] id: GO:0004024 name: alcohol dehydrogenase activity, zinc-dependent namespace: molecular_function def: "Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+." [EC:1.1.1.1] subset: gosubset_prok xref_analog: Reactome:115443 xref_analog: Reactome:115448 xref_analog: Reactome:115451 xref_analog: Reactome:115454 xref_analog: Reactome:118021 xref_analog: Reactome:118024 xref_analog: Reactome:120596 xref_analog: Reactome:120601 xref_analog: Reactome:120604 xref_analog: Reactome:120607 xref_analog: Reactome:124945 xref_analog: Reactome:124950 xref_analog: Reactome:124953 xref_analog: Reactome:124956 xref_analog: Reactome:7085 xref_analog: Reactome:71694 xref_analog: Reactome:71697 xref_analog: Reactome:71699 xref_analog: Reactome:71702 xref_analog: Reactome:71704 xref_analog: Reactome:71706 xref_analog: Reactome:71716 xref_analog: Reactome:71749 xref_analog: Reactome:71762 is_a: GO:0004022 ! alcohol dehydrogenase activity [Term] id: GO:0004025 name: alcohol dehydrogenase activity, iron-dependent namespace: molecular_function def: "Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+." [EC:1.1.1.1] subset: gosubset_prok is_a: GO:0004022 ! alcohol dehydrogenase activity [Term] id: GO:0004026 name: alcohol O-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + an alcohol = CoA + an acetyl ester." [EC:2.3.1.84] xref_analog: EC:2.3.1.84 xref_analog: MetaCyc:ALCOHOL-O-ACETYLTRANSFERASE-RXN is_a: GO:0016413 ! O-acetyltransferase activity [Term] id: GO:0004027 name: alcohol sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + an alcohol = adenosine 3',5'-bisphosphate + an alkyl sulfate." [EC:2.8.2.2] subset: gosubset_prok exact_synonym: "alcohol sulphotransferase activity" [] xref_analog: EC:2.8.2.2 xref_analog: MetaCyc:ALCOHOL-SULFOTRANSFERASE-RXN is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0004028 name: 3-chloroallyl aldehyde dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-chloroallyl aldehyde + H2O = 2 H+ + 2 e- + 3-chloroacrylic acid." [UM-BBD_enzymeID:e0432] subset: gosubset_prok xref_analog: EC:1.2.1.- xref_analog: Reactome:115535 xref_analog: Reactome:118123 xref_analog: Reactome:120712 xref_analog: Reactome:122937 xref_analog: Reactome:125028 xref_analog: Reactome:7095 xref_analog: Reactome:71259 xref_analog: UM-BBD_enzymeID:e0432 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004029 name: aldehyde dehydrogenase (NAD) activity namespace: molecular_function def: "Catalysis of the reaction: an aldehyde + NAD+ + H2O = an acid + NADH + H+." [EC:1.2.1.3] subset: gosubset_prok xref_analog: EC:1.2.1.3 xref_analog: MetaCyc:ALDHDEHYDROG-RXN xref_analog: Reactome:114594 xref_analog: Reactome:114599 xref_analog: Reactome:117008 xref_analog: Reactome:119783 xref_analog: Reactome:122206 xref_analog: Reactome:124226 xref_analog: Reactome:124231 xref_analog: Reactome:7097 xref_analog: Reactome:71690 xref_analog: Reactome:71722 xref_analog: UM-BBD_enzymeID:e0024 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004030 name: aldehyde dehydrogenase [NAD(P)+] activity namespace: molecular_function def: "Catalysis of the reaction: an aldehyde + NAD(P)+ + H2O = an acid + NAD(P)H + H+." [EC:1.2.1.5] subset: gosubset_prok xref_analog: EC:1.2.1.5 xref_analog: MetaCyc:ALDEHYDE-DEHYDROGENASE-(NAD(P)+)-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004031 name: aldehyde oxidase activity namespace: molecular_function def: "Catalysis of the reaction: an aldehyde + H2O + O2 = a carboxylic acid + H2O2." [EC:1.2.3.1] subset: gosubset_prok xref_analog: EC:1.2.3.1 xref_analog: MetaCyc:ALDEHYDE-OXIDASE-RXN is_a: GO:0016623 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, oxygen as acceptor [Term] id: GO:0004032 name: aldehyde reductase activity namespace: molecular_function def: "Catalysis of the reaction: an alditol + NADP+ = an aldose + NADPH + H+." [EC:1.1.1.21] subset: gosubset_prok exact_synonym: "aldose reductase" [] xref_analog: EC:1.1.1.21 xref_analog: MetaCyc:ALDEHYDE-REDUCTASE-RXN is_a: GO:0004033 ! aldo-keto reductase activity [Term] id: GO:0004033 name: aldo-keto reductase activity namespace: molecular_function def: "Catalysis of the NADPH-dependent reduction of carbonyl compounds." [GOC:jl, PMID:2498333] subset: gosubset_prok xref_analog: EC:1.1.1.- is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004034 name: aldose 1-epimerase activity namespace: molecular_function def: "Catalysis of the reaction: alpha-D-glucose = beta-D-glucose." [EC:5.1.3.3] subset: gosubset_prok xref_analog: EC:5.1.3.3 xref_analog: MetaCyc:ALDOSE-1-EPIMERASE-RXN is_a: GO:0016857 ! racemase and epimerase activity, acting on carbohydrates and derivatives [Term] id: GO:0004035 name: alkaline phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate." [EC:3.1.3.1] subset: gosubset_prok xref_analog: EC:3.1.3.1 xref_analog: MetaCyc:ALKAPHOSPHA-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004036 name: alkylbase DNA glycosidase activity namespace: molecular_function is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004037 name: allantoicase activity namespace: molecular_function def: "Catalysis of the reaction: allantoate + H2O = (-)-ureidoglycolate + urea." [EC:3.5.3.4] subset: gosubset_prok exact_synonym: "allantoine amidinohydrolase activity" [] xref_analog: EC:3.5.3.4 xref_analog: MetaCyc:ALLANTOICASE-RXN is_a: GO:0016813 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines [Term] id: GO:0004038 name: allantoinase activity namespace: molecular_function def: "Catalysis of the reaction: allantoin + H2O = allantoate." [EC:3.5.2.5] subset: gosubset_prok xref_analog: EC:3.5.2.5 xref_analog: MetaCyc:ALLANTOINASE-RXN is_a: GO:0016812 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides [Term] id: GO:0004039 name: allophanate hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: urea-1-carboxylate + H2O = 2 CO2 + 2 NH3." [EC:3.5.1.54] subset: gosubset_prok xref_analog: EC:3.5.1.54 xref_analog: MetaCyc:ALLOPHANATE-HYDROLASE-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004040 name: amidase activity namespace: molecular_function def: "Catalysis of the reaction: a monocarboxylic acid amide + H2O = a monocarboxylate + NH3." [EC:3.5.1.4] subset: gosubset_prok exact_synonym: "acetamidase" [] xref_analog: EC:3.5.1.4 xref_analog: MetaCyc:AMIDASE-RXN xref_analog: UM-BBD_enzymeID:e0068 is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004042 name: amino-acid N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + L-glutamate = CoA + N-acetyl-L-glutamate." [EC:2.3.1.1] subset: gosubset_prok xref_analog: EC:2.3.1.1 xref_analog: MetaCyc:N-ACETYLTRANSFER-RXN xref_analog: Reactome:118139 xref_analog: Reactome:120728 xref_analog: Reactome:122952 xref_analog: Reactome:70539 xref_analog: Reactome:7143 is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004043 name: L-aminoadipate-semialdehyde dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-2-aminoadipate 6-semialdehyde + NADP+ + H2O = L-2-aminoadipate + NADPH + H+." [EC:1.2.1.31] subset: gosubset_prok exact_synonym: "AAR" [] exact_synonym: "alpha-aminoadipate reductase" [] exact_synonym: "aminoadipate-semialdehyde dehydrogenase activity" [] xref_analog: EC:1.2.1.31 xref_analog: MetaCyc:1.2.1.31-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004044 name: amidophosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 5-phospho-beta-D-ribosylamine + diphosphate + L-glutamate = L-glutamine + 5-phospho-alpha-D-ribose 1-diphosphate + H2O." [EC:2.4.2.14] subset: gosubset_prok exact_synonym: "glutamine phosphoribosylpyrophosphate amidotransferase" [] xref_analog: EC:2.4.2.14 xref_analog: MetaCyc:PRPPAMIDOTRANS-RXN xref_analog: Reactome:114585 xref_analog: Reactome:116995 xref_analog: Reactome:119758 xref_analog: Reactome:122185 xref_analog: Reactome:124213 xref_analog: Reactome:7147 xref_analog: Reactome:73791 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004045 name: aminoacyl-tRNA hydrolase activity namespace: molecular_function alt_id: GO:0019850 def: "Catalysis of the reaction: N-substituted aminoacyl-tRNA + H2O = N-substituted amino acid + tRNA." [EC:3.1.1.29] subset: gosubset_prok exact_synonym: "aminoacyl-tRNA hydrolase reaction" [] exact_synonym: "peptidyl-tRNA hydrolase" [] xref_analog: EC:3.1.1.29 xref_analog: MetaCyc:AMINOCYL-TRNA-HYDROLASE-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004046 name: aminoacylase activity namespace: molecular_function def: "Catalysis of the reaction: an N-acyl-L-amino acid + H2O = a carboxylate + an L-amino acid." [EC:3.5.1.14] subset: gosubset_prok xref_analog: EC:3.5.1.14 xref_analog: MetaCyc:AMINOACYLASE-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004047 name: aminomethyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: (6S)-tetrahydrofolate + S-aminomethyldihydrolipoylprotein = (6R)-5,10-methylenetetrahydrofolate + NH3 + dihydrolipoylprotein." [EC:2.1.2.10] subset: gosubset_prok xref_analog: EC:2.1.2.10 xref_analog: MetaCyc:GCVT-RXN is_a: GO:0008168 ! methyltransferase activity [Term] id: GO:0004048 name: anthranilate phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: N-(5-phospho-D-ribosyl)-anthranilate + diphosphate = anthranilate + 5-phospho-a-D-ribose 1-diphosphate." [EC:2.4.2.18] subset: gosubset_prok xref_analog: EC:2.4.2.18 xref_analog: MetaCyc:PRTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004049 name: anthranilate synthase activity namespace: molecular_function def: "Catalysis of the reaction: chorismate + L-glutamine = anthranilate + pyruvate + L-glutamate." [EC:4.1.3.27] subset: gosubset_prok xref_analog: EC:4.1.3.27 xref_analog: MetaCyc:ANTHRANSYN-RXN is_a: GO:0016833 ! oxo-acid-lyase activity [Term] id: GO:0004050 name: apyrase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + 2 H2O = AMP + 2 phosphate." [EC:3.6.1.5, MetaCyc:APYRASE-RXN] comment: This term was made obsolete because it represents a gene product which can catalyze two reactions. To update annotations, consider the molecular function terms 'nucleoside-diphosphatase activity ; GO:0017110' and 'nucleoside-triphosphatase activity ; GO:0017111'. is_obsolete: true [Term] id: GO:0004051 name: arachidonate 5-lipoxygenase activity namespace: molecular_function def: "Catalysis of the reaction: arachidonate + O2 = (6E,8Z,11Z,14Z)-(5S)-5-hydroperoxycosa-6,8,11,14-tetraenoate." [EC:1.13.11.34] subset: gosubset_prok xref_analog: EC:1.13.11.34 xref_analog: MetaCyc:ARACHIDONATE-5-LIPOXYGENASE-RXN is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0004052 name: arachidonate 12-lipoxygenase activity namespace: molecular_function def: "Catalysis of the reaction: arachidonate + O2 = (5Z,8Z,10E,14Z)-(12S)-12-hydroperoxyicosa-5,8,10,14-tetraenoate." [EC:1.13.11.31] xref_analog: EC:1.13.11.31 xref_analog: MetaCyc:ARACHIDONATE-12-LIPOXYGENASE-RXN is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0004053 name: arginase activity namespace: molecular_function def: "Catalysis of the reaction: L-arginine + H2O = L-ornithine + urea." [EC:3.5.3.1] subset: gosubset_prok xref_analog: EC:3.5.3.1 xref_analog: MetaCyc:ARGINASE-RXN xref_analog: Reactome:114871 xref_analog: Reactome:117313 xref_analog: Reactome:120030 xref_analog: Reactome:122453 xref_analog: Reactome:70568 xref_analog: Reactome:7167 is_a: GO:0016813 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines [Term] id: GO:0004054 name: arginine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-arginine = ADP + N-phospho-L-arginine." [EC:2.7.3.3] xref_analog: EC:2.7.3.3 xref_analog: MetaCyc:ARGININE-KINASE-RXN is_a: GO:0016775 ! phosphotransferase activity, nitrogenous group as acceptor is_a: GO:0019202 ! amino acid kinase activity [Term] id: GO:0004055 name: argininosuccinate synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-citrulline + L-aspartate = AMP + diphosphate + (Nw-L-arginino)succinate." [EC:6.3.4.5] subset: gosubset_prok xref_analog: EC:6.3.4.5 xref_analog: MetaCyc:ARGSUCCINSYN-RXN xref_analog: Reactome:114965 xref_analog: Reactome:117429 xref_analog: Reactome:120117 xref_analog: Reactome:124602 xref_analog: Reactome:70576 xref_analog: Reactome:7171 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004056 name: argininosuccinate lyase activity namespace: molecular_function def: "Catalysis of the reaction: N-(L-arginino)succinate = fumarate + L-arginine." [EC:4.3.2.1] subset: gosubset_prok xref_analog: EC:4.3.2.1 xref_analog: MetaCyc:ARGSUCCINLYA-RXN xref_analog: Reactome:114876 xref_analog: Reactome:117318 xref_analog: Reactome:120035 xref_analog: Reactome:70572 xref_analog: Reactome:7173 is_a: GO:0016842 ! amidine-lyase activity [Term] id: GO:0004057 name: arginyltransferase activity namespace: molecular_function alt_id: GO:0042172 def: "Catalysis of the reaction: L-arginyl-tRNA + protein = tRNA + L-arginyl-protein." [EC:2.3.2.8] subset: gosubset_prok exact_synonym: "arginyl-tRNA-protein transferase" [] xref_analog: EC:2.3.2.8 xref_analog: MetaCyc:ARGINYLTRANSFERASE-RXN is_a: GO:0016755 ! transferase activity, transferring amino-acyl groups [Term] id: GO:0004058 name: aromatic-L-amino-acid decarboxylase activity namespace: molecular_function alt_id: GO:0016400 def: "Catalysis of the reaction: L-tryptophan = tryptamine + CO2." [EC:4.1.1.28] exact_synonym: "DOPA decarboxylase" [] xref_analog: EC:4.1.1.28 xref_analog: MetaCyc:AROMATIC-L-AMINO-ACID-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004059 name: aralkylamine N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + an aralkylamine = CoA + an N-acetylaralkylamine." [EC:2.3.1.87] xref_analog: EC:2.3.1.87 xref_analog: MetaCyc:ARALKYLAMINE-N-ACETYLTRANSFERASE-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004060 name: arylamine N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + an arylamine = CoA + an N-acetylarylamine." [EC:2.3.1.5] subset: gosubset_prok xref_analog: EC:2.3.1.5 xref_analog: MetaCyc:ARYLAMINE-N-ACETYLTRANSFERASE-RXN xref_analog: UM-BBD_enzymeID:e0341 is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004061 name: arylformamidase activity namespace: molecular_function def: "Catalysis of the reaction: N-formyl-L-kynurenine + H2O = formate + L-kynurenine." [EC:3.5.1.9] subset: gosubset_prok xref_analog: EC:3.5.1.9 xref_analog: MetaCyc:ARYLFORMAMIDASE-RXN xref_analog: Reactome:71195 xref_analog: Reactome:7190 is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004062 name: aryl sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + a phenol = adenosine 3',5'-bisphosphate + an aryl sulfate." [EC:2.8.2.1] subset: gosubset_prok exact_synonym: "aryl sulphotransferase activity" [] xref_analog: EC:2.8.2.1 xref_analog: MetaCyc:ARYL-SULFOTRANSFERASE-RXN is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0004063 name: aryldialkylphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: aryl dialkyl phosphate + H2O = dialkyl phosphate + an aryl alcohol." [EC:3.1.8.1] subset: gosubset_prok exact_synonym: "phosphotriesterase" [] xref_analog: EC:3.1.8.1 xref_analog: MetaCyc:ARYLDIALKYLPHOSPHATASE-RXN xref_analog: UM-BBD_enzymeID:e0054 is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004064 name: arylesterase activity namespace: molecular_function def: "Catalysis of the reaction: a phenyl acetate + H2O = a phenol + acetate." [EC:3.1.1.2] subset: gosubset_prok xref_analog: EC:3.1.1.2 xref_analog: MetaCyc:ARYLESTERASE-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004065 name: arylsulfatase activity namespace: molecular_function def: "Catalysis of the reaction: a phenol sulfate + H2O = a phenol + SO4(2-) (sulfate)." [EC:3.1.6.1] subset: gosubset_prok exact_synonym: "arylsulphatase activity" [] xref_analog: EC:3.1.6.1 xref_analog: MetaCyc:ARYLSULFAT-RXN is_a: GO:0008484 ! sulfuric ester hydrolase activity [Term] id: GO:0004066 name: asparagine synthase (glutamine-hydrolyzing) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-aspartate + L-glutamine = AMP + diphosphate + L-asparagine + L-glutamate." [EC:6.3.5.4] subset: gosubset_prok xref_analog: EC:6.3.5.4 xref_analog: MetaCyc:ASNSYNB-RXN xref_analog: Reactome:114890 xref_analog: Reactome:117332 xref_analog: Reactome:120049 xref_analog: Reactome:122462 xref_analog: Reactome:124498 xref_analog: Reactome:70598 xref_analog: Reactome:7213 is_a: GO:0016884 ! carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Term] id: GO:0004067 name: asparaginase activity namespace: molecular_function def: "Catalysis of the reaction: L-asparagine + H2O = L-aspartate + NH3." [EC:3.5.1.1] subset: gosubset_prok xref_analog: EC:3.5.1.1 xref_analog: MetaCyc:ASPARAGHYD-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004068 name: aspartate 1-decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: L-aspartate = beta-alanine + CO2." [EC:4.1.1.11] subset: gosubset_prok xref_analog: EC:4.1.1.11 xref_analog: MetaCyc:ASPDECARBOX-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004069 name: aspartate transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-aspartate + 2-oxoglutarate = oxaloacetate + L-glutamate." [EC:2.6.1.1] subset: gosubset_prok exact_synonym: "aspartate aminotransferase activity" [] xref_analog: EC:2.6.1.1 xref_analog: MetaCyc:ASPAMINOTRANS-RXN xref_analog: Reactome:114881 xref_analog: Reactome:114886 xref_analog: Reactome:117323 xref_analog: Reactome:117328 xref_analog: Reactome:120040 xref_analog: Reactome:120045 xref_analog: Reactome:122458 xref_analog: Reactome:124489 xref_analog: Reactome:124494 xref_analog: Reactome:70580 xref_analog: Reactome:70595 xref_analog: Reactome:7220 is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004070 name: aspartate carbamoyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: carbamoyl phosphate + L-aspartate = phosphate + N-carbamoyl-L-aspartate." [EC:2.1.3.2] subset: gosubset_prok xref_analog: EC:2.1.3.2 xref_analog: MetaCyc:ASPCARBTRANS-RXN xref_analog: Reactome:115107 xref_analog: Reactome:117610 xref_analog: Reactome:120275 xref_analog: Reactome:122653 xref_analog: Reactome:124692 xref_analog: Reactome:7225 xref_analog: Reactome:73459 is_a: GO:0016743 ! carboxyl- and carbamoyltransferase activity [Term] id: GO:0004071 name: aspartate-ammonia ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-aspartate + NH3 = AMP + diphosphate + L-asparagine." [EC:6.3.1.1] subset: gosubset_prok xref_analog: EC:6.3.1.1 xref_analog: MetaCyc:ASNSYNA-RXN is_a: GO:0016211 ! ammonia ligase activity [Term] id: GO:0004072 name: aspartate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-aspartate = ADP + 4-phospho-L-aspartate." [EC:2.7.2.4] subset: gosubset_prok xref_analog: EC:2.7.2.4 xref_analog: MetaCyc:ASPARTATEKIN-RXN is_a: GO:0016774 ! phosphotransferase activity, carboxyl group as acceptor is_a: GO:0019202 ! amino acid kinase activity [Term] id: GO:0004073 name: aspartate-semialdehyde dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-aspartate-4-semialdehyde + phosphate + NADP+ = L-4-aspartyl phosphate + NADPH + H+." [EC:1.2.1.11] subset: gosubset_prok xref_analog: EC:1.2.1.11 xref_analog: MetaCyc:ASPARTATE-SEMIALDEHYDE-DEHYDROGENASE-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004074 name: biliverdin reductase activity namespace: molecular_function def: "Catalysis of the reaction: bilirubin + NAD(P)+ = biliverdin + NAD(P)H + H+." [EC:1.3.1.24] xref_analog: EC:1.3.1.24 xref_analog: MetaCyc:BILIVERDIN-REDUCTASE-RXN is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0004075 name: biotin carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + biotin-carboxyl-carrier protein + CO2 = ADP + phosphate + carboxybiotin-carboxyl-carrier protein." [EC:6.3.4.14] subset: gosubset_prok xref_analog: EC:6.3.4.14 xref_analog: MetaCyc:BIOTIN-CARBOXYL-RXN is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004076 name: biotin synthase activity namespace: molecular_function def: "Catalysis of the reaction: dethiobiotin + sulfur = biotin." [EC:2.8.1.6] subset: gosubset_prok xref_analog: EC:2.8.1.6 xref_analog: MetaCyc:2.8.1.6-RXN is_a: GO:0016783 ! sulfurtransferase activity [Term] id: GO:0004077 name: biotin-[acetyl-CoA-carboxylase] ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + biotin + apo-(acetyl-CoA:carbon-dioxide ligase (ADP forming)) = AMP + diphosphate + (acetyl-CoA:carbon-dioxide ligase (ADP forming))." [EC:6.3.4.15] subset: gosubset_prok xref_analog: EC:6.3.4.15 xref_analog: MetaCyc:BIOTINLIG-RXN is_a: GO:0018271 ! biotin-protein ligase activity [Term] id: GO:0004078 name: biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + biotin + apo-(3-methylcrotonoyl-CoA:carbon-dioxide ligase (ADP-forming)) = AMP + diphosphate + (3-methylcrotonoyl-CoA:carbon-dioxide ligase (ADP-forming))." [EC:6.3.4.11] xref_analog: EC:6.3.4.11 xref_analog: MetaCyc:6.3.4.11-RXN is_a: GO:0018271 ! biotin-protein ligase activity [Term] id: GO:0004079 name: biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + biotin + apo-(methylmalonyl-CoA:pyruvate carboxytransferase) = AMP + diphosphate + (methylmalonyl-CoA:pyruvate carboxytransferase)." [EC:6.3.4.9] exact_synonym: "biotin-[methylmalonyl-CoA-carboxyltransferase] ligase activity" [] xref_analog: EC:6.3.4.9 xref_analog: MetaCyc:6.3.4.9-RXN is_a: GO:0018271 ! biotin-protein ligase activity [Term] id: GO:0004080 name: biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + biotin + apo-(propanoyl-CoA:carbon-dioxide ligase (ADP-forming)) = AMP + diphosphate + (propanoyl-CoA:carbon-dioxide ligase (ADP-forming))." [EC:6.3.4.10] xref_analog: EC:6.3.4.10 xref_analog: MetaCyc:6.3.4.10-RXN is_a: GO:0018271 ! biotin-protein ligase activity [Term] id: GO:0004081 name: bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity namespace: molecular_function def: "Catalysis of the reaction: P(1),P(4)-bis(5'-nucleosyl)tetraphosphate + H2O = NTP + NMP. Acts on bis(5'-guanosyl)-, bis(5'-xanthosyl)-, bis(5'-adenosyl)- and bis(5'-uridyl)-tetraphosphate." [EC:3.6.1.17, PMID:4955726] subset: gosubset_prok narrow_synonym: "diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase" [] xref_analog: EC:3.6.1.17 xref_analog: MetaCyc:3.6.1.17-RXN is_a: GO:0008796 ! bis(5'-nucleosyl)-tetraphosphatase activity [Term] id: GO:0004082 name: bisphosphoglycerate mutase activity namespace: molecular_function def: "Catalysis of the reaction: 3-phospho-D-glyceroyl phosphate = 2,3-bisphospho-D-glycerate." [EC:5.4.2.4] xref_analog: EC:5.4.2.4 xref_analog: MetaCyc:BISPHOSPHOGLYCERATE-MUTASE-RXN is_a: GO:0016868 ! intramolecular transferase activity, phosphotransferases [Term] id: GO:0004083 name: bisphosphoglycerate phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 2,3-diphosphoglycerate + H2O = 3-phosphoglycerate + phosphate." [EC:3.1.3.13] xref_analog: EC:3.1.3.13 xref_analog: MetaCyc:BISPHOSPHOGLYCERATE-PHOSPHATASE-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004084 name: branched-chain-amino-acid transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-leucine + 2-oxoglutarate = 4-methyl-2-oxopentanoate + L-glutamate." [EC:2.6.1.42] subset: gosubset_prok exact_synonym: "branched-chain amino acid aminotransferase activity" [] xref_analog: EC:2.6.1.42 xref_analog: MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN xref_analog: Reactome:115726 xref_analog: Reactome:115731 xref_analog: Reactome:118339 xref_analog: Reactome:118344 xref_analog: Reactome:120950 xref_analog: Reactome:120954 xref_analog: Reactome:123136 xref_analog: Reactome:123141 xref_analog: Reactome:125207 xref_analog: Reactome:70697 xref_analog: Reactome:70700 xref_analog: Reactome:70711 is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004085 name: butyryl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: butanoyl-CoA + ETF = 2-butenoyl-CoA + reduced ETF." [EC:1.3.99.2] subset: gosubset_prok xref_analog: EC:1.3.99.2 xref_analog: MetaCyc:BUTYRYL-COA-DEHYDROGENASE-RXN xref_analog: UM-BBD_enzymeID:e0034 is_a: GO:0003995 ! acyl-CoA dehydrogenase activity [Term] id: GO:0004086 name: carbamoyl-phosphate synthase activity namespace: molecular_function def: "Catalysis of a reaction that results in the formation of carbamoyl phosphate." [EC:6.3.4.16, EC:6.3.5.5, GOC:mah] subset: gosubset_prok xref_analog: EC:6.3.-.- is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004087 name: carbamoyl-phosphate synthase (ammonia) activity namespace: molecular_function def: "Catalysis of the reaction: 2 ATP + NH3 + CO2 + H2O = 2 ADP + phosphate + carbamoyl phosphate." [EC:6.3.4.16] subset: gosubset_prok xref_analog: EC:6.3.4.16 xref_analog: MetaCyc:6.3.4.16-RXN xref_analog: Reactome:114318 xref_analog: Reactome:116685 xref_analog: Reactome:119413 xref_analog: Reactome:70552 xref_analog: Reactome:7296 is_a: GO:0004086 ! carbamoyl-phosphate synthase activity [Term] id: GO:0004088 name: carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity namespace: molecular_function def: "Catalysis of the reaction: 2 ATP + L-glutamine + CO2 + H2O = 2 ADP + phosphate + glutamate + carbamoyl phosphate." [EC:6.3.5.5] subset: gosubset_prok exact_synonym: "carbamoyl-phosphate synthetase (glutamine-hydrolyzing)" [] xref_analog: EC:6.3.5.5 xref_analog: MetaCyc:CARBPSYN-RXN xref_analog: Reactome:115754 xref_analog: Reactome:118372 xref_analog: Reactome:120977 xref_analog: Reactome:123164 xref_analog: Reactome:125230 xref_analog: Reactome:7299 xref_analog: Reactome:73458 is_a: GO:0004086 ! carbamoyl-phosphate synthase activity is_a: GO:0016884 ! carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Term] id: GO:0004089 name: carbonate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: H2CO3 = CO2 + H2O." [EC:4.2.1.1] subset: gosubset_prok exact_synonym: "carbonic anhydrase activity" [] xref_analog: EC:4.2.1.1 xref_analog: MetaCyc:CARBODEHYDRAT-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004090 name: carbonyl reductase (NADPH) activity namespace: molecular_function def: "Catalysis of the reaction: R-CHOH-R' + NADP+ = R-CO-R' + NADPH + H+." [EC:1.1.1.184] subset: gosubset_prok xref_analog: EC:1.1.1.184 xref_analog: MetaCyc:CARBONYL-REDUCTASE-(NADPH)-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004091 name: carboxylesterase activity namespace: molecular_function alt_id: GO:0004302 def: "Catalysis of the reaction: a carboxylic ester + H2O = an alcohol + a carboxylic anion." [EC:3.1.1.1] subset: gosubset_prok exact_synonym: "carboxylic acid esterase" [] xref_analog: EC:3.1.1.1 xref_analog: MetaCyc:CARBOXYLESTERASE-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004092 name: carnitine O-acetyltransferase activity namespace: molecular_function alt_id: GO:0004093 alt_id: GO:0004094 def: "Catalysis of the reaction: acetyl-CoA + carnitine = CoA + O-acetylcarnitine." [EC:2.3.1.7] subset: gosubset_prok narrow_synonym: "carnitine O-acetyltransferase I activity" [] narrow_synonym: "carnitine O-acetyltransferase II activity" [] xref_analog: EC:2.3.1.7 xref_analog: MetaCyc:CARNITINE-O-ACETYLTRANSFERASE-RXN is_a: GO:0016406 ! carnitine O-acyltransferase activity is_a: GO:0016413 ! O-acetyltransferase activity [Term] id: GO:0004095 name: carnitine O-palmitoyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: palmitoyl-CoA + L-carnitine = CoA + L-palmitoylcarnitine." [EC:2.3.1.21] xref_analog: EC:2.3.1.21 xref_analog: MetaCyc:CARNITINE-O-PALMITOYLTRANSFERASE-RXN is_a: GO:0016406 ! carnitine O-acyltransferase activity is_a: GO:0016416 ! O-palmitoyltransferase activity [Term] id: GO:0004096 name: catalase activity namespace: molecular_function alt_id: GO:0016952 alt_id: GO:0016953 def: "Catalysis of the reaction: 2 H2O2 = O2 + 2 H2O." [EC:1.11.1.6] subset: gosubset_prok exact_synonym: "catalase reaction" [] narrow_synonym: "bacterial catalase-peroxidase activity" [] narrow_synonym: "haem catalase activity" [] narrow_synonym: "heme catalase activity" [] narrow_synonym: "manganese catalase activity" [] xref_analog: EC:1.11.1.6 xref_analog: MetaCyc:CATAL-RXN xref_analog: Reactome:114324 xref_analog: Reactome:116691 xref_analog: Reactome:119419 xref_analog: Reactome:121941 xref_analog: Reactome:123960 xref_analog: Reactome:76029 xref_analog: Reactome:76030 is_a: GO:0004601 ! peroxidase activity [Term] id: GO:0004097 name: catechol oxidase activity namespace: molecular_function def: "Catalysis of the reaction: 2 catechol + O2 = 2 1,2-benzoquinone + 2 H2O." [EC:1.10.3.1] subset: gosubset_prok xref_analog: EC:1.10.3.1 xref_analog: MetaCyc:CATECHOL-OXIDASE-RXN is_a: GO:0016682 ! oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor [Term] id: GO:0004098 name: cerebroside-sulfatase activity namespace: molecular_function def: "Catalysis of the reaction: a cerebroside 3-sulfate + H2O = a cerebroside + SO4(2-) (sulfate)." [EC:3.1.6.8] subset: gosubset_prok exact_synonym: "cerebroside-sulphatase activity" [] xref_analog: EC:3.1.6.8 xref_analog: MetaCyc:CEREBROSIDE-SULFATASE-RXN is_a: GO:0008484 ! sulfuric ester hydrolase activity [Term] id: GO:0004099 name: chitin deacetylase activity namespace: molecular_function def: "Catalysis of the reaction: chitin + H2O = chitosan + acetate." [EC:3.5.1.41] subset: gosubset_prok xref_analog: EC:3.5.1.41 xref_analog: MetaCyc:CHITIN-DEACETYLASE-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides is_a: GO:0019213 ! deacetylase activity [Term] id: GO:0004100 name: chitin synthase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + ((1,4)-(N-acetyl-beta-D-glucosaminyl))(n) = UDP + ((1,4)-(N-acetyl-beta-D-glucosaminyl))(n+1)." [EC:2.4.1.16] subset: gosubset_prok xref_analog: EC:2.4.1.16 xref_analog: MetaCyc:CHITIN-SYNTHASE-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0004102 name: choline O-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + choline = CoA + O-acetylcholine." [EC:2.3.1.6] subset: gosubset_prok xref_analog: EC:2.3.1.6 xref_analog: MetaCyc:CHOLINE-O-ACETYLTRANSFERASE-RXN is_a: GO:0016413 ! O-acetyltransferase activity [Term] id: GO:0004103 name: choline kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + choline = ADP + O-phosphocholine." [EC:2.7.1.32] subset: gosubset_prok xref_analog: EC:2.7.1.32 xref_analog: MetaCyc:CHOLINE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004104 name: cholinesterase activity namespace: molecular_function def: "Catalysis of the reaction: an acylcholine + H2O = choline + a carboxylic acid anion." [EC:3.1.1.8] subset: gosubset_prok xref_analog: EC:3.1.1.8 xref_analog: MetaCyc:CHOLINESTERASE-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004105 name: choline-phosphate cytidylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CTP + choline phosphate = diphosphate + CDP-choline." [EC:2.7.7.15] subset: gosubset_prok exact_synonym: "CTP:choline-phosphate cytidylyltransferase activity" [] xref_analog: EC:2.7.7.15 xref_analog: MetaCyc:2.7.7.15-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004106 name: chorismate mutase activity namespace: molecular_function def: "Catalysis of the reaction: chorismate = prephenate." [EC:5.4.99.5] subset: gosubset_prok xref_analog: EC:5.4.99.5 xref_analog: MetaCyc:CHORISMATEMUT-RXN is_a: GO:0016866 ! intramolecular transferase activity [Term] id: GO:0004107 name: chorismate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 5-O-(1-carboxyvinyl)-3-phosphoshikimate = chorismate + phosphate." [EC:4.2.3.5] subset: gosubset_prok xref_analog: EC:4.2.3.5 xref_analog: MetaCyc:CHORISMATE-SYNTHASE-RXN is_a: GO:0016838 ! carbon-oxygen lyase activity, acting on phosphates [Term] id: GO:0004108 name: citrate (Si)-synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + H2O + oxaloacetate = citrate + CoA." [EC:2.3.3.1] comment: Note that this function was formerly EC:4.1.3.7. subset: gosubset_prok xref_analog: EC:2.3.3.1 xref_analog: MetaCyc:CITSYN-RXN xref_analog: Reactome:114614 xref_analog: Reactome:117023 xref_analog: Reactome:119801 xref_analog: Reactome:122224 xref_analog: Reactome:70974 xref_analog: Reactome:8157 is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0004109 name: coproporphyrinogen oxidase activity namespace: molecular_function def: "Catalysis of the reaction: coproporphyrinogen-III + O2 + 2 H+ = protoporphyrinogen-IX + 2 CO2 + 2 H2O." [EC:1.3.3.3] subset: gosubset_prok exact_synonym: "coprogen oxidase activity" [] exact_synonym: "coproporphyrinogen-III oxidase activity" [] exact_synonym: "coproporphyrinogenase activity" [] xref_analog: EC:1.3.3.3 xref_analog: MetaCyc:RXN0-1461 is_a: GO:0016634 ! oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor [Term] id: GO:0004110 name: corticosteroid side-chain-isomerase activity namespace: molecular_function def: "Catalysis of the reaction: 11-deoxycorticosterone = 20-hydroxy-3-oxopregn-4-en-21-al." [EC:5.3.1.21] xref_analog: EC:5.3.1.21 xref_analog: MetaCyc:CORTICOSTEROID-SIDE-CHAIN-ISOMERASE-RXN is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004111 name: creatine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + creatine = ADP + phosphocreatine." [EC:2.7.3.2] xref_analog: EC:2.7.3.2 xref_analog: MetaCyc:CREATINE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016775 ! phosphotransferase activity, nitrogenous group as acceptor [Term] id: GO:0004112 name: cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: a nucleoside cyclic phosphate + H2O = a nucleoside phosphate." [GOC:mah] subset: gosubset_prok xref_analog: EC:3.1.4.- is_a: GO:0008081 ! phosphoric diester hydrolase activity [Term] id: GO:0004113 name: 2',3'-cyclic-nucleotide 3'-phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate." [EC:3.1.4.37] subset: gosubset_prok exact_synonym: "2',3'-cyclic nucleotide 3'-phosphodiesterase activity" [] xref_analog: EC:3.1.4.37 xref_analog: MetaCyc:3.1.4.37-RXN is_a: GO:0004112 ! cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004114 name: 3',5'-cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate." [EC:3.1.4.17] subset: gosubset_prok exact_synonym: "3',5' cyclic-nucleotide phosphodiesterase activity" [] xref_analog: EC:3.1.4.17 xref_analog: MetaCyc:3.1.4.17-RXN is_a: GO:0004112 ! cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004115 name: 3',5'-cyclic-AMP phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: adenosine 3',5'-cyclic phosphate + H2O = adenosine 5'-phosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "3',5' cAMP-specific phosphodiesterase activity" [] exact_synonym: "3',5'-cAMP-specific phosphodiesterase activity" [] exact_synonym: "3',5'-cyclic-AMP-specific phosphodiesterase activity" [] exact_synonym: "adenosine 3',5'-cyclophosphate-specific phosphodiesterase activity" [] exact_synonym: "cAMP-specific phosphodiesterase activity" [] exact_synonym: "cyclic AMP-specific phosphodiesterase activity" [] xref_analog: EC:3.1.4.- is_a: GO:0004114 ! 3',5'-cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004117 name: calmodulin-dependent cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate; catalytic activity is regulated by calmodulin." [GOC:mah] xref_analog: EC:3.1.4.- is_a: GO:0004114 ! 3',5'-cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004118 name: cGMP-stimulated cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate; catalytic activity is increased in the presence of cGMP." [GOC:mah] xref_analog: EC:3.1.4.- is_a: GO:0004114 ! 3',5'-cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004119 name: cGMP-inhibited cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the reaction: nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate; catalytic activity is decreased in the presence of cGMP." [GOC:mah] xref_analog: EC:3.1.4.- is_a: GO:0004114 ! 3',5'-cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004120 name: photoreceptor cyclic-nucleotide phosphodiesterase activity namespace: molecular_function def: "Catalysis of the hydrolysis of bonds in a cyclic nucleotide (nucleoside cyclic phosphate + H2O = nucleoside phosphate)." [EC:3.1.4.-] xref_analog: EC:3.1.4.- is_a: GO:0004114 ! 3',5'-cyclic-nucleotide phosphodiesterase activity [Term] id: GO:0004121 name: cystathionine beta-lyase activity namespace: molecular_function alt_id: GO:0008799 def: "Catalysis of the reaction: cystathionine + H2O = L-homocysteine + NH3 + pyruvate." [EC:4.4.1.8] subset: gosubset_prok exact_synonym: "beta-cystathionase" [] exact_synonym: "cystine lyase" [] xref_analog: EC:4.4.1.8 xref_analog: MetaCyc:CYSTATHIONINE-BETA-LYASE-RXN is_a: GO:0016846 ! carbon-sulfur lyase activity [Term] id: GO:0004122 name: cystathionine beta-synthase activity namespace: molecular_function def: "Catalysis of the reaction: L-serine + L-homocysteine = cystathionine + H2O." [EC:4.2.1.22] subset: gosubset_prok xref_analog: EC:4.2.1.22 xref_analog: MetaCyc:CYSTATHIONINE-BETA-SYNTHASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004123 name: cystathionine gamma-lyase activity namespace: molecular_function alt_id: GO:0016225 def: "Catalysis of the reaction: L-cystathionine + H2O = L-cysteine + NH3 + 2-oxobutanoate." [EC:4.4.1.1] subset: gosubset_prok exact_synonym: "cysteine desulfhydrase activity" [] xref_analog: EC:4.4.1.1 xref_analog: MetaCyc:CYSTAGLY-RXN is_a: GO:0016846 ! carbon-sulfur lyase activity [Term] id: GO:0004124 name: cysteine synthase activity namespace: molecular_function def: "Catalysis of the reaction: O3-acetyl-L-serine + H2S = L-cysteine + acetate." [EC:4.2.99.8] comment: Note that this function was formerly 4.2.99.8. subset: gosubset_prok exact_synonym: "O-acetylserine sulfhydrylase" [] xref_analog: EC:2.5.1.47 xref_analog: MetaCyc:ACSERLY-RXN is_a: GO:0016835 ! carbon-oxygen lyase activity [Term] id: GO:0004125 name: L-seryl-tRNASec selenium transferase activity namespace: molecular_function def: "Catalysis of the reaction: L-seryl-tRNA(Sec) + selenophosphate = L-selenocysteinyl-tRNA(Sec) + H2O + phosphate." [EC:2.9.1.1] subset: gosubset_prok exact_synonym: "cysteinyl-tRNA(Ser) selenium transferase activity" [] exact_synonym: "L-seryl-tRNA(Ser) selenium transferase activity" [] exact_synonym: "selenocysteine synthase activity" [] exact_synonym: "selenocysteinyl-tRNA(Ser) synthase activity" [] xref_analog: EC:2.9.1.1 xref_analog: MetaCyc:2.9.1.1-RXN is_a: GO:0016786 ! selenotransferase activity [Term] id: GO:0004126 name: cytidine deaminase activity namespace: molecular_function def: "Catalysis of the reaction: cytidine + H2O = uridine + NH3." [EC:3.5.4.5] subset: gosubset_prok xref_analog: EC:3.5.4.5 xref_analog: MetaCyc:CYTIDEAM2-RXN xref_analog: Reactome:114395 xref_analog: Reactome:116752 xref_analog: Reactome:119482 xref_analog: Reactome:121995 xref_analog: Reactome:124021 xref_analog: Reactome:73463 xref_analog: Reactome:8270 xref_analog: Reactome:83524 is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004127 name: cytidylate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (d)CMP = ADP + (d)CDP." [EC:2.7.4.14] subset: gosubset_prok xref_analog: EC:2.7.4.14 xref_analog: MetaCyc:CMPKI-RXN is_a: GO:0019201 ! nucleotide kinase activity [Term] id: GO:0004128 name: cytochrome-b5 reductase activity namespace: molecular_function def: "Catalysis of the reaction: NADH + H+ + 2 ferricytochrome b(5) = NAD+ + 2 ferrocytochrome b(5)." [EC:1.6.2.2, ISBN:0198547684] xref_analog: EC:1.6.2.2 xref_analog: MetaCyc:CYTOCHROME-B5-REDUCTASE-RXN is_a: GO:0009055 ! electron carrier activity is_a: GO:0016652 ! oxidoreductase activity, acting on NADH or NADPH, NAD or NADP as acceptor [Term] id: GO:0004129 name: cytochrome-c oxidase activity namespace: molecular_function def: "Catalysis of the reaction: 4 ferrocytochrome c + O2 = 4 ferricytochrome c + 2 H2O." [EC:1.9.3.1] subset: gosubset_prok narrow_synonym: "aa3-type cytochrome c oxidase" [] narrow_synonym: "ba3-type cytochrome c oxidase" [] narrow_synonym: "caa3-type cytochrome c oxidase" [] narrow_synonym: "cbb3-type cytochrome c oxidase" [] xref_analog: EC:1.9.3.1 xref_analog: MetaCyc:CYTOCHROME-C-OXIDASE-RXN xref_analog: TC:3.D.3.-.- is_a: GO:0015002 ! heme-copper terminal oxidase activity is_a: GO:0015078 ! hydrogen ion transporter activity is_a: GO:0016676 ! oxidoreductase activity, acting on heme group of donors, oxygen as acceptor [Term] id: GO:0004130 name: cytochrome-c peroxidase activity namespace: molecular_function def: "Catalysis of the reaction: 2 ferrocytochrome c + H2O2 = 2 ferricytochrome c + 2 H2O." [EC:1.11.1.5] subset: gosubset_prok xref_analog: EC:1.11.1.5 xref_analog: MetaCyc:CYTOCHROME-C-PEROXIDASE-RXN is_a: GO:0004601 ! peroxidase activity [Term] id: GO:0004131 name: cytosine deaminase activity namespace: molecular_function def: "Catalysis of the reaction: cytosine + H2O = uracil + NH3." [EC:3.5.4.1] subset: gosubset_prok xref_analog: EC:3.5.4.1 xref_analog: MetaCyc:CYTDEAM-RXN is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004132 name: dCMP deaminase activity namespace: molecular_function def: "Catalysis of the reaction: dCMP + H2O = dUMP + NH3." [EC:3.5.4.12] subset: gosubset_prok xref_analog: EC:3.5.4.12 xref_analog: MetaCyc:DCMP-DEAMINASE-RXN xref_analog: Reactome:114421 xref_analog: Reactome:116778 xref_analog: Reactome:119506 xref_analog: Reactome:124046 xref_analog: Reactome:73593 xref_analog: Reactome:8340 is_a: GO:0016814 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004133 name: glycogen debranching enzyme activity namespace: molecular_function def: "Catalysis of the cleavage of branch points in branched glycogen polymers." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004134 name: 4-alpha-glucanotransferase activity namespace: molecular_function def: "Catalysis of the transfer of a segment of a (1,4)-alpha-D-glucan to a new 4-position in an acceptor, which may be glucose or (1,4)-alpha-D-glucan." [EC:2.4.1.25] subset: gosubset_prok xref_analog: EC:2.4.1.25 xref_analog: MetaCyc:2.4.1.25-RXN xref_analog: Reactome:115781 xref_analog: Reactome:118396 xref_analog: Reactome:120995 xref_analog: Reactome:123185 xref_analog: Reactome:125255 xref_analog: Reactome:71550 xref_analog: Reactome:8344 is_a: GO:0004133 ! glycogen debranching enzyme activity is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0004135 name: amylo-alpha-1,6-glucosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of (1,6)-alpha-D-glucosidic branch linkages in glycogen phosphorylase limit dextrin. Limit dextrin is the highly branched core that remains after exhaustive treatment of glycogen with glycogen phosphorylase. It is formed because these enzymes cannot hydrolyze the 1,6 glycosidic linkages present." [EC:3.2.1.33, ISBN:0198506732] subset: gosubset_prok exact_synonym: "amylo-1,6-glucosidase activity" [] xref_analog: EC:3.2.1.33 xref_analog: MetaCyc:3.2.1.33-RXN xref_analog: Reactome:116255 xref_analog: Reactome:118953 xref_analog: Reactome:121529 xref_analog: Reactome:123573 xref_analog: Reactome:125708 xref_analog: Reactome:71551 xref_analog: Reactome:8347 is_a: GO:0004133 ! glycogen debranching enzyme activity is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004136 name: deoxyadenosine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + deoxyadenosine = ADP + dAMP." [EC:2.7.1.76] subset: gosubset_prok xref_analog: EC:2.7.1.76 xref_analog: MetaCyc:DEOXYADENOSINE-KINASE-RXN is_a: GO:0019136 ! deoxynucleoside kinase activity [Term] id: GO:0004137 name: deoxycytidine kinase activity namespace: molecular_function def: "Catalysis of the reaction: NTP + deoxycytidine = NDP + CMP." [EC:2.7.1.74] subset: gosubset_prok xref_analog: EC:2.7.1.74 xref_analog: MetaCyc:DEOXYCYTIDINE-KINASE-RXN is_a: GO:0019136 ! deoxynucleoside kinase activity [Term] id: GO:0004138 name: deoxyguanosine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + deoxyguanosine = ADP + dGMP." [EC:2.7.1.113] subset: gosubset_prok xref_analog: EC:2.7.1.113 xref_analog: MetaCyc:DEOXYGUANOSINE-KINASE-RXN is_a: GO:0019136 ! deoxynucleoside kinase activity [Term] id: GO:0004139 name: deoxyribose-phosphate aldolase activity namespace: molecular_function def: "Catalysis of the reaction: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde." [EC:4.1.2.4] subset: gosubset_prok xref_analog: EC:4.1.2.4 xref_analog: MetaCyc:DEOXYRIBOSE-P-ALD-RXN is_a: GO:0016832 ! aldehyde-lyase activity [Term] id: GO:0004140 name: dephospho-CoA kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + dephospho-CoA = ADP + CoA." [EC:2.7.1.24] subset: gosubset_prok xref_analog: EC:2.7.1.24 xref_analog: MetaCyc:DEPHOSPHOCOAKIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004141 name: dethiobiotin synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin." [EC:6.3.3.3] subset: gosubset_prok xref_analog: EC:6.3.3.3 xref_analog: MetaCyc:DETHIOBIOTIN-SYN-RXN is_a: GO:0016882 ! cyclo-ligase activity [Term] id: GO:0004142 name: diacylglycerol cholinephosphotransferase activity namespace: molecular_function def: "Catalysis of the reaction: CDP-choline + 1,2-diacylglycerol = CMP + a phosphatidylcholine." [EC:2.7.8.2] xref_analog: EC:2.7.8.2 xref_analog: MetaCyc:2.7.8.2-RXN is_a: GO:0017169 ! CDP-alcohol phosphatidyltransferase activity [Term] id: GO:0004143 name: diacylglycerol kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1,2-diacylglycerol = ADP + 1,2-diacylglycerol 3-phosphate." [EC:2.7.1.107] subset: gosubset_prok xref_analog: EC:2.7.1.107 xref_analog: MetaCyc:DIACYLGLYKIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004144 name: diacylglycerol O-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + 1,2-diacylglycerol = CoA + triacylglycerol." [EC:2.3.1.20] subset: gosubset_prok xref_analog: EC:2.3.1.20 xref_analog: MetaCyc:DIACYLGLYCEROL-O-ACYLTRANSFERASE-RXN xref_analog: Reactome:115211 xref_analog: Reactome:117715 xref_analog: Reactome:120360 xref_analog: Reactome:76102 xref_analog: Reactome:8383 is_a: GO:0016411 ! acylglycerol O-acyltransferase activity [Term] id: GO:0004145 name: diamine N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + an alkane-alpha,omega-diamine = CoA + an N-acetyldiamine." [EC:2.3.1.57] subset: gosubset_prok xref_analog: EC:2.3.1.57 xref_analog: MetaCyc:DIAMACTRANS-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004146 name: dihydrofolate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 5,6,7,8-tetrahydrofolate + NADP+ = 7,8-dihydrofolate + NADPH + H+." [EC:1.5.1.3] subset: gosubset_prok exact_synonym: "dihydrofolate reduction" [] xref_analog: EC:1.5.1.3 xref_analog: MetaCyc:DIHYDROFOLATEREDUCT-RXN is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004147 name: dihydrolipoamide branched chain acyltransferase activity namespace: molecular_function subset: gosubset_prok exact_synonym: "dihydrolipoamide branched chain transacylase" [] xref_analog: EC:2.3.1.- xref_analog: Reactome:118776 xref_analog: Reactome:118780 xref_analog: Reactome:118793 xref_analog: Reactome:121392 xref_analog: Reactome:121396 xref_analog: Reactome:121409 xref_analog: Reactome:70037 xref_analog: Reactome:70050 xref_analog: Reactome:70058 xref_analog: Reactome:8394 is_a: GO:0030523 ! dihydrolipoamide S-acyltransferase activity [Term] id: GO:0004148 name: dihydrolipoyl dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: protein N6-(dihydrolipoyl)lysine + NAD+ = protein N6-(lipoyl)lysine + NADH + H+." [EC:1.8.1.4] subset: gosubset_prok related_synonym: "dihydrolipoamide reduction" [] related_synonym: "dihydrolipoyl dehydrogenase complex" [] related_synonym: "dihydrolipoylprotein reduction" [] exact_synonym: "dihydrolipoamide dehydrogenase activity" [] xref_analog: EC:1.8.1.4 xref_analog: MetaCyc:DIHYDLIPOXN-RXN xref_analog: Reactome:117901 xref_analog: Reactome:117905 xref_analog: Reactome:117910 xref_analog: Reactome:118032 xref_analog: Reactome:118035 xref_analog: Reactome:118038 xref_analog: Reactome:120497 xref_analog: Reactome:120501 xref_analog: Reactome:120506 xref_analog: Reactome:120615 xref_analog: Reactome:120618 xref_analog: Reactome:120621 xref_analog: Reactome:122822 xref_analog: Reactome:122827 xref_analog: Reactome:122895 xref_analog: Reactome:122898 xref_analog: Reactome:124884 xref_analog: Reactome:124889 xref_analog: Reactome:124961 xref_analog: Reactome:124964 xref_analog: Reactome:70005 xref_analog: Reactome:70013 xref_analog: Reactome:70040 xref_analog: Reactome:70042 xref_analog: Reactome:70084 xref_analog: Reactome:70086 xref_analog: Reactome:71779 xref_analog: Reactome:8399 is_a: GO:0009055 ! electron carrier activity is_a: GO:0016668 ! oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor [Term] id: GO:0004149 name: dihydrolipoyllysine-residue succinyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: succinyl-CoA + dihydrolipoamide = CoA + S-succinyldihydrolipoamide." [EC:2.3.1.61] subset: gosubset_prok exact_synonym: "dihydrolipoamide S-succinyltransferase activity" [] xref_analog: EC:2.3.1.61 xref_analog: MetaCyc:DIHYDLIPSUCCTRANS-RXN xref_analog: Reactome:118789 xref_analog: Reactome:118797 xref_analog: Reactome:121405 xref_analog: Reactome:121413 xref_analog: Reactome:123445 xref_analog: Reactome:123449 xref_analog: Reactome:125569 xref_analog: Reactome:125573 xref_analog: Reactome:69994 xref_analog: Reactome:70009 xref_analog: Reactome:70095 xref_analog: Reactome:8404 is_a: GO:0016751 ! S-succinyltransferase activity [Term] id: GO:0004150 name: dihydroneopterin aldolase activity namespace: molecular_function def: "Catalysis of the reaction: 2-amino-4-hydroxy-6-(D-erythro-1,2,3-trihydroxypropyl)-7,8-dihydropteridine = 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine + glycolaldehyde." [EC:4.1.2.25] subset: gosubset_prok xref_analog: EC:4.1.2.25 xref_analog: MetaCyc:H2NEOPTERINALDOL-RXN is_a: GO:0016832 ! aldehyde-lyase activity [Term] id: GO:0004151 name: dihydroorotase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-dihydroorotate + H2O = N-carbamoyl-L-aspartate." [EC:3.5.2.3] subset: gosubset_prok xref_analog: EC:3.5.2.3 xref_analog: MetaCyc:DIHYDROOROT-RXN xref_analog: Reactome:115848 xref_analog: Reactome:118477 xref_analog: Reactome:121079 xref_analog: Reactome:123233 xref_analog: Reactome:125327 xref_analog: Reactome:73460 xref_analog: Reactome:8410 is_a: GO:0016812 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides [Term] id: GO:0004152 name: dihydroorotate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-dihydroorotate + acceptor = orotate + reduced acceptor." [EC:1.3.99.11] subset: gosubset_prok xref_analog: EC:1.3.99.11 xref_analog: MetaCyc:DIHYDROOROTATE-DEHYDROGENASE-RXN xref_analog: Reactome:114281 xref_analog: Reactome:116648 xref_analog: Reactome:119376 xref_analog: Reactome:121907 xref_analog: Reactome:123922 xref_analog: Reactome:73535 xref_analog: Reactome:8412 is_a: GO:0016627 ! oxidoreductase activity, acting on the CH-CH group of donors [Term] id: GO:0004153 name: dihydropterin deaminase activity namespace: molecular_function def: "Catalysis of the reaction: 7,8-dihydropterin + H20 = 7,8-dihydrolumazine + NH3." [GOC:jl, ISSN:05829879] is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004154 name: dihydropterin oxidase activity namespace: molecular_function def: "Catalysis of the reaction: a 7,8-dihydropteridine + O2 = a pterin + H2O2." [GOC:mah, PMID:1745247, PMID:6815189] xref_analog: EC:1.5.3.- is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0004155 name: 6,7-dihydropteridine reductase activity namespace: molecular_function def: "Catalysis of the reaction: NADP+ + 5,6,7,8-tetrahydropteridine = NADPH + H+ + 6,7-dihydropteridine." [EC:1.5.1.34] comment: Note that this function was formerly EC:1.6.99.7. subset: gosubset_prok related_synonym: "dihydropteridine reduction" [] exact_synonym: "dihydropteridine reductase activity" [] xref_analog: EC:1.5.1.34 xref_analog: MetaCyc:1.5.1.34-RXN xref_analog: Reactome:116055 xref_analog: Reactome:118686 xref_analog: Reactome:121320 xref_analog: Reactome:123401 xref_analog: Reactome:125520 xref_analog: Reactome:71128 xref_analog: Reactome:8421 is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004156 name: dihydropteroate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate + 4-aminobenzoate = diphosphate + dihydropteroate." [EC:2.5.1.15] subset: gosubset_prok xref_analog: EC:2.5.1.15 xref_analog: MetaCyc:H2PTEROATESYNTH-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004157 name: dihydropyrimidinase activity namespace: molecular_function def: "Catalysis of the reaction: 5,6-dihydrouracil + H2O = 3-ureidopropionate." [EC:3.5.2.2] subset: gosubset_prok xref_analog: EC:3.5.2.2 xref_analog: MetaCyc:DIHYDROPYRIMIDINASE-RXN xref_analog: Reactome:114579 xref_analog: Reactome:116989 xref_analog: Reactome:119752 xref_analog: Reactome:122179 xref_analog: Reactome:124207 xref_analog: Reactome:73469 xref_analog: Reactome:8430 is_a: GO:0016812 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides [Term] id: GO:0004158 name: dihydroorotate oxidase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-dihydroorotate + O2 = orotate + H2O2." [EC:1.3.3.1] subset: gosubset_prok xref_analog: EC:1.3.3.1 xref_analog: MetaCyc:DIHYDROOROTOX-RXN is_a: GO:0016634 ! oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor [Term] id: GO:0004159 name: dihydrouracil dehydrogenase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: 5,6-dihydrouracil + NAD+ = uracil + NADH + H+." [EC:1.3.1.1] xref_analog: EC:1.3.1.1 xref_analog: MetaCyc:DIHYDROURACIL-DEHYDROGENASE-(NAD+)-RXN xref_analog: Reactome:73530 xref_analog: Reactome:8435 is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0004160 name: dihydroxy-acid dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: 2,3-dihydroxy-3-methylbutanoate = 3-methyl-2-oxobutanoate + H2O." [EC:4.2.1.9] subset: gosubset_prok xref_analog: EC:4.2.1.9 xref_analog: MetaCyc:DIHYDROXYISOVALDEHYDRAT-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004161 name: dimethylallyltranstransferase activity namespace: molecular_function def: "Catalysis of the reaction: dimethylallyl diphosphate + isopentenyl diphosphate = diphosphate + geranyl diphosphate." [EC:2.5.1.1] comment: Note that this is the first step in the formation of farnesyl diphosphate. The second step is 'geranyltranstransferase activity ; GO:0004337'. Consider also annotating to the biological process term 'farnesyl diphosphate biosynthesis ; GO:0045337'. subset: gosubset_prok exact_synonym: "dimethylallyltransferase activity" [] xref_analog: EC:2.5.1.1 xref_analog: MetaCyc:GPPSYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004162 name: dimethylnitrosamine demethylase activity namespace: molecular_function def: "Catalysis of the removal of a methyl group from N-nitrosodimethylamine." [GOC:mah] exact_synonym: "N-nitrosodimethylamine demethylase activity" [] is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004163 name: diphosphomevalonate decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (R)-5-diphosphomevalonate = ADP + phosphate + isopentenyl diphosphate + CO2." [EC:4.1.1.33] subset: gosubset_prok xref_analog: EC:4.1.1.33 xref_analog: MetaCyc:DIPHOSPHOMEVALONTE-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004164 name: diphthine synthase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + 2-(3-carboxy-3-aminopropyl)-L-histidine = S-adenosyl-L-homocysteine + 2-(3-carboxy-3-(methylammonio)propyl)-L-histidine." [EC:2.1.1.98] subset: gosubset_prok xref_analog: EC:2.1.1.98 xref_analog: MetaCyc:DIPHTHINE-SYNTHASE-RXN is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004165 name: dodecenoyl-CoA delta-isomerase activity namespace: molecular_function alt_id: GO:0008461 def: "Catalysis of the reaction: 3-cis-dodecenoyl-CoA = 2-trans-dodecenoyl-CoA." [EC:5.3.3.8] subset: gosubset_prok exact_synonym: "delta(3)-cis-delta(2)-trans-enoyl-CoA isomerase" [] exact_synonym: "dodecenoyl-CoA D-isomerase activity" [] xref_analog: EC:5.3.3.8 xref_analog: MetaCyc:ENOYL-COA-DELTA-ISOM-RXN xref_analog: Reactome:109984 xref_analog: Reactome:115738 xref_analog: Reactome:118351 xref_analog: Reactome:120961 xref_analog: Reactome:123148 xref_analog: Reactome:125214 xref_analog: Reactome:8459 is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0004166 name: dolichyl-phosphate alpha-N-acetylglucosaminyltransferase activity namespace: molecular_function alt_id: GO:0004101 def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + dolichyl phosphate = UDP + dolichyl N-acetyl-alpha-D-glucosaminyl phosphate." [EC:2.4.1.153] xref_analog: EC:2.4.1.153 xref_analog: MetaCyc:2.4.1.153-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0004167 name: dopachrome isomerase activity namespace: molecular_function alt_id: GO:0048059 def: "Catalysis of the reaction: L-dopachrome = 5,6-dihydroxyindole-2-carboxylate." [EC:5.3.3.12] exact_synonym: "dopachrome delta-isomerase activity" [] broad_synonym: "dopachrome conversion activity" [] xref_analog: EC:5.3.3.12 xref_analog: MetaCyc:DOPACHROME-DELTA-ISOMERASE-RXN is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0004168 name: dolichol kinase activity namespace: molecular_function def: "Catalysis of the reaction: CTP + dolichol = CDP + dolichyl phosphate." [EC:2.7.1.108] xref_analog: EC:2.7.1.108 xref_analog: MetaCyc:DOLICHOL-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004169 name: dolichyl-phosphate-mannose-protein mannosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: dolichyl phosphate D-mannose + protein = dolichyl phosphate + O-D-mannosylprotein." [EC:2.4.1.109] subset: gosubset_prok exact_synonym: "dolichyl-phosphate-mannose-protein O-mannosyltransferase activity" [] exact_synonym: "protein O-mannosyltransferase" [] broad_synonym: "O-glycoside mannosyltransferase" [] xref_analog: EC:2.4.1.109 xref_analog: MetaCyc:2.4.1.109-RXN is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0004170 name: dUTP diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: dUTP + H2O = dUMP + diphosphate." [EC:3.6.1.23] subset: gosubset_prok exact_synonym: "dUTP pyrophosphatase activity" [] xref_analog: EC:3.6.1.23 xref_analog: MetaCyc:DUTP-PYROP-RXN xref_analog: Reactome:8479 is_a: GO:0047429 ! nucleoside-triphosphate diphosphatase activity [Term] id: GO:0004171 name: deoxyhypusine synthase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: [eIF5A-precursor]-lysine + spermidine = [eIF5A-precursor]-deoxyhypusine + propane-1,3-diamine." [EC:2.5.1.46] comment: This term was made obsolete because it represents a multistep reaction. To update annotations, use the biological process term 'spermidine catabolism to deoxyhypusine, using deoxyhypusine synthase ; GO:0050983'. related_synonym: "[eIF-5A]-deoxyhypusine synthase" [] is_obsolete: true [Term] id: GO:0004172 name: ecdysteroid UDP-glucosyl/UDP-glucuronosyl transferase activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents two molecular functions. To update annotations, consider the molecular function terms 'ecdysteroid UDP-glucosyltransferase activity ; GO:0050488' and 'ecdysteroid UDP-glucuronosyltransferase activity ; GO:0050489'. is_obsolete: true [Term] id: GO:0004173 name: ecdysone O-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: palmitoyl-CoA + ecdysone = CoA + ecdysone palmitate." [EC:2.3.1.139] xref_analog: EC:2.3.1.139 xref_analog: MetaCyc:ECDYSONE-O-ACYLTRANSFERASE-RXN is_a: GO:0008374 ! O-acyltransferase activity [Term] id: GO:0004174 name: electron-transferring-flavoprotein dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: reduced ETF + ubiquinone = ETF + ubiquinol." [EC:1.5.5.1] subset: gosubset_prok xref_analog: EC:1.5.5.1 xref_analog: MetaCyc:1.5.5.1-RXN is_a: GO:0016649 ! oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor [Term] id: GO:0004175 name: endopeptidase activity namespace: molecular_function alt_id: GO:0016809 def: "Catalysis of the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides, and comprising any enzyme of sub-subclasses EC:3.4.21-99. They are classfied according to the presence of essential catalytic residues or ions at their active sites." [ISBN:0198506732] subset: gosubset_prok related_synonym: "proteasome endopeptidase core" [] related_synonym: "proteasome endopeptidase regulator" [] exact_synonym: "endoprotease" [] narrow_synonym: "proteasome endopeptidase activity" [] broad_synonym: "proteinase" [] xref_analog: Reactome:115259 xref_analog: Reactome:122750 xref_analog: Reactome:1793 xref_analog: Reactome:68739 xref_analog: Reactome:68742 xref_analog: Reactome:68745 xref_analog: Reactome:68748 xref_analog: Reactome:68751 xref_analog: Reactome:68754 xref_analog: Reactome:68757 xref_analog: Reactome:68760 xref_analog: Reactome:68763 xref_analog: Reactome:68766 xref_analog: Reactome:68824 xref_analog: Reactome:69014 is_a: GO:0008233 ! peptidase activity [Term] id: GO:0004176 name: ATP-dependent peptidase activity namespace: molecular_function alt_id: GO:0004280 subset: gosubset_prok is_a: GO:0008233 ! peptidase activity [Term] id: GO:0004177 name: aminopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of N-terminal amino acid residues from oligopeptides or polypeptides." [GOC:jl, ISBN:0198506732] subset: gosubset_prok xref_analog: EC:3.4.11 is_a: GO:0008238 ! exopeptidase activity [Term] id: GO:0004178 name: leucyl aminopeptidase activity namespace: molecular_function def: "Catalysis of the release of an N-terminal amino acid, Xaa-Xbb-, in which Xaa is preferably Leu, but may be other amino acids including Pro although not Arg or Lys, and Xbb may be Pro." [EC:3.4.11.1] subset: gosubset_prok xref_analog: EC:3.4.11.1 xref_analog: MetaCyc:3.4.11.1-RXN is_a: GO:0004177 ! aminopeptidase activity is_a: GO:0008235 ! metalloexopeptidase activity [Term] id: GO:0004179 name: membrane alanyl aminopeptidase activity namespace: molecular_function def: "Catalysis of the release of an N-terminal amino acid, Xaa-Xbb- from a peptide, amide or arylamide. Xaa is preferably Ala, but may be most amino acids including Pro (slow action). When a terminal hydrophobic residue is followed by a prolyl residue, the two may be released as an intact Xaa-Pro dipeptide." [EC:3.4.11.2] subset: gosubset_prok xref_analog: EC:3.4.11.2 xref_analog: MetaCyc:3.4.11.2-RXN is_a: GO:0008235 ! metalloexopeptidase activity is_a: GO:0016284 ! alanine aminopeptidase activity [Term] id: GO:0004180 name: carboxypeptidase activity namespace: molecular_function def: "Catalysis of the hydrolytic cleavage of the terminal or penultimate peptide bond at the C-terminal end of a peptide or polypeptide." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0008238 ! exopeptidase activity [Term] id: GO:0004181 name: metallocarboxypeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of C-terminal amino acid residues from oligopeptides or polypeptides; a bivalent cation is an essential component of the catalytic mechanism." [ISBN:0198506732] subset: gosubset_prok xref_analog: EC:3.4.17 is_a: GO:0004180 ! carboxypeptidase activity is_a: GO:0008235 ! metalloexopeptidase activity [Term] id: GO:0004182 name: carboxypeptidase A activity namespace: molecular_function alt_id: GO:0008731 def: "Catalysis of the reaction: peptidyl-L-amino acid + H2O = peptide + L-amino acid. Little or no action with -Asp, -Glu, -Arg, -Lys or -Pro." [EC:3.4.17.1] subset: gosubset_prok xref_analog: EC:3.4.17.1 xref_analog: MetaCyc:CARBOXYPEPTIDASE-A-RXN is_a: GO:0004181 ! metallocarboxypeptidase activity [Term] id: GO:0004183 name: carboxypeptidase E activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-L-lysine (or peptidyl-L-arginine) + H2O = peptide + L-lysine (or L-arginine). Function is activated by Co2+ and inhibited by 1,10-phenanthroline and other chelating agents." [EC:3.4.17.10] exact_synonym: "carboxypeptidase H activity" [] xref_analog: EC:3.4.17.10 xref_analog: MetaCyc:CARBOXYPEPTIDASE-H-RXN is_a: GO:0004181 ! metallocarboxypeptidase activity [Term] id: GO:0004184 name: lysine carboxypeptidase activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-L-lysine (or peptidyl-L-arginine) + H2O = peptide + L-lysine (or L-arginine). Release of a C-terminal basic amino acid, preferentially lysine; inactivates bradykinin and anaphylatoxins in blood plasma." [EC:3.4.17.3] exact_synonym: "carboxypeptidase N activity" [] exact_synonym: "lysine (arginine) carboxypeptidase activity" [] xref_analog: EC:3.4.17.3 xref_analog: MetaCyc:LYSINE(ARGININE)-CARBOXYPEPTIDASE-RXN is_a: GO:0004181 ! metallocarboxypeptidase activity [Term] id: GO:0004185 name: serine carboxypeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of carboxyl terminal peptide linkages in oligopeptides or polypeptides; a serine residue is at the active center." [EC:3.4.16.-] subset: gosubset_prok xref_analog: EC:3.4.16 xref_analog: Reactome:8533 is_a: GO:0004180 ! carboxypeptidase activity is_a: GO:0008236 ! serine-type peptidase activity [Term] id: GO:0004186 name: carboxypeptidase C activity namespace: molecular_function def: "Catalysis of the release of a C-terminal amino acid with a broad specificity." [EC:3.4.16.5] narrow_synonym: "vacuolar carboxypeptidase Y" [] xref_analog: EC:3.4.16.5 xref_analog: MetaCyc:3.4.16.5-RXN is_a: GO:0004185 ! serine carboxypeptidase activity [Term] id: GO:0004187 name: carboxypeptidase D activity namespace: molecular_function def: "Catalysis of the preferential release of a C-terminal arginine or lysine residue. Function is inhibited by diisopropyl fluorophosphate and sensitive to thiol-blocking reagents." [EC:3.4.16.6] xref_analog: EC:3.4.16.6 xref_analog: MetaCyc:3.4.16.6-RXN is_a: GO:0004185 ! serine carboxypeptidase activity [Term] id: GO:0004188 name: serine-type Pro-X carboxypeptidase activity namespace: molecular_function alt_id: GO:0008323 def: "Catalysis of the cleavage of a Pro-Xaa bond by a serine-type peptidase mechanism to release a C-terminal amino acid." [EC:3.4.16.2] narrow_synonym: "lysosomal Pro-X carboxypeptidase activity" [] xref_analog: EC:3.4.16.2 xref_analog: MetaCyc:3.4.16.2-RXN is_a: GO:0004185 ! serine carboxypeptidase activity is_a: GO:0008322 ! Pro-X carboxypeptidase activity [Term] id: GO:0004189 name: tubulinyl-Tyr carboxypeptidase activity namespace: molecular_function def: "Catalysis of the cleavage of the Glu-Tyr bond to release the C-terminal tyrosine residue from the native tyrosinated tubulin. Inactive on Z-Glu-Tyr." [EC:3.4.17.17] exact_synonym: "tubulinyl-tyrosine carboxypeptidase activity" [] xref_analog: EC:3.4.17.17 xref_analog: MetaCyc:3.4.17.17-RXN is_a: GO:0004181 ! metallocarboxypeptidase activity [Term] id: GO:0004190 name: aspartic-type endopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides; the optimum reaction pH is below 5 due to an aspartic residue involved in the catalytic process." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "aspartic endopeptidase activity" [] exact_synonym: "aspartic protease activity" [] exact_synonym: "aspartyl protease activity" [] exact_synonym: "carboxyl protease activity" [] xref_analog: EC:3.4.23 xref_analog: Reactome:1933 is_a: GO:0004175 ! endopeptidase activity [Term] id: GO:0004191 name: barrierpepsin activity namespace: molecular_function def: "Catalysis of the selected cleavage of the Leu6-Lys7 bond in the pheromone alpha-mating factor." [EC:3.4.23.35] xref_analog: EC:3.4.23.35 xref_analog: MetaCyc:3.4.23.35-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004192 name: cathepsin D activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Specificity similar to, but narrower than, that of pepsin A. Does not cleave the Gln4-His5 bond in the B chain of insulin." [EC:3.4.23.5] xref_analog: EC:3.4.23.5 xref_analog: MetaCyc:3.4.23.5-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004193 name: cathepsin E activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Similar to cathepsin D, but slightly broader specificity." [EC:3.4.23.34] xref_analog: EC:3.4.23.34 xref_analog: MetaCyc:3.4.23.34-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004194 name: pepsin A activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Preferential cleavage: hydrophobic, preferably aromatic, residues in P1 and P1' positions. Cleaves Phe1-Val2, Gln4-His5, Glu13-Ala14, Ala14-Leu15, Leu15-Tyr16, Tyr16-Leu17, Gly23-Phe24, Phe24-Phe25 and Phe25-Tyr26 bonds in the B chain of insulin." [EC:3.4.23.1] xref_analog: EC:3.4.23.1 xref_analog: MetaCyc:3.4.23.1-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004195 name: renin activity namespace: molecular_function def: "Catalysis of the cleavage of Leu-Xaa bond in angiotensinogen to generate angiotensin I." [EC:3.4.23.15] xref_analog: EC:3.4.23.15 xref_analog: MetaCyc:3.4.23.15-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004196 name: saccharopepsin activity namespace: molecular_function def: "Catalysis of the degradation of gelatin; little activity on hemoglobin. Specificity on B chain of insulin more restricted than pepsin A; does not cleave Phe1-Val2, Gln4-His5 or Gly23-Phe24." [EC:3.4.23.25] xref_analog: EC:3.4.23.25 xref_analog: MetaCyc:3.4.23.25-RXN is_a: GO:0004190 ! aspartic-type endopeptidase activity [Term] id: GO:0004197 name: cysteine-type endopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides; a cysteine residue is at the active center." [EC:3.4.22.-, ISBN:0198506732] subset: gosubset_prok exact_synonym: "thiol endopeptidase" [] narrow_synonym: "lysosomal cysteine-type endopeptidase" [] xref_analog: EC:3.4.22 is_a: GO:0004175 ! endopeptidase activity is_a: GO:0008234 ! cysteine-type peptidase activity [Term] id: GO:0004198 name: calpain activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Tyr-Xaa, Met-Xaa or Arg-Xaa with Leu or Val as the P2 residue." [EC:3.4.22.17] subset: gosubset_prok xref_analog: EC:3.4.22.17 xref_analog: MetaCyc:3.4.22.17-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004199 name: caspase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the release of interleukin 1b by specific cleavage at -Asp116Ala- and -Asp27Gly- bonds in precursor. Also hydrolyzes the small-molecule substrate, Ac-Tyr-Val-Ala-AspNHMecA. It has cytosolic endopeptidase activity with specificity for the hydrolysis of aspartyl bonds (C14 family of clan CD). The 'c-' reflects the cysteine protease mechanism and the '-asp-ase' the ability to cleave after aspartic acid." [EC:3.4.22.36, ISBN:0120793709, PMID:8861900] comment: This term was made obsolete because it was defined incorrectly, in terms specific to a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004200 name: signaling (initiator) caspase activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it includes biological process information. To update annotations, use the molecular function term 'caspase activity ; GO:0030693', and consider the biological process term 'apoptosis ; GO:0006915' and its children. exact_synonym: "signalling (initiator) caspase activity" [] is_obsolete: true [Term] id: GO:0004201 name: caspase-1 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the release of interleukin 1-beta by specific cleavage of Asp116-Ala117 and Asp27-Gly28 bonds in precursor. Enzymes with this function can also hydrolyze the terminal bond in the small-molecule substrate, Ac-Tyr-Val-Ala-Asp-NHMec." [EC:3.4.22.36] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. broad_synonym: "ICE" [] is_obsolete: true [Term] id: GO:0004202 name: caspase-2 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004203 name: caspase-4 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004204 name: caspase-5 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004205 name: caspase-8 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004206 name: caspase-10 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004207 name: effector caspase activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it includes biological process information. To update annotations, use the molecular function term 'caspase activity ; GO:0030693', and consider the biological process term 'apoptosis ; GO:0006915' and its children. is_obsolete: true [Term] id: GO:0004208 name: caspase-3 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the cleavage at the terminal bond of the motif: Asp-Xaa-Xaa-Asp-Xaa. Enzymes with this function are members of the peptidase family C14 and they appear to function in the inactivation of proteins involved in cellular repair and homeostasis during the effector stage of apoptosis." [ISBN:0120793709] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004209 name: caspase-6 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004210 name: caspase-7 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004211 name: caspase-9 activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'caspase activity ; GO:0030693'. is_obsolete: true [Term] id: GO:0004212 name: lysosomal cysteine-type endopeptidase namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'lysosome ; GO:0005764' and the molecular function term 'cysteine-type endopeptidase activity ; GO:0004197'. is_obsolete: true [Term] id: GO:0004213 name: cathepsin B activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds with a broad specificity. Preferentially cleaves the terminal bond of -Arg-Arg-Xaa motifs in small molecule substrates (thus differing from cathepsin L). In addition to being an endopeptidase, shows peptidyl-dipeptidase activity, liberating C-terminal dipeptides." [EC:3.4.22.1] xref_analog: EC:3.4.22.1 xref_analog: MetaCyc:3.4.22.1-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004214 name: dipeptidyl-peptidase I activity namespace: molecular_function def: "Catalysis of the release of an N-terminal dipeptide, Xaa-Xbb from Xaa-Xbb-Xcc, except when Xaa is Arg or Lys, or Xbb or Xcc is Pro." [EC:3.4.14.1] exact_synonym: "cathepsin C" [] xref_analog: EC:3.4.14.1 xref_analog: MetaCyc:3.4.14.1-RXN is_a: GO:0008234 ! cysteine-type peptidase activity is_a: GO:0008239 ! dipeptidyl-peptidase activity [Term] id: GO:0004215 name: cathepsin H activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds, acting as an aminopeptidase (notably, cleaving Arg-Xaa bonds) as well as an endopeptidase." [EC:3.4.22.16] xref_analog: EC:3.4.22.16 xref_analog: MetaCyc:3.4.22.16-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004216 name: cathepsin K activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Has a broad proteolytic activity. With small-molecule substrates and inhibitors, the major determinant of specificity is P2, which is preferably Leu, Met > Phe, and not Arg." [EC:3.4.22.38] xref_analog: EC:3.4.22.38 xref_analog: MetaCyc:3.4.22.38-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004217 name: cathepsin L activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Specificity close to that of papain. As compared to cathepsin B, cathepsin L exhibits higher activity towards protein substrates, but has little activity on Z-Arg-Arg-NHMec, and no peptidyl-dipeptidase activity." [EC:3.4.22.15] xref_analog: EC:3.4.22.15 xref_analog: MetaCyc:3.4.22.15-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004218 name: cathepsin S activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Similar to cathepsin L, but with much less activity on the terminal bond of Z-Phe-Arg-NHMec, and more activity on the terminal bond of Z-Val-Val-Arg-Xaa compounds." [EC:3.4.22.27] xref_analog: EC:3.4.22.27 xref_analog: MetaCyc:3.4.22.27-RXN is_a: GO:0004197 ! cysteine-type endopeptidase activity [Term] id: GO:0004219 name: pyroglutamyl-peptidase I activity namespace: molecular_function def: "Catalysis of the reaction: pyroglutamyl-peptide + H2O = pyroglutamate + peptide." [EC:3.4.19.3] comment: Note that pyroglutamic acid has sometimes been referred to as 5-oxoproline. subset: gosubset_prok xref_analog: EC:3.4.19.3 xref_analog: MetaCyc:PYROGLUTAMYL-PEPTIDASE-I-RXN is_a: GO:0008234 ! cysteine-type peptidase activity is_a: GO:0016920 ! pyroglutamyl-peptidase activity [Term] id: GO:0004221 name: ubiquitin thiolesterase activity namespace: molecular_function alt_id: GO:0008577 def: "Catalysis of the reaction: ubiquitin C-terminal thiolester + H2O = ubiquitin + a thiol. Hydrolysis of esters, including those formed between thiols such as dithiothreitol or glutathione and the C-terminal glycine residue of the polypeptide ubiquitin, and AMP-ubiquitin." [EC:3.1.2.15] subset: gosubset_prok exact_synonym: "ubiquitin C-terminal hydrolase activity" [] exact_synonym: "ubiquitin thiolesterase activity" [] narrow_synonym: "ubiquitinyl hydrolase 1 activity" [] xref_analog: EC:3.1.2.15 xref_analog: MetaCyc:UBIQUITIN-THIOLESTERASE-RXN is_a: GO:0004843 ! ubiquitin-specific protease activity is_a: GO:0016790 ! thiolester hydrolase activity [Term] id: GO:0004222 name: metalloendopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides. Enzymes of this class contain a chelated metal ion essential to their catalytic activity at their active sites." [ISBN:0198506732] subset: gosubset_prok broad_synonym: "metalloprotease" [] broad_synonym: "metalloproteinase" [] xref_analog: EC:3.4.24 is_a: GO:0004175 ! endopeptidase activity is_a: GO:0008237 ! metallopeptidase activity [Term] id: GO:0004226 name: Gly-X carboxypeptidase activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-Gly-Xaa + H2O = peptidyl-Gly + Xaa." [EC:3.4.17.4] subset: gosubset_prok xref_analog: EC:3.4.17.4 xref_analog: MetaCyc:GLY-X-CARBOXYPEPTIDASE-RXN is_a: GO:0004181 ! metallocarboxypeptidase activity [Term] id: GO:0004228 name: gelatinase A activity namespace: molecular_function def: "Catalysis of the cleavage of gelatin type I and collagen types IV, V, VII, X. Cleaves the collagen-like sequence Pro-Gln-Gly-Ile-Ala-Gly-Gln at the Gly-Ile bond." [EC:3.4.24.24] exact_synonym: "matrix metalloproteinase 2" [] exact_synonym: "MMP-2" [] xref_analog: EC:3.4.24.24 xref_analog: MetaCyc:3.4.24.24-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004229 name: gelatinase B activity namespace: molecular_function def: "Catalysis of the cleavage of gelatin types I and V and collagen types IV and V." [EC:3.4.24.35] exact_synonym: "matrix metalloproteinase 9" [] exact_synonym: "MMP-9" [] xref_analog: EC:3.4.24.35 xref_analog: MetaCyc:3.4.24.35-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004230 name: glutamyl aminopeptidase activity namespace: molecular_function def: "Catalysis of the release of a N-terminal glutamate (and to a lesser extent aspartate) from a peptide." [EC:3.4.11.7] subset: gosubset_prok xref_analog: EC:3.4.11.7 xref_analog: MetaCyc:3.4.11.7-RXN is_a: GO:0004177 ! aminopeptidase activity is_a: GO:0008235 ! metalloexopeptidase activity [Term] id: GO:0004231 name: insulysin activity namespace: molecular_function def: "Catalysis of the degradation of insulin, glucagon and other polypeptides. No action on proteins." [EC:3.4.24.56] subset: gosubset_prok exact_synonym: "insulinase" [] xref_analog: EC:3.4.24.56 xref_analog: MetaCyc:3.4.24.56-RXN xref_analog: Reactome:115700 xref_analog: Reactome:118295 xref_analog: Reactome:120917 xref_analog: Reactome:123108 xref_analog: Reactome:125189 xref_analog: Reactome:74729 xref_analog: Reactome:9609 is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004232 name: interstitial collagenase activity namespace: molecular_function def: "Catalysis of the preferential cleavage of one bond in native collagen. Cleavage of the triple helix of collagen at about three-quarters of the length of the molecule from the N-terminus, at Gly775-Ile776 in the alpha-1(I) chain. Cleaves synthetic substrates and alpha-macroglobulins at bonds where P1' is a hydrophobic residue." [EC:3.4.24.7] exact_synonym: "matrix metalloproteinase 1" [] exact_synonym: "MMP-1" [] xref_analog: EC:3.4.24.7 xref_analog: MetaCyc:3.4.24.7-RXN is_a: GO:0008133 ! collagenase activity [Term] id: GO:0004234 name: macrophage elastase activity namespace: molecular_function def: "Catalysis of the hydrolysis of soluble and insoluble elastin. Specific cleavages are also produced at Ala14-Leu15 and Tyr16-Leu17 in the B chain of insulin." [EC:3.4.24.65] exact_synonym: "matrix metalloproteinase 12" [] exact_synonym: "metalloesterase" [] exact_synonym: "MMP-12" [] xref_analog: EC:3.4.24.65 xref_analog: MetaCyc:3.4.24.65-RXN is_a: GO:0004222 ! metalloendopeptidase activity is_a: GO:0042708 ! elastase activity [Term] id: GO:0004235 name: matrilysin activity namespace: molecular_function def: "Catalysis of the cleavage of Ala14-Leu15 and Tyr16-Leu17 in B chain of insulin. No action on collagen types I, II, IV and V. Cleaves gelatin chain alpha-2(I) > alpha-1(I)." [EC:3.4.24.23] exact_synonym: "matrix metalloproteinase 7" [] exact_synonym: "MMP-7" [] xref_analog: EC:3.4.24.23 xref_analog: MetaCyc:3.4.24.23-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004237 name: membrane dipeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of dipeptides." [EC:3.4.13.19] subset: gosubset_prok exact_synonym: "dehydropeptidase I" [] exact_synonym: "DPH I" [] exact_synonym: "renal dipeptidase" [] xref_analog: EC:3.4.13.19 xref_analog: MetaCyc:3.4.13.19-RXN is_a: GO:0008235 ! metalloexopeptidase activity is_a: GO:0016805 ! dipeptidase activity [Term] id: GO:0004238 name: meprin A activity namespace: molecular_function def: "Catalysis of the hydrolysis of protein and peptide substrates preferentially on carboxyl side of hydrophobic residues." [EC:3.4.24.18] xref_analog: EC:3.4.24.18 xref_analog: MetaCyc:3.4.24.18-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004239 name: methionyl aminopeptidase activity namespace: molecular_function def: "Catalysis of the release of N-terminal amino acids, preferentially methionine, from peptides and arylamides." [EC:3.4.11.18] subset: gosubset_prok xref_analog: EC:3.4.11.18 xref_analog: MetaCyc:3.4.11.18-RXN is_a: GO:0004177 ! aminopeptidase activity is_a: GO:0008235 ! metalloexopeptidase activity [Term] id: GO:0004240 name: mitochondrial processing peptidase activity namespace: molecular_function def: "Catalysis of the release of N-terminal transit peptides from precursor proteins imported into the mitochondrion, typically with Arg in position P2." [EC:3.4.24.64] exact_synonym: "MPP" [] narrow_synonym: "alpha-mitochondrial processing peptidase" [] narrow_synonym: "beta-mitochondrial processing peptidase" [] xref_analog: EC:3.4.24.64 xref_analog: MetaCyc:3.4.24.64-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004241 name: alpha-mitochondrial processing peptidase namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'mitochondrial processing peptidase activity ; GO:0004240' and the cellular component term 'mitochondrion ; GO:0005739'. exact_synonym: "alpha-MPP" [] is_obsolete: true [Term] id: GO:0004242 name: beta-mitochondrial processing peptidase namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'mitochondrial processing peptidase activity ; GO:0004240' and the cellular component term 'mitochondrion ; GO:0005739'. exact_synonym: "beta-MPP" [] is_obsolete: true [Term] id: GO:0004243 name: mitochondrial intermediate peptidase activity namespace: molecular_function def: "Catalysis of the release of an N-terminal octapeptide as second stage of processing of some proteins imported in the mitochondrion." [EC:3.4.24.59] broad_synonym: "MIP" [] xref_analog: EC:3.4.24.59 xref_analog: MetaCyc:3.4.24.59-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004244 name: mitochondrial inner membrane peptidase activity namespace: molecular_function def: "Catalysis of the maturation of mitochondrial precursor proteins delivered to the intermembrane space." [PMID:12191769] broad_synonym: "IMP" [] xref_analog: EC:3.4.99.- is_a: GO:0004175 ! endopeptidase activity [Term] id: GO:0004245 name: neprilysin activity namespace: molecular_function def: "Catalysis of the preferential cleavage at the amino group of hydrophobic residues in insulin, casein, hemoglobin, and a number of other proteins and polypeptides." [EC:3.4.24.11] subset: gosubset_prok xref_analog: EC:3.4.24.11 xref_analog: MetaCyc:3.4.24.11-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004246 name: peptidyl-dipeptidase A activity namespace: molecular_function def: "Catalysis of the release of a C-terminal dipeptide, Xaa-Xbb from oligopeptide-Xaa-Xbb, when Xaa is not Pro, and Xbb is neither Asp nor Glu. Converts angiotensin I to angiotensin II." [EC:3.4.15.1] subset: gosubset_prok exact_synonym: "angiotensin I-converting enzyme" [] broad_synonym: "ACE activity" [] xref_analog: EC:3.4.15.1 xref_analog: MetaCyc:3.4.15.1-RXN is_a: GO:0008237 ! metallopeptidase activity is_a: GO:0008241 ! peptidyl-dipeptidase activity [Term] id: GO:0004247 name: saccharolysin activity namespace: molecular_function def: "Catalysis of the cleavage of Pro-Phe and Ala-Ala bonds." [EC:3.4.24.37] xref_analog: EC:3.4.24.37 xref_analog: MetaCyc:3.4.24.37-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004248 name: stromelysin 1 activity namespace: molecular_function def: "Catalysis of the preferential cleavage where P1', P2' and P3' are hydrophobic residues." [EC:3.4.24.17] exact_synonym: "matrix metalloproteinase 3" [] exact_synonym: "MMP-3" [] xref_analog: EC:3.4.24.17 xref_analog: MetaCyc:3.4.24.17-RXN is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004249 name: stromelysin 3 activity namespace: molecular_function exact_synonym: "matrix metalloproteinase 11" [] exact_synonym: "MMP-11" [] xref_analog: EC:3.4.24.- is_a: GO:0004222 ! metalloendopeptidase activity [Term] id: GO:0004250 name: aminopeptidase I activity namespace: molecular_function def: "Catalysis of the release of an N-terminal amino acid, preferably a neutral or hydrophobic one, from a polypeptide. Aminoacyl-arylamides are poor substrates." [EC:3.4.11.22] subset: gosubset_prok narrow_synonym: "vacuolar aminopeptidase I" [] xref_analog: EC:3.4.11.22 xref_analog: MetaCyc:3.4.11.22-RXN is_a: GO:0004177 ! aminopeptidase activity is_a: GO:0008235 ! metalloexopeptidase activity [Term] id: GO:0004251 name: X-Pro dipeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on Pro-Pro." [EC:3.4.13.9] subset: gosubset_prok exact_synonym: "Xaa-Pro dipeptidase activity" [] xref_analog: EC:3.4.13.9 xref_analog: MetaCyc:3.4.13.9-RXN is_a: GO:0008235 ! metalloexopeptidase activity is_a: GO:0016805 ! dipeptidase activity [Term] id: GO:0004252 name: serine-type endopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides by a reaction mechanism involving a serine residue (and a histidine residue) at the active center of the enzyme." [GOC:mah, ISBN:0198506732] subset: gosubset_prok related_synonym: "blood coagulation factor activity" [] exact_synonym: "serine protease activity" [] xref_analog: EC:3.4.21 is_a: GO:0004175 ! endopeptidase activity is_a: GO:0008236 ! serine-type peptidase activity [Term] id: GO:0004253 name: gamma-renin activity namespace: molecular_function def: "Catalysis of the cleavage of the Leu-Leu bond in synthetic tetradecapeptide renin substrate, producing angiotensin I, but not active on natural angiotensinogen. Also hydrolyzes BZ-Arg-para-nitroanilide." [EC:3.4.21.54] xref_analog: EC:3.4.21.54 xref_analog: MetaCyc:3.4.21.54-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004254 name: acylaminoacyl-peptidase activity namespace: molecular_function def: "Catalysis of the reaction: acylaminoacyl-peptide + H2O = acylamino acid + peptide." [EC:3.4.19.1] subset: gosubset_prok xref_analog: EC:3.4.19.1 xref_analog: MetaCyc:ACYLAMINOACYL-PEPTIDASE-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004258 name: vacuolar carboxypeptidase Y namespace: molecular_function def: "OBSOLETE. Catalysis of the release of a C-terminal amino acid with a broad specificity." [EC:3.4.16.5] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'vacuole ; GO:0005773' and the molecular function term 'carboxypeptidase C activity ; GO:0004186'. is_obsolete: true [Term] id: GO:0004261 name: cathepsin G activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide bonds. Specificity similar to chymotrypsin C." [EC:3.4.21.20] xref_analog: EC:3.4.21.20 xref_analog: MetaCyc:3.4.21.20-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004262 name: cerevisin activity namespace: molecular_function def: "Catalysis of the hydrolysis of proteins with broad specificity, and of BZ-Arg-OET > Ac-Tyr-OET. Does not hydrolyze peptide amides." [EC:3.4.21.48] xref_analog: EC:3.4.21.48 xref_analog: MetaCyc:3.4.21.48-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004263 name: chymotrypsin activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Tyr-Xaa > Trp-Xaa > Phe-Xaa > Leu-Xaa." [EC:3.4.21.1, ISBN:0198506732] subset: gosubset_prok xref_analog: EC:3.4.21.1 xref_analog: MetaCyc:3.4.21.1-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004274 name: dipeptidyl-peptidase IV activity namespace: molecular_function def: "Catalysis of the release of an N-terminal dipeptide, by the hydrolysis of the Xbb-Xcc bond in Xaa-Xbb-Xcc, preferentially when Xbb is Pro, provided Xcc is neither Pro nor hydroxyproline." [EC:3.4.14.5] subset: gosubset_prok xref_analog: EC:3.4.14.5 xref_analog: MetaCyc:3.4.14.5-RXN is_a: GO:0008236 ! serine-type peptidase activity is_a: GO:0008239 ! dipeptidyl-peptidase activity [Term] id: GO:0004275 name: enteropeptidase activity namespace: molecular_function def: "Catalysis of the selective cleavage of Lys6-Ile7 bond in trypsinogen." [EC:3.4.21.9] xref_analog: EC:3.4.21.9 xref_analog: MetaCyc:3.4.21.9-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004276 name: furin activity namespace: molecular_function def: "Catalysis of the release of mature proteins from their proproteins by cleavage of the terminal bond of Arg-Xaa-Yaa-Arg-Z motifs where Xaa can be any amino acid and Yaa is Arg or Lys. Releases albumin, complement component C3 and von Willebrand factor from their respective precursors." [EC:3.4.21.75] xref_analog: EC:3.4.21.75 xref_analog: MetaCyc:3.4.21.75-RXN xref_analog: Reactome:9708 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004277 name: granzyme A activity namespace: molecular_function def: "Catalysis of the hydrolysis of proteins, including fibronectin, type IV collagen and nucleolin. Preferential cleavage: Arg-Xaa > Lys-Xaa > Phe-Xaa in small molecule substrates." [EC:3.4.21.78] xref_analog: EC:3.4.21.78 xref_analog: MetaCyc:3.4.21.78-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004278 name: granzyme B activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Asp-Xaa > Asn-Xaa > Met-Xaa, Ser-Xaa." [EC:3.4.21.79] xref_analog: EC:3.4.21.79 xref_analog: MetaCyc:3.4.21.79-RXN xref_analog: Reactome:9714 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004281 name: pancreatic elastase II activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Leu-Xaa, Met-Xaa and Phe-Xaa. Hydrolyzes elastin." [EC:3.4.21.71] xref_analog: EC:3.4.21.71 xref_analog: MetaCyc:3.4.21.71-RXN is_a: GO:0008132 ! pancreatic elastase activity [Term] id: GO:0004283 name: plasmin activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Lys-Xaa > Arg-Xaa; higher selectivity than trypsin. Converts fibrin into soluble products." [EC:3.4.21.7] xref_analog: EC:3.4.21.7 xref_analog: MetaCyc:3.4.21.7-RXN xref_analog: Reactome:9727 is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004284 name: acrosin activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Tyr-Xaa > Trp-Xaa > Phe-Xaa > Leu-Xaa." [EC:3.4.21.10] xref_analog: EC:3.4.21.10 xref_analog: MetaCyc:3.4.21.10-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004285 name: proprotein convertase 1 activity namespace: molecular_function def: "Catalysis of the release of protein hormones, neuropeptides and renin from their precursors, generally by cleavage of -Lys-Arg-Xaa at the Arg-Xaa bond." [EC:3.4.21.93] xref_analog: EC:3.4.21.93 xref_analog: MetaCyc:3.4.21.93-RXN is_a: GO:0016808 ! proprotein convertase activity [Term] id: GO:0004286 name: proprotein convertase 2 activity namespace: molecular_function def: "Catalysis of the release of protein hormones and neuropeptides from their precursors, generally by cleavage of -Lys-Arg-Xaa at the Arg-Xaa bond." [EC:3.4.21.94] xref_analog: EC:3.4.21.94 xref_analog: MetaCyc:3.4.21.94-RXN is_a: GO:0016808 ! proprotein convertase activity [Term] id: GO:0004287 name: prolyl oligopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of Pro-Xaa > Ala-Xaa in oligopeptides." [EC:3.4.21.26] subset: gosubset_prok xref_analog: EC:3.4.21.26 xref_analog: MetaCyc:3.4.21.26-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004289 name: subtilase activity namespace: molecular_function subset: gosubset_prok xref_analog: EC:3.4.21.- is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004290 name: kexin activity namespace: molecular_function def: "Catalysis of the cleavage of the Arg-Xaa bond in Lys-Arg-Xaa and Arg-Arg-Xaa to process Yeast alpha-factor pheromone and killer toxin precursors." [EC:3.4.21.61] xref_analog: EC:3.4.21.61 xref_analog: MetaCyc:3.4.21.61-RXN is_a: GO:0004289 ! subtilase activity [Term] id: GO:0004291 name: subtilisin activity namespace: molecular_function def: "Catalysis of the hydrolysis of proteins with broad specificity for peptide bonds, and a preference for a large uncharged residue in P1. Hydrolyzes peptide amides." [EC:3.4.21.62] subset: gosubset_prok xref_analog: EC:3.4.21.62 xref_analog: MetaCyc:3.4.21.62-RXN is_a: GO:0004289 ! subtilase activity [Term] id: GO:0004293 name: tissue kallikrein activity namespace: molecular_function alt_id: GO:0004279 def: "Catalysis of the preferential cleavage of Arg-Xaa bonds in small molecule substrates. Highly selective action to release kallidin (lysyl-bradykinin) from kininogen involves hydrolysis of Met-Xaa or Leu-Xaa. The rat enzyme is unusual in liberating bradykinin directly from autologous kininogens by cleavage at two Arg-Xaa bonds." [EC:3.4.21.35] exact_synonym: "kininogenase activity" [] xref_analog: EC:3.4.21.35 xref_analog: MetaCyc:3.4.21.35-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004294 name: tripeptidyl-peptidase II activity namespace: molecular_function def: "Catalysis of the release of an N-terminal tripeptide from a polypeptide." [EC:3.4.14.10] xref_analog: EC:3.4.14.10 xref_analog: MetaCyc:3.4.14.10-RXN is_a: GO:0008240 ! tripeptidyl-peptidase activity [Term] id: GO:0004295 name: trypsin activity namespace: molecular_function def: "Catalysis of the preferential cleavage of Arg-Xaa, Lys-Xaa." [EC:3.4.21.4] subset: gosubset_prok xref_analog: EC:3.4.21.4 xref_analog: MetaCyc:3.4.21.4-RXN is_a: GO:0004252 ! serine-type endopeptidase activity [Term] id: GO:0004298 name: threonine endopeptidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of peptide linkages in oligopeptides or polypeptides by a reaction mechanism in which threonine residues act as nucleophiles." [EC:3.4.25.1, GOC:mah] subset: gosubset_prok xref_analog: EC:3.4.25 is_a: GO:0004175 ! endopeptidase activity [Term] id: GO:0004299 name: proteasome endopeptidase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the cleavage at peptide bonds with very broad specificity." [EC:3.4.25.1] comment: This term was made obsolete because it mentions a component term in the text string. To update annotations, consider the molecular function terms 'endopeptidase activity ; GO:0004175' and 'peptidase activity ; GO:0008233'. related_synonym: "multicatalytic endopeptidase" [] related_synonym: "proteasome" [] related_synonym: "proteasome endopeptidase complex" [] is_obsolete: true [Term] id: GO:0004300 name: enoyl-CoA hydratase activity namespace: molecular_function alt_id: GO:0016510 def: "Catalysis of the reaction: (3S)-3-hydroxyacyl-CoA = trans-2(or 3)-enoyl-CoA + H2O." [EC:4.2.1.17] subset: gosubset_prok exact_synonym: "short-chain enoyl-CoA hydratase activity" [] xref_analog: EC:4.2.1.17 xref_analog: MetaCyc:ENOYL-COA-HYDRAT-RXN xref_analog: Reactome:10287 xref_analog: Reactome:115060 xref_analog: Reactome:116913 xref_analog: Reactome:117524 xref_analog: Reactome:118726 xref_analog: Reactome:119624 xref_analog: Reactome:120207 xref_analog: Reactome:121352 xref_analog: Reactome:123423 xref_analog: Reactome:124658 xref_analog: Reactome:125540 xref_analog: Reactome:70783 xref_analog: Reactome:70828 xref_analog: Reactome:71049 xref_analog: Reactome:77275 xref_analog: UM-BBD_enzymeID:e0014 is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004301 name: epoxide hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: an epoxide + H2O = a glycol." [EC:3.3.2.3] subset: gosubset_prok xref_analog: EC:3.3.2.3 xref_analog: MetaCyc:EPOXIDE-HYDROLASE-RXN xref_analog: UM-BBD_enzymeID:e0397 is_a: GO:0004463 ! leukotriene-A4 hydrolase activity [Term] id: GO:0004303 name: estradiol 17-beta-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: estradiol-17-beta + NADP+ = estrone + NADPH + H+." [EC:1.1.1.62] exact_synonym: "17-beta-hydroxysteroid dehydrogenase" [] xref_analog: EC:1.1.1.62 xref_analog: MetaCyc:ESTRADIOL-17-BETA-DEHYDROGENASE-RXN is_a: GO:0016229 ! steroid dehydrogenase activity [Term] id: GO:0004304 name: estrone sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + estrone = adenosine 3',5'-bisphosphate + estrone 3-sulfate." [EC:2.8.2.4] exact_synonym: "estrone sulphotransferase activity" [] xref_analog: EC:2.8.2.4 xref_analog: MetaCyc:ESTRONE-SULFOTRANSFERASE-RXN is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0004305 name: ethanolamine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + ethanolamine = ADP + O-phosphoethanolamine." [EC:2.7.1.82] xref_analog: EC:2.7.1.82 xref_analog: MetaCyc:ETHANOLAMINE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004306 name: ethanolamine-phosphate cytidylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CTP + ethanolamine phosphate = diphosphate + CDP-ethanolamine." [EC:2.7.7.14] exact_synonym: "CTP:ethanolamine-phosphate cytidylyltransferase activity" [] exact_synonym: "phosphoethanolamine cytidylyltransferase" [] xref_analog: EC:2.7.7.14 xref_analog: MetaCyc:2.7.7.14-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004307 name: ethanolaminephosphotransferase activity namespace: molecular_function def: "Catalysis of the reaction: CDP-ethanolamine + 1,2-diacylglycerol = CMP + a phosphatidylethanolamine." [EC:2.7.8.1] xref_analog: EC:2.7.8.1 xref_analog: MetaCyc:ETHANOLAMINEPHOSPHOTRANSFERASE-RXN is_a: GO:0017169 ! CDP-alcohol phosphatidyltransferase activity [Term] id: GO:0004308 name: exo-alpha-sialidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of alpha-(2->3)-, alpha-(2->6)-, alpha-(2->8)-glycosidic linkages of terminal sialic residues in oligosaccharides, glycoproteins, glycolipids, colominic acid and synthetic substrates." [EC:3.2.1.18] subset: gosubset_prok exact_synonym: "neuraminidase" [] xref_analog: EC:3.2.1.18 xref_analog: MetaCyc:3.2.1.18-RXN is_a: GO:0016997 ! alpha-sialidase activity [Term] id: GO:0004309 name: exopolyphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: polyphosphate(n) + H2O = polyphosphate(n-1) + phosphate." [EC:3.6.1.11] subset: gosubset_prok xref_analog: EC:3.6.1.11 xref_analog: MetaCyc:EXOPOLYPHOSPHATASE-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0004310 name: farnesyl-diphosphate farnesyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 2 farnesyl diphosphate = diphosphate + presqualene diphosphate." [EC:2.5.1.21] subset: gosubset_prok related_synonym: "farnesyl-diphosphate farnesyl transferase complex" [] exact_synonym: "squalene synthase" [] broad_synonym: "farnesyltransferase" [] xref_analog: EC:2.5.1.21 xref_analog: MetaCyc:2.5.1.21-RXN is_a: GO:0004311 ! farnesyltranstransferase activity [Term] id: GO:0004311 name: farnesyltranstransferase activity namespace: molecular_function def: "Catalysis of the reaction: trans,trans-farnesyl diphosphate + isopentenyl diphosphate = diphosphate + geranylgeranyl diphosphate." [EC:2.5.1.29] subset: gosubset_prok exact_synonym: "farnesyltransferase" [] exact_synonym: "geranylgeranyl pyrophosphate synthetase" [] exact_synonym: "geranylgeranyl-diphosphate synthase" [] xref_analog: EC:2.5.1.29 xref_analog: MetaCyc:FARNESYLTRANSTRANSFERASE-RXN is_a: GO:0004659 ! prenyltransferase activity [Term] id: GO:0004312 name: fatty-acid synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + n malonyl-CoA + 2n NADPH + 2n H+ = long-chain fatty acid + n+1 CoA + n CO2 + 2n NADP+." [EC:2.3.1.85] subset: gosubset_prok xref_analog: EC:2.3.1.85 xref_analog: MetaCyc:FATTY-ACID-SYNTHASE-RXN is_a: GO:0008415 ! acyltransferase activity [Term] id: GO:0004313 name: [acyl-carrier protein] S-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + [acyl-carrier protein] = CoA + acetyl-[acyl-carrier protein]." [EC:2.3.1.38] exact_synonym: "ACP S-acetyltransferase activity" [] xref_analog: EC:2.3.1.38 xref_analog: MetaCyc:ACP-S-ACETYLTRANSFER-RXN xref_analog: Reactome:120623 xref_analog: Reactome:122900 xref_analog: Reactome:124966 xref_analog: Reactome:76142 xref_analog: Reactome:76144 is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0016418 ! S-acetyltransferase activity [Term] id: GO:0004314 name: [acyl-carrier protein] S-malonyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: malonyl-CoA + [acyl-carrier protein] = CoA + malonyl-[acyl-carrier protein]." [EC:2.3.1.39] subset: gosubset_prok exact_synonym: "ACP S-malonyltransferase activity" [] xref_analog: EC:2.3.1.39 xref_analog: MetaCyc:MALONYL-COA-ACP-TRANSACYL-RXN xref_analog: Reactome:10341 xref_analog: Reactome:120375 xref_analog: Reactome:122721 xref_analog: Reactome:124781 xref_analog: Reactome:76171 is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0016419 ! S-malonyltransferase activity [Term] id: GO:0004315 name: 3-oxoacyl-[acyl-carrier protein] synthase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-[acyl-carrier protein] + malonyl-[acyl-carrier protein] = 3-oxoacyl-[acyl-carrier protein] + CO2 + [acyl-carrier protein]." [EC:2.3.1.41] subset: gosubset_prok exact_synonym: "3-oxoacyl-ACP synthase activity" [] exact_synonym: "ketoacyl-ACP synthase activity" [] xref_analog: EC:2.3.1.41 xref_analog: MetaCyc:3-OXOACYL-ACP-SYNTH-RXN xref_analog: Reactome:119796 xref_analog: Reactome:122219 xref_analog: Reactome:124248 xref_analog: Reactome:76136 xref_analog: Reactome:76147 is_a: GO:0004312 ! fatty-acid synthase activity [Term] id: GO:0004316 name: 3-oxoacyl-[acyl-carrier protein] reductase activity namespace: molecular_function def: "Catalysis of the reaction: (3R)-3-hydroxyacyl-[acyl-carrier protein] + NADP+ = 3-oxoacyl-[acyl-carrier protein] + NADPH + H+." [EC:1.1.1.100] subset: gosubset_prok exact_synonym: "3-oxoacyl-ACP reductase activity" [] xref_analog: EC:1.1.1.100 xref_analog: MetaCyc:3-OXOACYL-ACP-REDUCT-RXN xref_analog: Reactome:121342 xref_analog: Reactome:123416 xref_analog: Reactome:125529 xref_analog: Reactome:76148 xref_analog: Reactome:76150 is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004317 name: 3-hydroxypalmitoyl-[acyl-carrier protein] dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: (3R)-3-hydroxypalmitoyl-[acyl-carrier protein] = 2-hexadecenoyl-[acyl-carrier protein] + H2O." [EC:4.2.1.61] exact_synonym: "3-hydroxypalmitoyl-ACP dehydratase activity" [] xref_analog: EC:4.2.1.61 xref_analog: MetaCyc:4.2.1.61-RXN is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0019171 ! 3-hydroxyacyl-[acyl-carrier protein] dehydratase activity [Term] id: GO:0004318 name: enoyl-[acyl-carrier protein] reductase (NADH) activity namespace: molecular_function def: "Catalysis of the reaction: acyl-[acyl-carrier protein] + NAD+ = trans-2,3-dehydroacyl-[acyl-carrier protein] + NADH + H+." [EC:1.3.1.9] subset: gosubset_prok exact_synonym: "enoyl-ACP reductase (NADH) activity" [] xref_analog: EC:1.3.1.9 xref_analog: MetaCyc:ENOYL-ACP-REDUCT-NADH-RXN is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0016631 ! enoyl-[acyl-carrier protein] reductase activity [Term] id: GO:0004319 name: enoyl-[acyl-carrier protein] reductase (NADPH, B-specific) activity namespace: molecular_function def: "Catalysis of the reaction: acyl-[acyl-carrier protein] + NADP+ = trans-2,3-dehydroacyl-[acyl-carrier protein] + NADPH + H+." [EC:1.3.1.10] subset: gosubset_prok exact_synonym: "enoyl-ACP reductase (NADPH, B-specific) activity" [] xref_analog: EC:1.3.1.10 xref_analog: MetaCyc:ENOYL-ACP-REDUCT-NADPH-RXN xref_analog: Reactome:121345 xref_analog: Reactome:123419 xref_analog: Reactome:125532 xref_analog: Reactome:76151 xref_analog: Reactome:76153 is_a: GO:0004312 ! fatty-acid synthase activity is_a: GO:0016631 ! enoyl-[acyl-carrier protein] reductase activity [Term] id: GO:0004320 name: oleoyl-[acyl-carrier protein] hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: oleoyl-[acyl-carrier protein] + H2O = [acyl-carrier protein] + oleate." [EC:3.1.2.14] subset: gosubset_prok exact_synonym: "oleoyl-ACP hydrolase activity" [] xref_analog: EC:3.1.2.14 xref_analog: MetaCyc:3.1.2.14-RXN xref_analog: Reactome:120876 xref_analog: Reactome:123071 xref_analog: Reactome:125139 xref_analog: Reactome:76154 xref_analog: Reactome:76156 is_a: GO:0016297 ! acyl-[acyl-carrier protein] hydrolase activity [Term] id: GO:0004321 name: fatty-acyl-CoA synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + n malonyl-CoA + 2n NADH + 2n NADPH + 4n H+ = a long-chain acyl-CoA + n CoA + n CO2 + 2n NAD+ + 2n NADP+." [EC:2.3.1.86] xref_analog: EC:2.3.1.86 xref_analog: MetaCyc:FATTY-ACYL-COA-SYNTHASE-RXN is_a: GO:0016408 ! C-acyltransferase activity [Term] id: GO:0004322 name: ferroxidase activity namespace: molecular_function def: "Catalysis of the reaction: 4 Fe2+ + 4 H+ + O2 = 4 Fe3+ + 2 H2O." [EC:1.16.3.1] subset: gosubset_prok narrow_synonym: "multicopper ferroxidase iron transport mediator activity" [] xref_analog: EC:1.16.3.1 xref_analog: MetaCyc:RXN0-1483 is_a: GO:0016724 ! oxidoreductase activity, oxidizing metal ions, oxygen as acceptor [Term] id: GO:0004323 name: multicopper ferroxidase iron transport mediator activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 4 Fe2+ + 4 H+ + O2 = 4 Fe3+ + 2 H2O." [EC:1.16.3.1] comment: This term was made obsolete because it represents a multifunctional gene product. To update annotations, consider the molecular function terms 'ferroxidase activity ; GO:0004322' and 'iron ion transporter activity ; GO:0005381'. is_obsolete: true [Term] id: GO:0004324 name: ferredoxin-NADP+ reductase activity namespace: molecular_function def: "Catalysis of the reaction: reduced ferredoxin + NADP+ = oxidized ferredoxin + NADPH + H+." [EC:1.18.1.2, UniProtKB:kd] subset: gosubset_prok exact_synonym: "ferredoxin-NADP reductase activity" [] xref_analog: EC:1.18.1.2 is_a: GO:0008937 ! ferredoxin reductase activity [Term] id: GO:0004325 name: ferrochelatase activity namespace: molecular_function def: "Catalysis of the reaction: protoporphyrin + Fe2+ = protoheme + 2 H+." [EC:4.99.1.1] subset: gosubset_prok xref_analog: EC:4.99.1.1 xref_analog: MetaCyc:PROTOHEMEFERROCHELAT-RXN is_a: GO:0016829 ! lyase activity [Term] id: GO:0004326 name: tetrahydrofolylpolyglutamate synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + tetrahydrofolyl-(Glu)(n) + L-glutamate = ADP + phosphate + tetrahydrofolyl-(Glu)(n+1)." [EC:6.3.2.17] subset: gosubset_prok exact_synonym: "folylpolyglutamate synthase activity" [] xref_analog: EC:6.3.2.17 xref_analog: MetaCyc:FOLYLPOLYGLUTAMATESYNTH-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004327 name: formaldehyde dehydrogenase (glutathione) activity namespace: molecular_function def: "Catalysis of the reaction: formaldehyde + glutathione + NAD+ = S-formylglutathione + NADH + H+." [EC:1.2.1.1] subset: gosubset_prok xref_analog: UM-BBD_enzymeID:e0028 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004328 name: formamidase activity namespace: molecular_function def: "Catalysis of the reaction: formamide + H2O = formate + NH3." [EC:3.5.1.49] subset: gosubset_prok xref_analog: EC:3.5.1.49 xref_analog: MetaCyc:FORMAMIDASE-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004329 name: formate-tetrahydrofolate ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + formate + tetrahydrofolate = ADP + phosphate + 10-formyltetrahydrofolate." [EC:6.3.4.3] subset: gosubset_prok xref_analog: EC:6.3.4.3 xref_analog: MetaCyc:FORMATETHFLIG-RXN is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004331 name: fructose-2,6-bisphosphate 2-phosphatase activity namespace: molecular_function alt_id: GO:0004330 def: "Catalysis of the reaction: D-fructose 2,6-bisphosphate + H2O = D-fructose 6-phosphate + phosphate." [EC:3.1.3.46] subset: gosubset_prok exact_synonym: "fructose-2,6-bisphosphatase" [] xref_analog: EC:3.1.3.46 xref_analog: MetaCyc:3.1.3.46-RXN xref_analog: Reactome:71788 xref_analog: Reactome:71793 xref_analog: Reactome:71797 xref_analog: Reactome:71801 is_a: GO:0019203 ! carbohydrate phosphatase activity [Term] id: GO:0004332 name: fructose-bisphosphate aldolase activity namespace: molecular_function def: "Catalysis of the reaction: D-fructose 1,6-bisphosphate = glycerone phosphate + D-glyceraldehyde 3-phosphate." [EC:4.1.2.13] subset: gosubset_prok xref_analog: EC:4.1.2.13 xref_analog: MetaCyc:F16ALDOLASE-RXN xref_analog: Reactome:10435 xref_analog: Reactome:115270 xref_analog: Reactome:115275 xref_analog: Reactome:115280 xref_analog: Reactome:117778 xref_analog: Reactome:117783 xref_analog: Reactome:117788 xref_analog: Reactome:120421 xref_analog: Reactome:120426 xref_analog: Reactome:122764 xref_analog: Reactome:70341 xref_analog: Reactome:70457 xref_analog: Reactome:71494 is_a: GO:0016832 ! aldehyde-lyase activity [Term] id: GO:0004333 name: fumarate hydratase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-malate = fumarate + H2O." [EC:4.2.1.2] subset: gosubset_prok xref_analog: EC:4.2.1.2 xref_analog: MetaCyc:FUMHYDR-RXN xref_analog: Reactome:10436 xref_analog: Reactome:115520 xref_analog: Reactome:118108 xref_analog: Reactome:120702 xref_analog: Reactome:122922 xref_analog: Reactome:125013 xref_analog: Reactome:70981 is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004334 name: fumarylacetoacetase activity namespace: molecular_function def: "Catalysis of the reaction: 4-fumarylacetoacetate + H2O = acetoacetate + fumarate." [EC:3.7.1.2] subset: gosubset_prok xref_analog: EC:3.7.1.2 xref_analog: MetaCyc:FUMARYLACETOACETASE-RXN xref_analog: Reactome:10438 xref_analog: Reactome:115525 xref_analog: Reactome:118113 xref_analog: Reactome:122927 xref_analog: Reactome:125018 xref_analog: Reactome:71180 xref_analog: UM-BBD_enzymeID:e0083 is_a: GO:0016823 ! hydrolase activity, acting on acid carbon-carbon bonds, in ketonic substances [Term] id: GO:0004335 name: galactokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-galactose = ADP + D-galactose 1-phosphate." [EC:2.7.1.6] subset: gosubset_prok xref_analog: EC:2.7.1.6 xref_analog: MetaCyc:GALACTOKIN-RXN xref_analog: Reactome:10440 xref_analog: Reactome:115017 xref_analog: Reactome:117481 xref_analog: Reactome:120169 xref_analog: Reactome:122572 xref_analog: Reactome:124631 xref_analog: Reactome:70354 is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004336 name: galactosylceramidase activity namespace: molecular_function def: "Catalysis of the reaction: D-galactosyl-N-acylsphingosine + H2O = D-galactose + N-acylsphingosine." [EC:3.2.1.46] xref_analog: EC:3.2.1.46 xref_analog: MetaCyc:GALACTOSYLCERAMIDASE-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds is_a: GO:0017040 ! ceramidase activity [Term] id: GO:0004337 name: geranyltranstransferase activity namespace: molecular_function def: "Catalysis of the reaction: geranyl diphosphate + isopentenyl diphosphate = diphosphate + trans,trans-farnesyl diphosphate." [EC:2.5.1.10] comment: Note that this is the second step in the formation of farnesyl diphosphate. The first step is 'dimethylallyltransferase activity ; GO:0004161'. Consider also annotating to the biological process term 'farnesyl diphosphate biosynthesis ; GO:0045337'. subset: gosubset_prok exact_synonym: "farnesyl pyrophosphate synthetase activity" [] exact_synonym: "farnesyl-diphosphate synthase activity" [] exact_synonym: "geranyltransferase" [] xref_analog: EC:2.5.1.10 xref_analog: MetaCyc:FPPSYN-RXN is_a: GO:0004659 ! prenyltransferase activity [Term] id: GO:0004338 name: glucan 1,3-beta-glucosidase activity namespace: molecular_function def: "Catalysis of the successive hydrolysis of beta-D-glucose units from the non-reducing ends of 1,3-beta-D-glucans, releasing alpha-glucose." [EC:3.2.1.58] xref_analog: EC:3.2.1.58 xref_analog: MetaCyc:3.2.1.58-RXN is_a: GO:0008422 ! beta-glucosidase activity [Term] id: GO:0004339 name: glucan 1,4-alpha-glucosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal 1,4-linked alpha-D-glucose residues successively from non-reducing ends of the chains with release of beta-D-glucose." [EC:3.2.1.3] comment: Note that this term is not a child of 'alpha-glucosides activity ; GO:0004558', because in the reaction represented by GO:0004339 results in the release of beta-D-glucose, whereas in GO:0004558 alpha-D-glucose is released. subset: gosubset_prok exact_synonym: "glucoamylase activity" [] xref_analog: EC:3.2.1.3 xref_analog: MetaCyc:3.2.1.3-RXN is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004340 name: glucokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-glucose = ADP + D-glucose 6-phosphate." [EC:2.7.1.2] subset: gosubset_prok xref_analog: EC:2.7.1.2 xref_analog: MetaCyc:GLUCOKIN-RXN xref_analog: Reactome:10457 xref_analog: Reactome:114952 xref_analog: Reactome:117420 xref_analog: Reactome:120100 xref_analog: Reactome:70419 is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004341 name: gluconolactonase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucono-1,5-lactone + H2O = D-gluconate." [EC:3.1.1.17] subset: gosubset_prok xref_analog: EC:3.1.1.17 xref_analog: MetaCyc:GLUCONOLACT-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004342 name: glucosamine-6-phosphate deaminase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucosamine 6-phosphate + H2O = D-fructose 6-phosphate + NH3." [EC:3.5.99.6] comment: Note that this function was formerly EC:5.3.1.10. subset: gosubset_prok exact_synonym: "glucosamine-6-phosphate isomerase" [] xref_analog: EC:3.5.99.6 xref_analog: MetaCyc:GLUCOSAMINE-6-P-DEAMIN-RXN is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses is_a: GO:0019239 ! deaminase activity [Term] id: GO:0004343 name: glucosamine 6-phosphate N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + D-glucosamine 6-phosphate = CoA + N-acetyl-D-glucosamine 6-phosphate." [EC:2.3.1.4] subset: gosubset_prok exact_synonym: "glucosamine-phosphate N-acetyltransferase activity" [] xref_analog: EC:2.3.1.4 xref_analog: MetaCyc:GLUCOSAMINEPNACETYLTRANS-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004344 name: glucose dehydrogenase (acceptor) activity namespace: molecular_function def: "Catalysis of the reaction: D-glucose + acceptor = D-glucono-1,5-lactone + reduced acceptor." [EC:1.1.99.10] xref_analog: EC:1.1.99.10 xref_analog: MetaCyc:GLUCOSE-DEHYDROGENASE-(ACCEPTOR)-RXN is_a: GO:0008708 ! glucose dehydrogenase activity [Term] id: GO:0004345 name: glucose-6-phosphate 1-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucose 6-phosphate + NADP+ = D-glucono-1,5-lactone 6-phosphate + NADPH + H+." [EC:1.1.1.49] subset: gosubset_prok xref_analog: EC:1.1.1.49 xref_analog: MetaCyc:GLU6PDEHYDROG-RXN xref_analog: Reactome:10468 xref_analog: Reactome:114825 xref_analog: Reactome:114828 xref_analog: Reactome:117258 xref_analog: Reactome:117261 xref_analog: Reactome:119975 xref_analog: Reactome:119978 xref_analog: Reactome:122403 xref_analog: Reactome:122406 xref_analog: Reactome:70374 xref_analog: Reactome:70376 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004346 name: glucose-6-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucose 6-phosphate + H2O = D-glucose + phosphate." [EC:3.1.3.9] subset: gosubset_prok xref_analog: EC:3.1.3.9 xref_analog: MetaCyc:GLUCOSE-6-PHOSPHATASE-RXN xref_analog: Reactome:10470 xref_analog: Reactome:114820 xref_analog: Reactome:117253 xref_analog: Reactome:119970 xref_analog: Reactome:122398 xref_analog: Reactome:124454 xref_analog: Reactome:71824 is_a: GO:0019203 ! carbohydrate phosphatase activity [Term] id: GO:0004347 name: glucose-6-phosphate isomerase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucose 6-phosphate = D-fructose 6-phosphate." [EC:5.3.1.9] subset: gosubset_prok xref_analog: EC:5.3.1.9 xref_analog: MetaCyc:PGLUCISOM-RXN xref_analog: Reactome:10472 xref_analog: Reactome:114833 xref_analog: Reactome:117266 xref_analog: Reactome:119983 xref_analog: Reactome:122411 xref_analog: Reactome:124459 xref_analog: Reactome:70470 is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004348 name: glucosylceramidase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucosyl-N-acylsphingosine + H2O = D-glucose + N-acylsphingosine." [EC:3.2.1.45] subset: gosubset_prok xref_analog: EC:3.2.1.45 xref_analog: MetaCyc:GLUCOSYLCERAMIDASE-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds is_a: GO:0017040 ! ceramidase activity [Term] id: GO:0004349 name: glutamate 5-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-glutamate = ADP + L-glutamate 5-phosphate." [EC:2.7.2.11] subset: gosubset_prok xref_analog: EC:2.7.2.11 xref_analog: MetaCyc:GLUTKIN-RXN is_a: GO:0016774 ! phosphotransferase activity, carboxyl group as acceptor is_a: GO:0019202 ! amino acid kinase activity [Term] id: GO:0004350 name: glutamate-5-semialdehyde dehydrogenase activity namespace: molecular_function alt_id: GO:0001513 def: "Catalysis of the reaction: L-glutamate 5-semialdehyde + phosphate + NADP+ = L-gamma-glutamyl 5-phosphate + NADPH + H+." [EC:1.2.1.41] subset: gosubset_prok exact_synonym: "glutamate-phosphate reductase activity" [] exact_synonym: "glutamylphosphate reductase activity" [] xref_analog: EC:1.2.1.41 xref_analog: MetaCyc:GLUTSEMIALDEHYDROG-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004351 name: glutamate decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamate = 4-aminobutanoate + CO2." [EC:4.1.1.15] subset: gosubset_prok xref_analog: EC:4.1.1.15 xref_analog: MetaCyc:GLUTDECARBOX-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004352 name: glutamate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamate + H2O + NAD+ = 2-oxoglutarate + NH3 + NADH + H+." [EC:1.4.1.2] subset: gosubset_prok xref_analog: EC:1.4.1.2 xref_analog: MetaCyc:GLUTAMATE-DEHYDROGENASE-RXN is_a: GO:0016639 ! oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor [Term] id: GO:0004353 name: glutamate dehydrogenase [NAD(P)+] activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamate + H2O + NAD(P)+ = 2-oxoglutarate + NH3 + NAD(P)H + H+." [EC:1.4.1.3] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. subset: gosubset_prok related_synonym: "glutamate biosynthesis, using glutamate dehydrogenase (NAD(P)+)" [] xref_analog: EC:1.4.1.3 xref_analog: MetaCyc:GLUTAMATE-DEHYDROGENASE-(NAD(P)+)-RXN xref_analog: MetaCyc:GLUTAMATE-SYN2-PWY xref_analog: Reactome:10485 xref_analog: Reactome:114843 xref_analog: Reactome:117282 xref_analog: Reactome:119999 xref_analog: Reactome:122424 xref_analog: Reactome:124472 xref_analog: Reactome:70584 is_a: GO:0016639 ! oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor [Term] id: GO:0004354 name: glutamate dehydrogenase (NADP+) activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamate + H2O + NADP+ = 2-oxoglutarate + NH3 + NADPH + H+." [EC:1.4.1.4] subset: gosubset_prok xref_analog: EC:1.4.1.4 xref_analog: MetaCyc:GLUTDEHYD-RXN is_a: GO:0016639 ! oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor [Term] id: GO:0004355 name: glutamate synthase (NADPH) activity namespace: molecular_function def: "Catalysis of the reaction: 2 L-glutamate + NADP+ = L-glutamine + 2-oxoglutarate + NADPH + H+." [EC:1.4.1.13] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. subset: gosubset_prok exact_synonym: "glutamate synthase (NADPH) activity" [] xref_analog: EC:1.4.1.13 xref_analog: MetaCyc:GLUTAMATESYN-RXN xref_analog: MetaCyc:GLUTSYN-PWY is_a: GO:0045181 ! glutamate synthase activity, NADH or NADPH as acceptor [Term] id: GO:0004356 name: glutamate-ammonia ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-glutamate + NH3 = ADP + phosphate + L-glutamine." [EC:6.3.1.2] subset: gosubset_prok exact_synonym: "glutamine synthetase activity" [] xref_analog: EC:6.3.1.2 xref_analog: MetaCyc:GLUTAMINESYN-RXN xref_analog: Reactome:10495 xref_analog: Reactome:115558 xref_analog: Reactome:120739 xref_analog: Reactome:125051 xref_analog: Reactome:70605 is_a: GO:0016211 ! ammonia ligase activity [Term] id: GO:0004357 name: glutamate-cysteine ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-glutamate + L-cysteine = ADP + phosphate + gamma-L-glutamyl-L-cysteine." [EC:6.3.2.2] subset: gosubset_prok exact_synonym: "gamma-glutamylcysteine synthetase activity" [EC:6.3.2.2] xref_analog: EC:6.3.2.2 xref_analog: MetaCyc:GLUTCYSLIG-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004358 name: glutamate N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: N2-acetyl-L-ornithine + L-glutamate = L-ornithine + N-acetyl-L-glutamate." [EC:2.3.1.35] subset: gosubset_prok xref_analog: EC:2.3.1.35 xref_analog: MetaCyc:GLUTAMATE-N-ACETYLTRANSFERASE-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004359 name: glutaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamine + H2O = L-glutamate + NH3." [EC:3.5.1.2] subset: gosubset_prok xref_analog: EC:3.5.1.2 xref_analog: MetaCyc:GLUTAMIN-RXN xref_analog: Reactome:10219 xref_analog: Reactome:115562 xref_analog: Reactome:115566 xref_analog: Reactome:120743 xref_analog: Reactome:120747 xref_analog: Reactome:122962 xref_analog: Reactome:122966 xref_analog: Reactome:125055 xref_analog: Reactome:70608 xref_analog: Reactome:70611 is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004360 name: glutamine-fructose-6-phosphate transaminase (isomerizing) activity namespace: molecular_function def: "Catalysis of the reaction: L-glutamine + D-fructose 6-phosphate = L-glutamate + D-glucosamine 6-phosphate." [EC:2.6.1.16] subset: gosubset_prok exact_synonym: "glucosamine-6-phosphate isomerase (glutamine-forming) activity" [] xref_analog: EC:2.6.1.16 xref_analog: MetaCyc:L-GLN-FRUCT-6-P-AMINOTRANS-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004361 name: glutaryl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: glutaryl-CoA + acceptor = crotonoyl-CoA + CO2 + reduced acceptor." [EC:1.3.99.7] subset: gosubset_prok xref_analog: EC:1.3.99.7 xref_analog: MetaCyc:GLUTARYL-COA-DEHYDROGENASE-RXN xref_analog: Reactome:10507 xref_analog: Reactome:115572 xref_analog: Reactome:118156 xref_analog: Reactome:120753 xref_analog: Reactome:122972 xref_analog: Reactome:71044 xref_analog: UM-BBD_enzymeID:e0123 is_a: GO:0003995 ! acyl-CoA dehydrogenase activity [Term] id: GO:0004362 name: glutathione-disulfide reductase activity namespace: molecular_function def: "Catalysis of the reaction: 2 glutathione + NADP+ = glutathione disulfide + NADPH + H+." [EC:1.8.1.7, ISBN:0198506732] comment: Note that this function was formerly EC:1.6.4.2. subset: gosubset_prok related_synonym: "oxidized glutathione reduction" [] exact_synonym: "glutathione reductase (NADPH) activity" [] exact_synonym: "glutathione-disulphide reductase activity" [] xref_analog: EC:1.8.1.7 xref_analog: MetaCyc:GLUTATHIONE-REDUCT-NADPH-RXN xref_analog: Reactome:10508 xref_analog: Reactome:115577 xref_analog: Reactome:118161 xref_analog: Reactome:120758 xref_analog: Reactome:122977 xref_analog: Reactome:125061 xref_analog: Reactome:71681 is_a: GO:0009055 ! electron carrier activity is_a: GO:0015038 ! glutathione disulfide oxidoreductase activity is_a: GO:0016209 ! antioxidant activity is_a: GO:0016668 ! oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor [Term] id: GO:0004363 name: glutathione synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione." [EC:6.3.2.3] subset: gosubset_prok xref_analog: EC:6.3.2.3 xref_analog: MetaCyc:GLUTATHIONE-SYN-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004364 name: glutathione transferase activity namespace: molecular_function def: "Catalysis of the reaction: R-X + glutathione = H-X + R-S-glutathione. R may be an aliphatic, aromatic or heterocyclic group; X may be a sulfate, nitrile or halide group." [EC:2.5.1.18] subset: gosubset_prok exact_synonym: "glutathione conjugation reaction" [] exact_synonym: "glutathione S-transferase" [] xref_analog: EC:2.5.1.18 xref_analog: MetaCyc:GSHTRAN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004365 name: glyceraldehyde-3-phosphate dehydrogenase (phosphorylating) activity namespace: molecular_function def: "Catalysis of the reaction: D-glyceraldehyde 3-phosphate + phosphate + NAD+ = 3-phospho-D-glyceroyl phosphate + NADH + H+." [EC:1.2.1.12] subset: gosubset_prok xref_analog: EC:1.2.1.12 xref_analog: MetaCyc:GAPOXNPHOSPHN-RXN xref_analog: Reactome:10530 xref_analog: Reactome:114543 xref_analog: Reactome:116948 xref_analog: Reactome:119709 xref_analog: Reactome:122142 xref_analog: Reactome:124175 xref_analog: Reactome:70448 is_a: GO:0008943 ! glyceraldehyde-3-phosphate dehydrogenase activity [Term] id: GO:0004366 name: glycerol-3-phosphate O-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + sn-glycerol 3-phosphate = CoA + 1-acyl-sn-glycerol 3-phosphate." [EC:2.3.1.15] subset: gosubset_prok xref_analog: EC:2.3.1.15 xref_analog: MetaCyc:RXN-1381 xref_analog: Reactome:10531 xref_analog: Reactome:115224 xref_analog: Reactome:117728 xref_analog: Reactome:120373 xref_analog: Reactome:122719 xref_analog: Reactome:124779 xref_analog: Reactome:76113 is_a: GO:0008374 ! O-acyltransferase activity [Term] id: GO:0004367 name: glycerol-3-phosphate dehydrogenase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: sn-glycerol 3-phosphate + NAD+ = glycerone phosphate + NADH + H+." [EC:1.1.1.8] subset: gosubset_prok xref_analog: EC:1.1.1.8 xref_analog: MetaCyc:1.1.1.8-RXN xref_analog: Reactome:10533 xref_analog: Reactome:115216 xref_analog: Reactome:117720 xref_analog: Reactome:120365 xref_analog: Reactome:124771 xref_analog: Reactome:76118 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004368 name: glycerol-3-phosphate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: sn-glycerol 3-phosphate + acceptor = glycerone phosphate + reduced acceptor." [EC:1.1.99.5] subset: gosubset_prok xref_analog: EC:1.1.99.5 xref_analog: MetaCyc:GLYCEROL-3-PHOSPHATE-DEHYDROGENASE-RXN is_a: GO:0016614 ! oxidoreductase activity, acting on CH-OH group of donors [Term] id: GO:0004369 name: glycerol-3-phosphate oxidase activity namespace: molecular_function def: "Catalysis of the reaction: sn-glycerol 3-phosphate + O2 = glycerone phosphate + H2O2." [EC:1.1.3.21] subset: gosubset_prok xref_analog: EC:1.1.3.21 xref_analog: MetaCyc:GLYCEROL-3-PHOSPHATE-OXIDASE-RXN is_a: GO:0016899 ! oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor [Term] id: GO:0004370 name: glycerol kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + glycerol = ADP + glycerol 3-phosphate." [EC:2.7.1.30] subset: gosubset_prok xref_analog: EC:2.7.1.30 xref_analog: MetaCyc:GLYCEROL-KIN-RXN xref_analog: Reactome:10545 xref_analog: Reactome:115220 xref_analog: Reactome:117724 xref_analog: Reactome:120369 xref_analog: Reactome:122715 xref_analog: Reactome:124775 xref_analog: Reactome:76115 is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004371 name: glycerone kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + glycerone = ADP + glycerone phosphate." [EC:2.7.1.29] subset: gosubset_prok xref_analog: EC:2.7.1.29 xref_analog: MetaCyc:GLYCERONE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004372 name: glycine hydroxymethyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine." [EC:2.1.2.1] subset: gosubset_prok xref_analog: EC:2.1.2.1 xref_analog: MetaCyc:GLYOHMETRANS-RXN xref_analog: Reactome:1060 xref_analog: Reactome:115043 xref_analog: Reactome:117507 xref_analog: Reactome:124641 xref_analog: Reactome:71248 is_a: GO:0008168 ! methyltransferase activity [Term] id: GO:0004373 name: glycogen (starch) synthase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-glucose + (1,4)-alpha-D-glucosyl(n) = UDP + (1,4)-alpha-D-glucosyl(n+1)." [EC:2.4.1.11] subset: gosubset_prok xref_analog: EC:2.4.1.11 xref_analog: MetaCyc:GLYCOGEN-(STARCH)-SYNTHASE-RXN xref_analog: Reactome:10552 xref_analog: Reactome:118431 xref_analog: Reactome:118435 xref_analog: Reactome:121029 xref_analog: Reactome:121033 xref_analog: Reactome:123204 xref_analog: Reactome:123208 xref_analog: Reactome:125289 xref_analog: Reactome:125293 xref_analog: Reactome:71567 xref_analog: Reactome:71572 xref_analog: Reactome:71601 xref_analog: Reactome:71606 is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] id: GO:0004374 name: glycine cleavage system namespace: molecular_function def: "OBSOLETE. Catalysis of the reactions glycine + lipoylprotein = S-aminomethyldihydrolipoylprotein + carbon dioxide (CO2), followed by S-aminomethyldihydrolipoylprotein + (6S)-tetrahydrofolate = dihydrolipoylprotein + (6R)-5,10-methylenetetrahydrofolate + ammonia. Made up of two components, aminomethyltransferase and glycine dehydrogenase (decarboxylating)." [EC:1.4.4.2, EC:2.1.2.10] comment: This term was made obsolete because it represents a process rather than a function. To update annotations, use the biological process term 'glycine decarboxylation via glycine cleavage system ; GO:0019464'. broad_synonym: "glycine synthase" [] is_obsolete: true [Term] id: GO:0004375 name: glycine dehydrogenase (decarboxylating) activity namespace: molecular_function def: "Catalysis of the reaction: glycine + lipoylprotein = S-aminomethyldihydrolipoylprotein + CO2." [EC:1.4.4.2] subset: gosubset_prok xref_analog: EC:1.4.4.2 xref_analog: MetaCyc:GCVP-RXN is_a: GO:0016642 ! oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor [Term] id: GO:0004376 name: glycolipid mannosyltransferase activity namespace: molecular_function alt_id: GO:0004580 def: "Catalysis of the transfer of an alpha-D-mannosyl residue from GDP-mannose into lipid-linked oligosaccharide, forming an alpha-D-mannosyl-D-mannose linkage." [GOC:ai] exact_synonym: "glycolipid mannosyl transferase" [] xref_analog: EC:2.4.1.- xref_analog: Reactome:10559 is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0004377 name: glycolipid 2-alpha-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of an alpha-D-mannosyl residue from GDP-mannose into lipid-linked oligosaccharide, forming an alpha-1,2-D-mannosyl-D-mannose linkage." [EC:2.4.1.131] xref_analog: EC:2.4.1.131 xref_analog: MetaCyc:2.4.1.131-RXN is_a: GO:0004376 ! glycolipid mannosyltransferase activity [Term] id: GO:0004378 name: glycolipid 3-alpha-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of an alpha-D-mannosyl residue from GDP-mannose into lipid-linked oligosaccharide, forming an alpha-1,3-D-mannosyl-D-mannose linkage." [EC:2.4.1.132] xref_analog: EC:2.4.1.132 xref_analog: MetaCyc:2.4.1.132-RXN is_a: GO:0004376 ! glycolipid mannosyltransferase activity [Term] id: GO:0004379 name: glycylpeptide N-tetradecanoyltransferase activity namespace: molecular_function alt_id: GO:0019106 def: "Catalysis of the reaction: tetradecanoyl-CoA + glycyl-peptide = CoA + N-tetradecanoylglycyl-peptide." [EC:2.3.1.97] exact_synonym: "N-myristoyltransferase" [] xref_analog: EC:2.3.1.97 xref_analog: MetaCyc:2.3.1.97-RXN is_a: GO:0016410 ! N-acyltransferase activity is_a: GO:0019107 ! myristoyltransferase activity [Term] id: GO:0004380 name: glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-galactosamine + glycoprotein-alpha-L-fucosyl-(1,2)-D-galactose = UDP + glycoprotein-N-acetyl-alpha-D-galactosaminyl-(1,3)-(alpha-L-fucosyl-(1,2))-D-galactose." [EC:2.4.1.40] xref_analog: EC:2.4.1.40 xref_analog: MetaCyc:2.4.1.40-RXN is_a: GO:0008376 ! acetylgalactosaminyltransferase activity [Term] id: GO:0004381 name: fucosylgalactoside 3-alpha-galactosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-galactose + glycoprotein-alpha-L-fucosyl-(1,2)-D-galactose = UDP + glycoprotein-alpha-D-galactosyl-(1,3)-(alpha-L-fucosyl-(1,2))-D-galactose." [EC:2.4.1.37] exact_synonym: "glycoprotein-fucosylgalactoside alpha-galactosyltransferase activity" [] xref_analog: EC:2.4.1.37 xref_analog: MetaCyc:2.4.1.37-RXN is_a: GO:0035250 ! UDP-galactosyltransferase activity [Term] id: GO:0004382 name: guanosine-diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: GDP + H2O = GMP + phosphate." [EC:3.6.1.42, PMID:2989286] exact_synonym: "guanosine diphosphatase activity" [] xref_analog: EC:3.6.1.42 xref_analog: MetaCyc:GUANOSINE-DIPHOSPHATASE-RXN is_a: GO:0017110 ! nucleoside-diphosphatase activity [Term] id: GO:0004383 name: guanylate cyclase activity namespace: molecular_function def: "Catalysis of the reaction: GTP = 3',5'-cyclic GMP + diphosphate." [EC:4.6.1.2] subset: gosubset_prok exact_synonym: "guanylyl cyclase activity" [] narrow_synonym: "receptor guanylate cyclase activity" [] xref_analog: EC:4.6.1.2 xref_analog: MetaCyc:GUANYLCYC-RXN is_a: GO:0009975 ! cyclase activity is_a: GO:0016849 ! phosphorus-oxygen lyase activity [Term] id: GO:0004384 name: membrane-associated guanylate kinase namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ATP + GMP = ADP + GDP, associated with the cell membrane." [EC:2.7.4.8] comment: This term was made obsolete because it represents a gene product and not a function. To update annotations, consider the molecular function terms 'guanylate kinase activity ; GO:0004385', 'cell adhesion molecule binding ; GO:0050839' and 'receptor binding ; GO:0005102', the biological process term 'cell adhesion ; GO:0007155', and the cellular component term 'integral to membrane ; GO:0016021'. exact_synonym: "MAGUK" [] is_obsolete: true [Term] id: GO:0004385 name: guanylate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + GMP = ADP + GDP." [EC:2.7.4.8] subset: gosubset_prok narrow_synonym: "membrane-associated guanylate kinase" [] xref_analog: EC:2.7.4.8 xref_analog: MetaCyc:GUANYL-KIN-RXN is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor is_a: GO:0019201 ! nucleotide kinase activity [Term] id: GO:0004386 name: helicase activity namespace: molecular_function def: "Catalysis of the unwinding of a DNA or RNA duplex." [ISBN:0198506732] subset: goslim_goa subset: goslim_yeast subset: gosubset_prok xref_analog: Reactome:109879 xref_analog: Reactome:111307 xref_analog: Reactome:117604 xref_analog: Reactome:117605 xref_analog: Reactome:120688 xref_analog: Reactome:7001 xref_analog: Reactome:72598 xref_analog: Reactome:72599 is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004392 name: heme oxygenase (decyclizing) activity namespace: molecular_function def: "Catalysis of the reaction: heme + 3 donor-H2 + 3 O2 = biliverdin + Fe2+ + CO + 3 acceptor + 3 H2O." [EC:1.14.99.3] exact_synonym: "haem oxygenase (decyclizing) activity" [] xref_analog: EC:1.14.99.3 xref_analog: MetaCyc:HEME-OXYGENASE-(DECYCLIZING)-RXN is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004394 name: heparan sulfate 2-O-sulfotransferase activity namespace: molecular_function def: "Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + heparan sulfate = adenosine 3',5'-bisphosphate + heparan sulfate 2-O-sulfate; results in 2-O-sulfation of iduronic acid residues in heparan sulfate." [PMID:9153262] related_synonym: "heparin sulfate 2-sulfotransferase activity" [] related_synonym: "heparin-sulphate 2-sulphotransferase activity" [] exact_synonym: "heparan-sulfate 2-O-sulphotransferase activity" [] xref_analog: EC:2.8.2.- is_a: GO:0008146 ! sulfotransferase activity [Term] id: GO:0004395 name: hexaprenyldihydroxybenzoate methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + 3-hexaprenyl-4,5-dihydroxybenzoate = S-adenosyl-L-homocysteine + 3-hexaprenyl-4-hydroxy-5-methoxybenzoate." [EC:2.1.1.114] xref_analog: EC:2.1.1.114 xref_analog: MetaCyc:2.1.1.114-RXN is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004396 name: hexokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-hexose = ADP + D-hexose 6-phosphate." [EC:2.7.1.1] subset: gosubset_prok xref_analog: EC:2.7.1.1 xref_analog: MetaCyc:HEXOKINASE-RXN xref_analog: Reactome:10602 xref_analog: Reactome:114956 xref_analog: Reactome:114960 xref_analog: Reactome:117424 xref_analog: Reactome:120104 xref_analog: Reactome:120108 xref_analog: Reactome:120112 xref_analog: Reactome:124589 xref_analog: Reactome:124593 xref_analog: Reactome:124597 xref_analog: Reactome:70379 xref_analog: Reactome:70396 xref_analog: Reactome:70413 is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004397 name: histidine ammonia-lyase activity namespace: molecular_function def: "Catalysis of the reaction: L-histidine = urocanate + NH3." [EC:4.3.1.3] subset: gosubset_prok xref_analog: EC:4.3.1.3 xref_analog: MetaCyc:HISTIDINE-AMMONIA-LYASE-RXN xref_analog: Reactome:10604 xref_analog: Reactome:115638 xref_analog: Reactome:118225 xref_analog: Reactome:120851 xref_analog: Reactome:123048 xref_analog: Reactome:125114 xref_analog: Reactome:70898 is_a: GO:0016841 ! ammonia-lyase activity [Term] id: GO:0004398 name: histidine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: L-histidine = histamine + CO2." [EC:4.1.1.22] subset: gosubset_prok xref_analog: EC:4.1.1.22 xref_analog: MetaCyc:HISTIDINE-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004399 name: histidinol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-histidinol + NAD+ = L-histidine + NADH + H+." [EC:1.1.1.23] subset: gosubset_prok xref_analog: EC:1.1.1.23 is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004400 name: histidinol-phosphate transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-histidinol-phosphate + 2-oxoglutarate = 3-(imidazol-4-yl)-2-oxopropyl phosphate + L-glutamate." [EC:2.6.1.9] subset: gosubset_prok exact_synonym: "histidinol-phosphate aminotransferase activity" [] xref_analog: EC:2.6.1.9 xref_analog: MetaCyc:HISTAMINOTRANS-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004401 name: histidinol-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: L-histidinol-phosphate + H2O = L-histidinol + phosphate." [EC:3.1.3.15] subset: gosubset_prok xref_analog: EC:3.1.3.15 xref_analog: MetaCyc:HISTIDPHOS-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004402 name: histone acetyltransferase activity namespace: molecular_function alt_id: GO:0004403 alt_id: GO:0004404 alt_id: GO:0046971 def: "Catalysis of the reaction: acetyl-CoA + histone = CoA + acetyl-histone." [EC:2.3.1.48] comment: Note that the term 'histone lysine acetyltransferase activity ; GO:0046971' was merged into this term because only lysine residues are ever acetylated in histones, and so the term was redundant. exact_synonym: "histone acetylase activity" [] exact_synonym: "histone lysine acetyltransferase activity" [] xref_analog: EC:2.3.1.48 xref_analog: MetaCyc:HISTONE-ACETYLTRANSFERASE-RXN is_a: GO:0004468 ! lysine N-acetyltransferase activity [Term] id: GO:0004405 name: H2A/H2B histone acetyltransferase activity namespace: molecular_function def: "Catalysis of the addition of an acetyl group to a histone, specific for histones H2A and H2B." [GOC:jl, PMID:9241414] xref_analog: EC:2.3.1.- is_a: GO:0004402 ! histone acetyltransferase activity [Term] id: GO:0004406 name: H3/H4 histone acetyltransferase activity namespace: molecular_function def: "Catalysis of the addition of an acetyl group to a histone, specific for histones H3 and H4." [GOC:jl, PMID:9241414] xref_analog: EC:2.3.1.- is_a: GO:0004402 ! histone acetyltransferase activity [Term] id: GO:0004407 name: histone deacetylase activity namespace: molecular_function def: "Catalysis of the hydrolysis of acetyl groups from histones, proteins complexed to DNA in chromatin and chromosomes." [EC:3.5.1.-, http://cancerweb.ncl.ac.uk/] xref_analog: EC:3.5.1.- is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides is_a: GO:0019213 ! deacetylase activity [Term] id: GO:0004408 name: holocytochrome-c synthase activity namespace: molecular_function def: "Catalysis of the reaction: holocytochrome c = apocytochrome c + heme." [EC:4.4.1.17] subset: gosubset_prok xref_analog: EC:4.4.1.17 xref_analog: MetaCyc:HOLOCYTOCHROME-C-SYNTHASE-RXN is_a: GO:0016846 ! carbon-sulfur lyase activity [Term] id: GO:0004409 name: homoaconitate hydratase activity namespace: molecular_function def: "Catalysis of the reaction: 2-hydroxybutane-1,2,4-tricarboxylate = but-1-ene-1,2,4-tricarboxylate + H2O." [EC:4.2.1.36] subset: gosubset_prok xref_analog: EC:4.2.1.36 xref_analog: MetaCyc:HOMOACONITATE-HYDRATASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004410 name: homocitrate synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + H2O + 2-oxoglutarate = 2-hydroxybutane-1,2,4-tricarboxylate + CoA." [EC:2.3.3.14] comment: Note that this function was formerly EC:4.1.3.21. subset: gosubset_prok xref_analog: EC:2.3.3.14 xref_analog: MetaCyc:HOMOCITRATE-SYNTHASE-RXN is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0004411 name: homogentisate 1,2-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: homogentisate + O2 = 4-maleylacetoacetate." [EC:1.13.11.5] subset: gosubset_prok xref_analog: EC:1.13.11.5 xref_analog: MetaCyc:HOMOGENTISATE-1,2-DIOXYGENASE-RXN xref_analog: Reactome:11355 xref_analog: Reactome:115654 xref_analog: Reactome:118241 xref_analog: Reactome:120867 xref_analog: Reactome:123062 xref_analog: Reactome:125130 xref_analog: Reactome:71084 xref_analog: UM-BBD_enzymeID:e0081 is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0004412 name: homoserine dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-homoserine + NADP+ = L-aspartate-4-semialdehyde + NADPH + H+." [EC:1.1.1.3] subset: gosubset_prok xref_analog: EC:1.1.1.3 xref_analog: MetaCyc:HOMOSERDEHYDROG-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004413 name: homoserine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-homoserine = ADP + O-phospho-L-homoserine." [EC:2.7.1.39] subset: gosubset_prok xref_analog: EC:2.7.1.39 xref_analog: MetaCyc:HOMOSERKIN-RXN is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019202 ! amino acid kinase activity [Term] id: GO:0004414 name: homoserine O-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + L-homoserine = CoA + O-acetyl-L-homoserine." [EC:2.3.1.31] subset: gosubset_prok xref_analog: EC:2.3.1.31 xref_analog: MetaCyc:HOMOSERINE-O-ACETYLTRANSFERASE-RXN is_a: GO:0016413 ! O-acetyltransferase activity [Term] id: GO:0004415 name: hyalurononglucosaminidase activity namespace: molecular_function def: "Catalysis of the random hydrolysis of 1,4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate." [EC:3.2.1.35] subset: gosubset_prok exact_synonym: "hyaluronoglucosaminidase activity" [] xref_analog: EC:3.2.1.35 xref_analog: MetaCyc:3.2.1.35-RXN is_a: GO:0015929 ! hexosaminidase activity [Term] id: GO:0004416 name: hydroxyacylglutathione hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-(2-hydroxyacyl)glutathione + H2O = glutathione + a 2-hydroxy carboxylate." [EC:3.1.2.6] subset: gosubset_prok exact_synonym: "glyoxalase II" [] xref_analog: EC:3.1.2.6 xref_analog: MetaCyc:GLYOXII-RXN is_a: GO:0016790 ! thiolester hydrolase activity [Term] id: GO:0004417 name: hydroxyethylthiazole kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 4-methyl-5-(2-hydroxyethyl)-thiazole = ADP + 4-methyl-5-(2-phosphoethyl)-thiazole." [EC:2.7.1.50] subset: gosubset_prok xref_analog: EC:2.7.1.50 xref_analog: MetaCyc:THIAZOLSYN3-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004418 name: hydroxymethylbilane synthase activity namespace: molecular_function def: "Catalysis of the reaction: 4 porphobilinogen + H2O = hydroxymethylbilane + 4 NH3." [EC:4.3.1.8] comment: Note that this function was formerly EC:4.3.1.8. subset: gosubset_prok xref_analog: EC:2.5.1.61 xref_analog: MetaCyc:OHMETHYLBILANESYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004419 name: hydroxymethylglutaryl-CoA lyase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-3-hydroxy-3-methylglutaryl-CoA = acetyl-CoA + acetoacetate." [EC:4.1.3.4] subset: gosubset_prok xref_analog: EC:4.1.3.4 xref_analog: MetaCyc:HYDROXYMETHYLGLUTARYL-COA-LYASE-RXN xref_analog: Reactome:115643 xref_analog: Reactome:118230 xref_analog: Reactome:120856 xref_analog: Reactome:123053 xref_analog: Reactome:125119 xref_analog: Reactome:74178 xref_analog: Reactome:74179 is_a: GO:0016833 ! oxo-acid-lyase activity [Term] id: GO:0004420 name: hydroxymethylglutaryl-CoA reductase (NADPH) activity namespace: molecular_function def: "Catalysis of the reaction: (R)-mevalonate + CoA + 2 NADP+ = (S)-3-hydroxy-3-methylglutaryl-CoA + 2 NADPH + 2 H+." [EC:1.1.1.34] subset: gosubset_prok xref_analog: EC:1.1.1.34 xref_analog: MetaCyc:1.1.1.34-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004421 name: hydroxymethylglutaryl-CoA synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + H2O + acetoacetyl-CoA = (S)-3-hydroxy-3-methylglutaryl-CoA + CoA." [EC:2.3.3.10] comment: Note that this function was formerly EC:4.1.3.5. subset: gosubset_prok xref_analog: EC:2.3.3.10 xref_analog: MetaCyc:HYDROXYMETHYLGLUTARYL-COA-SYNTHASE-RXN xref_analog: Reactome:114608 xref_analog: Reactome:117017 xref_analog: Reactome:124240 xref_analog: Reactome:74169 xref_analog: Reactome:74170 is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0004422 name: hypoxanthine phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: IMP + diphosphate = hypoxanthine + 5-phospho-alpha-D-ribose 1-diphosphate or GMP + diphosphate = guanine + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.8, GOC:curators] comment: Note that GO uses one molecular function term for consistency with Enzyme Nomenclature; also, all hypoxanthine phosphoribosyltransferases identified to date can act on either hypoxanthine or guanine, as well as xanthine or 6-mercaptopurine. subset: gosubset_prok exact_synonym: "guanine phosphoribosyltransferase" [] exact_synonym: "HGPRTase" [] exact_synonym: "hypoxanthine-guanine phosphoribosyltransferase" [] exact_synonym: "IMP diphosphorylase" [] exact_synonym: "IMP pyrophosphorylase" [] exact_synonym: "transphosphoribosidase" [] xref_analog: EC:2.4.2.8 xref_analog: MetaCyc:HYPOXANPRIBOSYLTRAN-RXN xref_analog: Reactome:115614 xref_analog: Reactome:118196 xref_analog: Reactome:120826 xref_analog: Reactome:123025 xref_analog: Reactome:125088 xref_analog: Reactome:73824 xref_analog: Reactome:74210 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004423 name: iduronate-2-sulfatase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the 2-sulfate groups of the L-iduronate 2-sulfate units of dermatan sulfate, heparan sulfate and heparin." [EC:3.1.6.13] subset: gosubset_prok exact_synonym: "iduronate-2-sulphatase activity" [] xref_analog: EC:3.1.6.13 xref_analog: MetaCyc:3.1.6.13-RXN is_a: GO:0008484 ! sulfuric ester hydrolase activity [Term] id: GO:0004424 name: imidazoleglycerol-phosphate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate = 3-(imidazol-4-yl)-2-oxopropyl phosphate + H2O." [EC:4.2.1.19] subset: gosubset_prok exact_synonym: "imidazoleglycerol phosphate dehydratase activity" [] xref_analog: EC:4.2.1.19 xref_analog: MetaCyc:IMIDPHOSDEHYD-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004425 name: indole-3-glycerol-phosphate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate = 1-(indol-3-yl)glycerol 3-phosphate + CO2 + H2O." [EC:4.1.1.48] subset: gosubset_prok xref_analog: EC:4.1.1.48 xref_analog: MetaCyc:IGPSYN-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004426 name: indoleamine-pyrrole 2,3-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-tryptophan + O2 = N-formylkynurenine." [EC:1.13.11.42] subset: gosubset_prok xref_analog: EC:1.13.11.42 xref_analog: MetaCyc:INDOLEAMINE-PYRROLE-2,3-DIOXYGENASE-RXN is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0004427 name: inorganic diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: diphosphate + H2O = 2 phosphate." [EC:3.6.1.1] subset: gosubset_prok xref_analog: EC:3.6.1.1 xref_analog: MetaCyc:INORGPYROPHOSPHAT-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0004428 name: inositol or phosphatidylinositol kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of myo-inositol (1,2,3,5/4,6-cyclohexanehexol) or a phosphatidylinositol." [GOC:hb] subset: gosubset_prok exact_synonym: "inositol/phosphatidylinositol kinase activity" [] is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004430 name: 1-phosphatidylinositol 4-kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 1-phosphatidyl-1D-myo-inositol = ADP + 1-phosphatidyl-1D-myo-inositol 4-phosphate." [EC:2.7.1.67, PMID:9759495] exact_synonym: "PI4K" [] xref_analog: EC:2.7.1.67 xref_analog: MetaCyc:1-PHOSPHATIDYLINOSITOL-KINASE-RXN is_a: GO:0035004 ! phosphoinositide 3-kinase activity [Term] id: GO:0004432 name: 1-phosphatidylinositol-4-phosphate kinase, class IA namespace: molecular_function def: "OBSOLETE. A class I PI3K activated by tyrosine phosphorylation events." [PMID:11050418] comment: This term was made obsolete because it is not a valid molecular function. To update annotations, consider the molecular function term '1-phosphatidylinositol-4-phosphate 5-kinase activity ; GO:0016308'. is_obsolete: true [Term] id: GO:0004433 name: 1-phosphatidylinositol-4-phosphate kinase, class IB namespace: molecular_function def: "OBSOLETE. A class I PI3K activated via heterotrimeric G-proteins." [PMID:11050418] comment: This term was made obsolete because it is not a valid molecular function. To update annotations, consider the molecular function term '1-phosphatidylinositol-4-phosphate 5-kinase activity ; GO:0016308'. is_obsolete: true [Term] id: GO:0004434 name: inositol or phosphatidylinositol phosphodiesterase activity namespace: molecular_function subset: gosubset_prok exact_synonym: "inositol/phosphatidylinositol phosphodiesterase activity" [] xref_analog: EC:3.1.4.- is_a: GO:0008081 ! phosphoric diester hydrolase activity [Term] id: GO:0004435 name: phosphoinositide phospholipase C activity namespace: molecular_function def: "Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H2O = D-myo-inositol 1,4,5-trisphosphate + diacylglycerol." [EC:3.1.4.11] subset: gosubset_prok related_synonym: "phosphatidylinositol-4,5-bisphosphate hydrolysis" [] exact_synonym: "1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase activity" [] xref_analog: EC:3.1.4.11 xref_analog: MetaCyc:3.1.4.11-RXN is_a: GO:0004434 ! inositol or phosphatidylinositol phosphodiesterase activity is_a: GO:0004629 ! phospholipase C activity [Term] id: GO:0004436 name: phosphatidylinositol diacylglycerol-lyase activity namespace: molecular_function def: "Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol = D-myo-inositol 1,2-cyclic phosphate + diacylglycerol." [EC:4.6.1.13] comment: Note that this function was formerly EC:3.1.4.10. subset: gosubset_prok exact_synonym: "1-phosphatidylinositol phosphodiesterase activity" [] xref_analog: EC:4.6.1.13 xref_analog: MetaCyc:3.1.4.10-RXN is_a: GO:0016849 ! phosphorus-oxygen lyase activity [Term] id: GO:0004437 name: inositol or phosphatidylinositol phosphatase activity namespace: molecular_function def: "Catalysis of the removal of a phosphate group from phosphorylated myo-inositol (1,2,3,5/4,6-cyclohexanehexol) or a phosphatidylinositol." [GOC:hb] subset: gosubset_prok exact_synonym: "inositol/phosphatidylinositol phosphatase activity" [] is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004438 name: phosphatidylinositol-3-phosphatase activity namespace: molecular_function alt_id: GO:0016315 def: "Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol 3-phosphate + H2O = 1-phosphatidyl-1D-myo-inositol + phosphate." [EC:3.1.3.64] comment: Note that this function includes EC:3.1.3.65. exact_synonym: "inositol-1,3,-bisphosphate 3-phosphatase" [] exact_synonym: "inositol-1,4,-bisphosphate 3-phosphatase" [] xref_analog: EC:3.1.3.64 xref_analog: MetaCyc:PHOSPHATIDYLINOSITOL-3-PHOSPHATASE-RXN is_a: GO:0004437 ! inositol or phosphatidylinositol phosphatase activity is_a: GO:0042577 ! lipid phosphatase activity [Term] id: GO:0004439 name: phosphoinositide 5-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H2O = 1-phosphatidyl-1D-myo-inositol 4-phosphate + phosphate." [EC:3.1.3.36] exact_synonym: "phosphatidylinositol-bisphosphatase activity" [] xref_analog: EC:3.1.3.36 xref_analog: MetaCyc:PHOSPHATIDYLINOSITOL-BISPHOSPHATASE-RXN is_a: GO:0004437 ! inositol or phosphatidylinositol phosphatase activity is_a: GO:0042577 ! lipid phosphatase activity [Term] id: GO:0004441 name: inositol-1,4-bisphosphate 1-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 1D-myo-inositol 1,4-bisphosphate + H2O = 1D-myo-inositol 4-phosphate + phosphate." [EC:3.1.3.57, GOC:hb] exact_synonym: "inositol-polyphosphate 1-phosphatase" [] xref_analog: EC:3.1.3.57 xref_analog: MetaCyc:3.1.3.57-RXN is_a: GO:0016312 ! inositol bisphosphate phosphatase activity [Term] id: GO:0004442 name: inositol-1,4,-bisphosphate 3-phosphatase namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: D-myo-inositol 1,3-bisphosphate + H2O = D-myo-inositol 1-monophosphate + phosphate." [EC:3.1.3.65, GOC:go_curators] comment: To update annotations, consider the molecular function term 'phosphatidylinositol-3-phosphatase activity ; GO:0004438'. is_obsolete: true [Term] id: GO:0004443 name: inositol-1,4,-bisphosphate 4-phosphatase namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: D-myo-inositol 3,4-bisphosphate + H2O = D-myo-inositol 3-monophosphate + phosphate." [EC:3.1.3.66, GOC:go_curators] comment: To update annotations, consider the molecular function term 'phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity ; GO:0016316'. is_obsolete: true [Term] id: GO:0004444 name: inositol-1,4,5-trisphosphate 1-phosphatase namespace: molecular_function def: "OBSOLETE. The removal of a phosphate group from the carbon-1 position of D-myo-inositol 1,4,5-trisphosphate." [EC:3.1.3.61, GOC:hb] comment: This term was made obsolete because the existence of this function has not been established. To update annotations, consider the molecular function term 'inositol trisphosphate phosphatase activity ; GO:0046030' and its children. is_obsolete: true [Term] id: GO:0004445 name: inositol-polyphosphate 5-phosphatase activity namespace: molecular_function def: "Catalysis of the reactions: D-myo-inositol 1,4,5-trisphosphate + H2O = myo-inositol 1,4-bisphosphate + phosphate, and 1D-myo-inositol 1,3,4,5-tetrakisphosphate + H2O = 1D-myo-inositol 1,3,4-trisphosphate + phosphate." [EC:3.1.3.56] exact_synonym: "inositol 1,4,5-trisphosphate phosphatase activity" [] exact_synonym: "inositol trisphosphate phosphomonoesterase activity" [] exact_synonym: "inositol-1,4,5-trisphosphate 5-phosphatase activity" [] xref_analog: EC:3.1.3.56 xref_analog: MetaCyc:3.1.3.56-RXN is_a: GO:0046030 ! inositol trisphosphate phosphatase activity [Term] id: GO:0004446 name: multiple inositol-polyphosphate phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: myo-inositol hexakisphosphate + H2O = myo-inositol pentakisphosphate (mixed isomers) + phosphate." [EC:3.1.3.62] xref_analog: EC:3.1.3.62 is_a: GO:0004437 ! inositol or phosphatidylinositol phosphatase activity [Term] id: GO:0004447 name: iodide peroxidase activity namespace: molecular_function def: "Catalysis of the reaction: iodide + H2O2 = iodine + 2 H2O." [EC:1.11.1.8] xref_analog: EC:1.11.1.8 xref_analog: MetaCyc:IODIDE-PEROXIDASE-RXN is_a: GO:0004601 ! peroxidase activity [Term] id: GO:0004448 name: isocitrate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: isocitrate + acceptor = 2-oxoglutarate + CO2 + reduced acceptor." [EC:1.1.1.41, EC:1.1.1.42] subset: gosubset_prok xref_analog: EC:1.1.1.- is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004449 name: isocitrate dehydrogenase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: isocitrate + NAD+ = 2-oxoglutarate + CO2 + NADH + H+." [EC:1.1.1.41] subset: gosubset_prok xref_analog: EC:1.1.1.41 xref_analog: MetaCyc:ISOCITRATE-DEHYDROGENASE-(NAD+)-RXN xref_analog: Reactome:11496 xref_analog: Reactome:118334 xref_analog: Reactome:120945 xref_analog: Reactome:70966 is_a: GO:0004448 ! isocitrate dehydrogenase activity [Term] id: GO:0004450 name: isocitrate dehydrogenase (NADP+) activity namespace: molecular_function def: "Catalysis of the reaction: isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH + H+." [EC:1.1.1.42] subset: gosubset_prok xref_analog: EC:1.1.1.42 xref_analog: MetaCyc:ISOCITDEH-RXN is_a: GO:0004448 ! isocitrate dehydrogenase activity [Term] id: GO:0004451 name: isocitrate lyase activity namespace: molecular_function def: "Catalysis of the reaction: isocitrate = succinate + glyoxylate." [EC:4.1.3.1] subset: gosubset_prok xref_analog: EC:4.1.3.1 xref_analog: MetaCyc:ISOCIT-CLEAV-RXN is_a: GO:0016833 ! oxo-acid-lyase activity [Term] id: GO:0004452 name: isopentenyl-diphosphate delta-isomerase activity namespace: molecular_function def: "Catalysis of the isomerization of isopentenyl diphosphate into dimethylallyl diphosphate." [EC:5.3.3.2] subset: gosubset_prok exact_synonym: "isopentenyl-diphosphate D-isomerase activity" [] xref_analog: EC:5.3.3.2 xref_analog: MetaCyc:IPPISOM-RXN is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0004453 name: juvenile-hormone esterase activity namespace: molecular_function def: "Catalysis of the reaction: methyl (2E,6E)-(10R,11S)-10,11-epoxy-3,7,11-trimethyltrideca-2,6-dienoate + H2O = (2E,6E)-(10R,11S)-10,11-epoxy-3,7,11-trimethyltrideca-2,6-dienoate + methanol. A carboxylesterase that hydrolyzes the ester linkage of juvenile hormone." [EC:3.1.1.59, EMBL:AF304352] xref_analog: EC:3.1.1.59 xref_analog: MetaCyc:JUVENILE-HORMONE-ESTERASE-RXN is_a: GO:0004091 ! carboxylesterase activity [Term] id: GO:0004454 name: ketohexokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-fructose = ADP + D-fructose 1-phosphate." [EC:2.7.1.3] subset: gosubset_prok xref_analog: EC:2.7.1.3 xref_analog: MetaCyc:KETOHEXOKINASE-RXN xref_analog: Reactome:114969 xref_analog: Reactome:11506 xref_analog: Reactome:117433 xref_analog: Reactome:120121 xref_analog: Reactome:122538 xref_analog: Reactome:70330 is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004455 name: ketol-acid reductoisomerase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-2,3-dihydroxy-3-methylbutanoate + NADP+ = (S)-2-hydroxy-2-methyl-3-oxobutanoate + NADPH + H+." [EC:1.1.1.86] subset: gosubset_prok xref_analog: EC:1.1.1.86 xref_analog: MetaCyc:ACETOLACTREDUCTOISOM-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004456 name: phosphogluconate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: 6-phospho-D-gluconate = 2-dehydro-3-deoxy-6-phospho-D-gluconate + H2O." [EC:4.2.1.12] subset: gosubset_prok xref_analog: EC:4.2.1.12 xref_analog: MetaCyc:PGLUCONDEHYDRAT-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004457 name: lactate dehydrogenase activity namespace: molecular_function def: "Catalysis of the oxidation of lactate to produce pyruvate." [GOC:ai] subset: gosubset_prok is_a: GO:0016614 ! oxidoreductase activity, acting on CH-OH group of donors [Term] id: GO:0004458 name: D-lactate dehydrogenase (cytochrome) activity namespace: molecular_function def: "Catalysis of the reaction: (R)-lactate + 2 ferricytochrome c = pyruvate + 2 ferrocytochrome c." [EC:1.1.2.4] subset: gosubset_prok xref_analog: EC:1.1.2.4 xref_analog: MetaCyc:D-LACTATE-DEHYDROGENASE-(CYTOCHROME)-RXN is_a: GO:0004457 ! lactate dehydrogenase activity is_a: GO:0016898 ! oxidoreductase activity, acting on the CH-OH group of donors, cytochrome as acceptor [Term] id: GO:0004459 name: L-lactate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-lactate + NAD+ = pyruvate + NADH + H+." [EC:1.1.1.27] subset: gosubset_prok xref_analog: EC:1.1.1.27 xref_analog: MetaCyc:L-LACTATE-DEHYDROGENASE-RXN xref_analog: Reactome:114290 xref_analog: Reactome:114295 xref_analog: Reactome:114298 xref_analog: Reactome:114301 xref_analog: Reactome:114304 xref_analog: Reactome:11515 xref_analog: Reactome:116657 xref_analog: Reactome:116662 xref_analog: Reactome:116665 xref_analog: Reactome:116668 xref_analog: Reactome:116671 xref_analog: Reactome:119385 xref_analog: Reactome:119390 xref_analog: Reactome:119393 xref_analog: Reactome:119396 xref_analog: Reactome:119399 xref_analog: Reactome:121912 xref_analog: Reactome:121917 xref_analog: Reactome:121920 xref_analog: Reactome:121923 xref_analog: Reactome:121926 xref_analog: Reactome:123931 xref_analog: Reactome:123936 xref_analog: Reactome:123939 xref_analog: Reactome:123942 xref_analog: Reactome:123945 xref_analog: Reactome:70505 xref_analog: Reactome:70507 xref_analog: Reactome:70509 xref_analog: Reactome:70514 xref_analog: Reactome:70517 is_a: GO:0004457 ! lactate dehydrogenase activity is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004460 name: L-lactate dehydrogenase (cytochrome) activity namespace: molecular_function def: "Catalysis of the reaction: (S)-lactate + 2 ferricytochrome c = pyruvate + 2 ferrocytochrome c." [EC:1.1.2.3] subset: gosubset_prok related_synonym: "cytochrome b2" [] xref_analog: EC:1.1.2.3 xref_analog: MetaCyc:L-LACTATE-DEHYDROGENASE-(CYTOCHROME)-RXN is_a: GO:0004457 ! lactate dehydrogenase activity is_a: GO:0016898 ! oxidoreductase activity, acting on the CH-OH group of donors, cytochrome as acceptor [Term] id: GO:0004461 name: lactose synthase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-galactose + D-glucose = UDP + lactose." [EC:2.4.1.22] xref_analog: EC:2.4.1.22 xref_analog: MetaCyc:LACTOSE-SYNTHASE-RXN is_a: GO:0035250 ! UDP-galactosyltransferase activity [Term] id: GO:0004462 name: lactoylglutathione lyase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-S-lactoylglutathione = glutathione + methylglyoxal." [EC:4.4.1.5] subset: gosubset_prok exact_synonym: "glyoxalase I" [] xref_analog: EC:4.4.1.5 xref_analog: MetaCyc:GLYOXI-RXN is_a: GO:0016846 ! carbon-sulfur lyase activity [Term] id: GO:0004463 name: leukotriene-A4 hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: (7E,9E,11Z,14Z)-(5S,6S)-5,6-epoxyicosa-7,9,11,14-tetraenoate + H2O = (6Z,8E,10E,14Z)-(5S,12R)-5,12-dihydroxyicosa-6,8,10,14-tetraenoate." [EC:3.3.2.6] subset: gosubset_prok xref_analog: EC:3.3.2.6 xref_analog: MetaCyc:LEUKOTRIENE-A4-HYDROLASE-RXN is_a: GO:0016803 ! ether hydrolase activity [Term] id: GO:0004464 name: leukotriene-C4 synthase activity namespace: molecular_function def: "Catalysis of the reaction: leukotriene C4 = leukotriene A4 + glutathione." [EC:2.5.1.37] comment: Note that this function was EC:2.5.1.37. xref_analog: EC:4.4.1.20 xref_analog: MetaCyc:LEUKOTRIENE-C(4)-SYNTHASE-RXN is_a: GO:0016846 ! carbon-sulfur lyase activity [Term] id: GO:0004465 name: lipoprotein lipase activity namespace: molecular_function def: "Catalysis of the reaction: triacylglycerol + H2O = diacylglycerol + a carboxylate." [EC:3.1.1.34] xref_analog: EC:3.1.1.34 xref_analog: MetaCyc:LIPOPROTEIN-LIPASE-RXN is_a: GO:0016298 ! lipase activity [Term] id: GO:0004466 name: long-chain-acyl-CoA dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: acyl-CoA + ETF = 2,3-dehydroacyl-CoA + reduced ETF." [EC:1.3.99.13] subset: gosubset_prok xref_analog: EC:1.3.99.13 xref_analog: MetaCyc:LONG-CHAIN-ACYL-COA-DEHYDROGENASE-RXN is_a: GO:0003995 ! acyl-CoA dehydrogenase activity [Term] id: GO:0004467 name: long-chain-fatty-acid-CoA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a long-chain carboxylic acid + CoA = AMP + diphosphate + an acyl-CoA; long-chain fatty acids have chain lengths of C12-18." [EC:6.2.1.3] subset: gosubset_prok related_synonym: "long-chain fatty acid activation" [] exact_synonym: "acyl-CoA synthetase" [] exact_synonym: "long-chain acyl-CoA synthetase" [] exact_synonym: "long-chain-fatty-acyl-CoA synthetase" [] xref_analog: EC:6.2.1.3 xref_analog: MetaCyc:ACYLCOASYN-RXN xref_analog: Reactome:11544 xref_analog: Reactome:76246 xref_analog: UM-BBD_enzymeID:e0025 is_a: GO:0015645 ! fatty-acid ligase activity [Term] id: GO:0004468 name: lysine N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl phosphate + L-lysine = phosphate + N6-acetyl-L-lysine." [EC:2.3.1.32] subset: gosubset_prok exact_synonym: "lysine acetyltransferase activity" [] xref_analog: EC:2.3.1.32 xref_analog: MetaCyc:LYSINE-N-ACETYLTRANSFERASE-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004470 name: malic enzyme activity namespace: molecular_function def: "Catalysis of the oxidative decarboxylation of malate with the concomitant production of pyruvate." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0016615 ! malate dehydrogenase activity [Term] id: GO:0004471 name: malate dehydrogenase (decarboxylating) activity namespace: molecular_function def: "Catalysis of the reaction: (S)-malate + NAD+ = pyruvate + CO2 + NADH + H+. Does not decarboxylate oxaloacetate." [EC:1.1.1.39] subset: gosubset_prok xref_analog: EC:1.1.1.39 xref_analog: MetaCyc:1.1.1.39-RXN is_a: GO:0004470 ! malic enzyme activity is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004473 name: malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity namespace: molecular_function def: "Catalysis of the reaction: (S)-malate + NADP+ = pyruvate + CO2 + NADPH + H+. Also decarboxylates oxaloacetate." [EC:1.1.1.40] subset: gosubset_prok xref_analog: EC:1.1.1.40 xref_analog: MetaCyc:MALIC-NADP-RXN is_a: GO:0004470 ! malic enzyme activity is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004474 name: malate synthase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + H2O + glyoxylate = L-malate + CoA." [EC:2.3.3.9] comment: Note that this function was formerly EC:4.1.3.2. subset: gosubset_prok xref_analog: EC:2.3.3.9 xref_analog: MetaCyc:MALSYN-RXN is_a: GO:0046912 ! transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer [Term] id: GO:0004475 name: mannose-1-phosphate guanylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: GTP + alpha-D-mannose 1-phosphate = diphosphate + GDP-mannose." [EC:2.7.7.13] subset: gosubset_prok exact_synonym: "GTP:mannose-1-phosphate guanylyltransferase activity" [] xref_analog: EC:2.7.7.13 xref_analog: MetaCyc:2.7.7.13-RXN is_a: GO:0008905 ! mannose-phosphate guanylyltransferase activity [Term] id: GO:0004476 name: mannose-6-phosphate isomerase activity namespace: molecular_function def: "Catalysis of the reaction: D-mannose 6-phosphate = D-fructose 6-phosphate." [EC:5.3.1.8] subset: gosubset_prok xref_analog: EC:5.3.1.8 xref_analog: MetaCyc:MANNPISOM-RXN is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004477 name: methenyltetrahydrofolate cyclohydrolase activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methenyltetrahydrofolate + H2O = 10-formyltetrahydrofolate." [EC:3.5.4.9] subset: gosubset_prok xref_analog: EC:3.5.4.9 xref_analog: MetaCyc:METHENYLTHFCYCLOHYDRO-RXN is_a: GO:0019238 ! cyclohydrolase activity [Term] id: GO:0004478 name: methionine adenosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-methionine + H2O = phosphate + diphosphate + S-adenosyl-L-methionine." [EC:2.5.1.6] subset: gosubset_prok xref_analog: EC:2.5.1.6 xref_analog: MetaCyc:S-ADENMETSYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004479 name: methionyl-tRNA formyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 10-formyltetrahydrofolate + L-methionyl-tRNA + H2O = tetrahydrofolate + N-formylmethionyl-tRNA." [EC:2.1.2.9] subset: gosubset_prok xref_analog: EC:2.1.2.9 xref_analog: MetaCyc:METHIONYL-TRNA-FORMYLTRANSFERASE-RXN is_a: GO:0016742 ! hydroxymethyl-, formyl- and related transferase activity [Term] id: GO:0004481 name: methylene-fatty-acyl-phospholipid synthase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid = S-adenosyl-L-homocysteine + phospholipid methylene fatty acid." [EC:2.1.1.16] xref_analog: EC:2.1.1.16 xref_analog: MetaCyc:2.1.1.16-RXN is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004482 name: mRNA (guanine-N7-)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + G(5')pppR-RNA = S-adenosyl-L-homocysteine + m7G(5')pppR-RNA; m7G(5')pppR-RNA is mRNA containing an N7-methylguanine cap; R may be guanosine or adenosine." [EC:2.1.1.56] xref_analog: EC:2.1.1.56 xref_analog: MetaCyc:MRNA-(GUANINE-N7-)-METHYLTRANSFERASE-RXN xref_analog: Reactome:72079 xref_analog: Reactome:72082 is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008174 ! mRNA methyltransferase activity [Term] id: GO:0004483 name: mRNA (nucleoside-2'-O-)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + m7G(5')pppR-RNA = S-adenosyl-L-homocysteine + m7G(5')pppRm-RNA. R may be guanosine or adenosine." [EC:2.1.1.57] subset: gosubset_prok xref_analog: EC:2.1.1.57 xref_analog: MetaCyc:2.1.1.57-RXN is_a: GO:0008171 ! O-methyltransferase activity is_a: GO:0008174 ! mRNA methyltransferase activity [Term] id: GO:0004484 name: mRNA guanylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: GTP + (5')pp-Pur-mRNA = diphosphate + G(5')ppp-Pur-mRNA; G(5')ppp-Pur-mRNA is mRNA containing a guanosine residue linked 5' through three phosphates to the 5' position of the terminal residue." [EC:2.7.7.50] exact_synonym: "GTP:mRNA guanylyltransferase activity" [] xref_analog: EC:2.7.7.50 xref_analog: MetaCyc:MRNA-GUANYLYLTRANSFERASE-RXN xref_analog: Reactome:111348 xref_analog: Reactome:77051 xref_analog: Reactome:80327 is_a: GO:0008192 ! RNA guanylyltransferase activity [Term] id: GO:0004485 name: methylcrotonoyl-CoA carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 3-methylcrotonyl-CoA + HCO3- = ADP + phosphate + 3-methylglutaconyl-CoA." [EC:6.4.1.4] subset: gosubset_prok xref_analog: EC:6.4.1.4 xref_analog: MetaCyc:METHYLCROTONYL-COA-CARBOXYLASE-RXN xref_analog: Reactome:115056 xref_analog: Reactome:11585 xref_analog: Reactome:117520 xref_analog: Reactome:120203 xref_analog: Reactome:122601 xref_analog: Reactome:124654 xref_analog: Reactome:70771 is_a: GO:0016421 ! CoA carboxylase activity [Term] id: GO:0004486 name: methylenetetrahydrofolate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + NAD(P)+ = 5,10-methenyltetrahydrofolate + NAD(P)H + H+." [EC:1.5.1.-, EC:1.5.1.15] subset: gosubset_prok xref_analog: EC:1.5.1.- is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004487 name: methylenetetrahydrofolate dehydrogenase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + NAD+ = 5,10-methenyltetrahydrofolate + NADH + H+." [EC:1.5.1.15] xref_analog: EC:1.5.1.15 xref_analog: MetaCyc:1.5.1.15-RXN is_a: GO:0004486 ! methylenetetrahydrofolate dehydrogenase activity [Term] id: GO:0004488 name: methylenetetrahydrofolate dehydrogenase (NADP+) activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + NADP+ = 5,10-methenyltetrahydrofolate + NADPH + H+." [EC:1.5.1.5] subset: gosubset_prok xref_analog: EC:1.5.1.5 xref_analog: MetaCyc:METHYLENETHFDEHYDROG-NADP-RXN is_a: GO:0004486 ! methylenetetrahydrofolate dehydrogenase activity [Term] id: GO:0004489 name: methylenetetrahydrofolate reductase (NADPH) activity namespace: molecular_function alt_id: GO:0008702 def: "Catalysis of the reaction: 5-methyltetrahydrofolate + NAD(P)+ = 5,10-methylenetetrahydrofolate + NAD(P)H + H+." [EC:1.5.1.20] subset: gosubset_prok exact_synonym: "5,10-methylenetetrahydrofolate reductase (FADH) activity" [] exact_synonym: "5,10-methylenetetrahydrofolate reductase (FADH2) activity" [] xref_analog: EC:1.5.1.20 xref_analog: MetaCyc:1.5.1.20-RXN is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004490 name: methylglutaconyl-CoA hydratase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-3-hydroxy-3-methylglutaryl-CoA = trans-3-methylglutaconyl-CoA + H2O." [EC:4.2.1.18] subset: gosubset_prok xref_analog: EC:4.2.1.18 xref_analog: MetaCyc:METHYLGLUTACONYL-COA-HYDRATASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004491 name: methylmalonate-semialdehyde dehydrogenase (acylating) activity namespace: molecular_function def: "Catalysis of the reaction: 2-methyl-3-oxopropanoate + CoA + NAD+ = propanoyl-CoA + CO2 + NADH + H+." [EC:1.2.1.27] subset: gosubset_prok xref_analog: EC:1.2.1.27 xref_analog: MetaCyc:1.2.1.27-RXN xref_analog: Reactome:115829 xref_analog: Reactome:118460 xref_analog: Reactome:125305 xref_analog: Reactome:70889 xref_analog: Reactome:70892 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004492 name: methylmalonyl-CoA decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-2-methyl-3-oxopropanoyl-CoA = propanoyl-CoA + CO2." [EC:4.1.1.41] subset: gosubset_prok xref_analog: EC:4.1.1.41 xref_analog: MetaCyc:METHYLMALONYL-COA-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004493 name: methylmalonyl-CoA epimerase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-2-methyl-3-oxopropanoyl-CoA = (S)-2-methyl-3-oxopropanoyl-CoA." [EC:5.1.99.1] subset: gosubset_prok xref_analog: EC:5.1.99.1 xref_analog: MetaCyc:METHYLMALONYL-COA-EPIM-RXN xref_analog: Reactome:11610 xref_analog: Reactome:71018 is_a: GO:0016854 ! racemase and epimerase activity [Term] id: GO:0004494 name: methylmalonyl-CoA mutase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-2-methyl-3-oxopropanoyl-CoA = succinyl-CoA." [EC:5.4.99.2] subset: gosubset_prok xref_analog: EC:5.4.99.2 xref_analog: MetaCyc:METHYLMALONYL-COA-MUT-RXN xref_analog: Reactome:115759 xref_analog: Reactome:11612 xref_analog: Reactome:118377 xref_analog: Reactome:120982 xref_analog: Reactome:123169 xref_analog: Reactome:125235 xref_analog: Reactome:71008 is_a: GO:0016866 ! intramolecular transferase activity [Term] id: GO:0004495 name: mevaldate reductase activity namespace: molecular_function def: "Catalysis of the reaction: (R)-mevalonate + acceptor = mevaldate + reduced acceptor." [EC:1.1.1.32, EC:1.1.1.33] xref_analog: EC:1.1.1.- is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004496 name: mevalonate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (R)-mevalonate = ADP + (R)-5-phosphomevalonate." [EC:2.7.1.36] subset: gosubset_prok xref_analog: EC:2.7.1.36 xref_analog: MetaCyc:MEVALONATE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004497 name: monooxygenase activity namespace: molecular_function def: "Catalysis of the incorporation of one atom from molecular oxygen into a compound and the reduction of the other atom of oxygen to water." [http://www.onelook.com/, ISBN:0198506732] subset: gosubset_prok is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0004498 name: calcidiol 1-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: calcidiol + NADPH + H+ + O2 = calcitriol + NADP+ + H2O." [EC:1.14.13.13] exact_synonym: "25-hydroxy vitamin D3 1-alpha-hydroxylase" [] exact_synonym: "25-hydroxycholecalciferol 1-hydroxylase activity" [] narrow_synonym: "cytochrome P450 CYP27B" [] xref_analog: EC:1.14.13.13 xref_analog: MetaCyc:CALCIDIOL-1-MONOOXYGENASE-RXN is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD or NADH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004499 name: dimethylaniline monooxygenase (N-oxide-forming) activity namespace: molecular_function def: "Catalysis of the reaction: N,N-dimethylaniline + NADPH + H+ + O2 = N,N-dimethylaniline N-oxide + NADP+ + H2O." [EC:1.14.13.8] subset: gosubset_prok xref_analog: EC:1.14.13.8 xref_analog: MetaCyc:1.14.13.8-RXN xref_analog: Reactome:11625 is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD or NADH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004500 name: dopamine beta-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: 3,4-dihydroxyphenethylamine + ascorbate + O2 = noradrenaline + dehydroascorbate + H2O." [EC:1.14.17.1] subset: gosubset_prok exact_synonym: "dopamine b-hydroxylase activity" [] xref_analog: EC:1.14.17.1 xref_analog: MetaCyc:DOPAMINE-BETA-MONOOXYGENASE-RXN is_a: GO:0016715 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004501 name: ecdysone 20-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: ecdysone + donor-H2 + O2 = 20-hydroxyecdysone + acceptor + H2O." [EC:1.14.99.22] exact_synonym: "ecdysone 20-hydroxylase" [] broad_synonym: "ecdysone modification" [] xref_analog: EC:1.14.99.22 xref_analog: MetaCyc:ECDYSONE-20-MONOOXYGENASE-RXN is_a: GO:0008395 ! steroid hydroxylase activity is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004502 name: kynurenine 3-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-kynurenine + NADPH + H+ + O2 = 3-hydroxy-L-kynurenine + NADP+ + H2O." [EC:1.14.13.9] subset: gosubset_prok exact_synonym: "kynurenine 3-hydroxylase activity" [] xref_analog: EC:1.14.13.9 xref_analog: MetaCyc:KYNURENINE-3-MONOOXYGENASE-RXN xref_analog: Reactome:115742 xref_analog: Reactome:118360 xref_analog: Reactome:120970 xref_analog: Reactome:12242 xref_analog: Reactome:123152 xref_analog: Reactome:125223 xref_analog: Reactome:71199 is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD or NADH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004503 name: monophenol monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-tyrosine + L-DOPA + O2 = L-DOPA + DOPAquinone + H2O." [EC:1.14.18.1] subset: gosubset_prok related_synonym: "prophenol oxidase" [] exact_synonym: "phenol oxidase activity" [] xref_analog: EC:1.14.18.1 xref_analog: MetaCyc:MONOPHENOL-MONOOXYGENASE-RXN is_a: GO:0016716 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004504 name: peptidylglycine monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: peptidyl-glycine + ascorbate + O2 = peptidyl(2-hydroxyglycine) + dehydroascorbate + H2O." [EC:1.14.17.3] subset: gosubset_prok exact_synonym: "peptidylglycine 2-hydroxylase activity" [] xref_analog: EC:1.14.17.3 xref_analog: MetaCyc:PEPTIDYLGLYCINE-MONOOXYGENASE-RXN is_a: GO:0016715 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004505 name: phenylalanine 4-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-phenylalanine + tetrahydrobiopterin + O2 = L-tyrosine + 4-alpha-hydroxytetrahydrobiopterin." [EC:1.14.16.1] subset: gosubset_prok exact_synonym: "phenylalanine hydroxylase activity" [] xref_analog: EC:1.14.16.1 xref_analog: MetaCyc:PHENYLALANINE-4-MONOOXYGENASE-RXN xref_analog: Reactome:115907 xref_analog: Reactome:118536 xref_analog: Reactome:121145 xref_analog: Reactome:12249 xref_analog: Reactome:123271 xref_analog: Reactome:125380 xref_analog: Reactome:71074 is_a: GO:0016714 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004506 name: squalene monooxygenase activity namespace: molecular_function def: "Catalysis of the formation of a 2,3-epoxide in squalene." [EC:1.14.99.7] exact_synonym: "squalene hydroxylase activity" [] xref_analog: EC:1.14.99.7 xref_analog: MetaCyc:SQUALENE-MONOOXYGENASE-RXN is_a: GO:0004497 ! monooxygenase activity is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004507 name: steroid 11-beta-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: a steroid + reduced adrenal ferredoxin + O2 = an 11-beta-hydroxysteroid + oxidized adrenal ferredoxin + H2O." [EC:1.14.15.4] exact_synonym: "steroid 11-beta-hydroxylase activity" [] narrow_synonym: "cytochrome P450 CYP11B1" [] narrow_synonym: "cytochrome P450 CYP11B2" [] xref_analog: EC:1.14.15.4 xref_analog: MetaCyc:STEROID-11-BETA-MONOOXYGENASE-RXN is_a: GO:0008395 ! steroid hydroxylase activity is_a: GO:0016713 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced iron-sulfur protein as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004508 name: steroid 17-alpha-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: a steroid + AH2 + O2 = a 17a-hydroxysteroid + A + H2O." [EC:1.14.99.9] exact_synonym: "steroid 17-alpha-hydroxylase activity" [] exact_synonym: "steroid 17-alpha-hydroxylase-C17-20 lyase" [] narrow_synonym: "cytochrome P450 CYP17" [] xref_analog: EC:1.14.99.9 xref_analog: MetaCyc:STEROID-17-ALPHA-MONOOXYGENASE-RXN is_a: GO:0008395 ! steroid hydroxylase activity is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004509 name: steroid 21-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: a steroid + donor-H2 + O2 = a 21-hydroxysteroid + acceptor + H2O." [EC:1.14.99.10] exact_synonym: "steroid 21-hydroxylase activity" [] narrow_synonym: "cytochrome P450 CYP21A1" [] xref_analog: EC:1.14.99.10 xref_analog: MetaCyc:STEROID-21-MONOOXYGENASE-RXN is_a: GO:0008395 ! steroid hydroxylase activity is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004510 name: tryptophan 5-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-tryptophan + tetrahydrobiopterin + O2 = 5-hydroxy-L-tryptophan + 4-alpha-hydroxytetrahydrobiopterin + H2O." [EC:1.14.16.4] exact_synonym: "L-tryptophan hydroxylase activity" [] xref_analog: EC:1.14.16.4 xref_analog: MetaCyc:TRYPTOPHAN-5-MONOOXYGENASE-RXN is_a: GO:0016714 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004511 name: tyrosine 3-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-tyrosine + tetrahydrobiopterin + O2 = 3,4-dihydroxy-L-phenylalanine + 4-alpha-hydroxytetrahydrobiopterin + H2O." [EC:1.14.16.2] exact_synonym: "tyrosine 3-hydroxylase activity" [] exact_synonym: "tyrosine hydroxylase activity" [] xref_analog: EC:1.14.16.2 xref_analog: MetaCyc:TYROSINE-3-MONOOXYGENASE-RXN is_a: GO:0016714 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004512 name: inositol-3-phosphate synthase activity namespace: molecular_function def: "Catalysis of the reaction: D-glucose 6-phosphate = 1D-myo-inositol 3-phosphate; requires NAD, which dehydrogenates the CHOH group to CO at C-5 of the glucose 6-phosphate, making C-6 into an active methylene, able to condense with the aldehyde at C-1. Finally, the enzyme-bound NADH reconverts C-5 into the CHOH form." [EC:5.5.1.4] subset: gosubset_prok exact_synonym: "myo-inositol-1-phosphate synthase activity" [] xref_analog: EC:5.5.1.4 xref_analog: MetaCyc:MYO-INOSITOL-1-PHOSPHATE-SYNTHASE-RXN is_a: GO:0016872 ! intramolecular lyase activity [Term] id: GO:0004513 name: neolactotetraosylceramide alpha-2,3-sialyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CMP-N-acetylneuraminate + beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosaminyl-1,3-beta-D-galactosyl-1,4-beta-D-glucosylceramide = CMP + alpha-N-acetylneuraminyl-2,3-beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosaminyl-1,3-beta-D-galactosyl-1,4-D-glucosylceramide." [EC:2.4.99.10] xref_analog: EC:2.4.99.10 xref_analog: MetaCyc:2.4.99.10-RXN is_a: GO:0008373 ! sialyltransferase activity [Term] id: GO:0004514 name: nicotinate-nucleotide diphosphorylase (carboxylating) activity namespace: molecular_function def: "Catalysis of the reaction: nicotinate D-ribonucleotide + diphosphate + CO2 = pyridine-2,3-dicarboxylate + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.19] subset: gosubset_prok exact_synonym: "nicotinate-nucleotide pyrophosphorylase (carboxylating) activity" [] xref_analog: EC:2.4.2.19 xref_analog: MetaCyc:QUINOPRIBOTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004515 name: nicotinate-nucleotide adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nicotinate ribonucleotide = diphosphate + deamido-NAD+." [EC:2.7.7.18] subset: gosubset_prok exact_synonym: "ATP:nicotinate-nucleotide adenylyltransferase activity" [] narrow_synonym: "nicotinic acid mononucleotide adenylyltransferase" [] xref_analog: EC:2.7.7.18 xref_analog: MetaCyc:NICONUCADENYLYLTRAN-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004516 name: nicotinate phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: nicotinate D-ribonucleotide + diphosphate = nicotinate + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.11] subset: gosubset_prok xref_analog: EC:2.4.2.11 xref_analog: MetaCyc:NICOTINATEPRIBOSYLTRANS-RXN is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004517 name: nitric-oxide synthase activity namespace: molecular_function def: "Catalysis of the reaction: L-arginine + n NADPH + n H+ + m O2 = citrulline + nitric oxide + n NADP+." [EC:1.14.13.39] subset: gosubset_prok exact_synonym: "nitric oxide synthase activity" [] xref_analog: EC:1.14.13.39 xref_analog: MetaCyc:NITRIC-OXIDE-SYNTHASE-RXN is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD or NADH as one donor, and incorporation of one atom of oxygen [Term] id: GO:0004518 name: nuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within nucleic acids." [ISBN:0198547684] comment: Consider also annotating to the molecular function term 'nucleic acid binding ; GO:0003676'. subset: goslim_generic subset: goslim_plant subset: gosubset_prok xref_analog: EC:3.1.-.- is_a: GO:0016788 ! hydrolase activity, acting on ester bonds [Term] id: GO:0004519 name: endonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks." [GOC:mah, ISBN:0198547684] subset: gosubset_prok related_synonym: "intein" [] narrow_synonym: "endonuclease VIII activity" [] xref_analog: Reactome:109956 xref_analog: Reactome:119670 xref_analog: Reactome:3138 xref_analog: Reactome:75184 is_a: GO:0004518 ! nuclease activity [Term] id: GO:0004520 name: endodeoxyribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid by creating internal breaks." [GOC:mah, ISBN:0198547684] subset: gosubset_prok narrow_synonym: "endonuclease G activity" [] xref_analog: Reactome:109958 xref_analog: Reactome:109959 xref_analog: Reactome:110358 xref_analog: Reactome:114861 xref_analog: Reactome:117303 xref_analog: Reactome:119721 xref_analog: Reactome:120020 xref_analog: Reactome:122443 xref_analog: Reactome:3136 is_a: GO:0004519 ! endonuclease activity is_a: GO:0004536 ! deoxyribonuclease activity [Term] id: GO:0004521 name: endoribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within ribonucleic acid by creating internal breaks." [GOC:mah, ISBN:0198547684] subset: gosubset_prok related_synonym: "unfolded protein response, cleavage of primary transcript encoding UFP-specific transcription factor" [] narrow_synonym: "endonuclease G activity" [] is_a: GO:0004519 ! endonuclease activity is_a: GO:0004540 ! ribonuclease activity [Term] id: GO:0004522 name: pancreatic ribonuclease activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of RNA to 3'-phosphomononucleotides and 3'-phosphooligonucleotides ending in C-P or U-P with 2',3'-cyclic phosphate intermediates." [EC:3.1.27.5] exact_synonym: "ribonuclease A" [] exact_synonym: "ribonuclease I" [] xref_analog: EC:3.1.27.5 xref_analog: MetaCyc:3.1.27.5-RXN is_a: GO:0016892 ! endoribonuclease activity, producing 3'-phosphomonoesters [Term] id: GO:0004523 name: ribonuclease H activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of RNA in RNA-DNA hybrids to 5'-phosphomonoesters." [EC:3.1.26.4] comment: Note that the EC recommended name for this enzyme activity is 'calf thymus ribonuclease H', even though it is found in many species. subset: gosubset_prok exact_synonym: "calf thymus ribonuclease H activity" [] exact_synonym: "RNase H activity" [] xref_analog: EC:3.1.26.4 xref_analog: MetaCyc:3.1.26.4-RXN is_a: GO:0016891 ! endoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004524 name: ribonuclease H1 activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of RNA-DNA hybrids to 5'-phosphomonoesters." [EC:3.1.26.4] subset: gosubset_prok is_a: GO:0004523 ! ribonuclease H activity [Term] id: GO:0004525 name: ribonuclease III activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of RNA with 5'-phosphomonoesters and 3'-OH termini; makes two staggered cuts in both strands of dsRNA, leaving a 3' overhang of 2 nt." [PMID:11157775, PMID:15242644] subset: gosubset_prok xref_analog: EC:3.1.26.3 xref_analog: MetaCyc:3.1.26.3-RXN is_a: GO:0016891 ! endoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004526 name: ribonuclease P activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of RNA, removing 5' extra nucleotides from tRNA precursor." [EC:3.1.26.5] subset: gosubset_prok exact_synonym: "RNase P" [] xref_analog: EC:3.1.26.5 xref_analog: MetaCyc:3.1.26.5-RXN is_a: GO:0004549 ! tRNA-specific ribonuclease activity is_a: GO:0016891 ! endoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004527 name: exonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end." [GOC:mah, ISBN:0198547684] subset: gosubset_prok xref_analog: Reactome:75179 is_a: GO:0004518 ! nuclease activity [Term] id: GO:0004528 name: phosphodiesterase I activity namespace: molecular_function def: "Catalysis of the sequential hydrolytic removal of 5'-nucleotides from the 3'-hydroxy termini of 3'-hydroxy-terminated oligonucleotides." [EC:3.1.4.1] subset: gosubset_prok xref_analog: EC:3.1.4.1 xref_analog: MetaCyc:3.1.4.1-RXN is_a: GO:0004527 ! exonuclease activity is_a: GO:0008081 ! phosphoric diester hydrolase activity [Term] id: GO:0004529 name: exodeoxyribonuclease activity namespace: molecular_function def: "Catalysis of the sequential cleavage of mononucleotides from a free 5' or 3' terminus of a DNA molecule." [GOC:mah, ISBN:0198547684] subset: gosubset_prok is_a: GO:0004527 ! exonuclease activity is_a: GO:0004536 ! deoxyribonuclease activity [Term] id: GO:0004530 name: deoxyribonuclease I activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of DNA to 5'-phosphodinucleotide and 5'-phosphooligonucleotide end products." [EC:3.1.21.1] subset: gosubset_prok xref_analog: EC:3.1.21.1 xref_analog: MetaCyc:3.1.21.1-RXN is_a: GO:0016888 ! endodeoxyribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004531 name: deoxyribonuclease II activity namespace: molecular_function def: "Catalysis of the endonucleolytic cleavage of DNA to 3'-phosphodinucleotide and 3'-phosphooligonucleotide end products." [EC:3.1.22.1] subset: gosubset_prok xref_analog: EC:3.1.22.1 xref_analog: MetaCyc:3.1.22.1-RXN is_a: GO:0016889 ! endodeoxyribonuclease activity, producing 3'-phosphomonoesters [Term] id: GO:0004532 name: exoribonuclease activity namespace: molecular_function def: "Catalysis of the sequential cleavage of mononucleotides from a free 5' or 3' terminus of an RNA molecule." [GOC:mah, ISBN:0198547684] subset: gosubset_prok is_a: GO:0004527 ! exonuclease activity is_a: GO:0004540 ! ribonuclease activity [Term] id: GO:0004533 name: exoribonuclease H activity namespace: molecular_function def: "Catalysis of the exonucleolytic cleavage of RNA to 5'-phosphomonoester oligonucleotides in both 5' to 3' and 3' to 5' directions." [EC:3.1.13.2, ISBN:0198547684] xref_analog: EC:3.1.13.2 xref_analog: MetaCyc:3.1.13.2-RXN is_a: GO:0016896 ! exoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004534 name: 5'-3' exoribonuclease activity namespace: molecular_function def: "Catalysis of the sequential cleavage of mononucleotides from a free 5' terminus of an RNA molecule." [GOC:mah, ISBN:0198547684] related_synonym: "viral host shutoff protein" [] xref_analog: EC:3.1.13.- is_a: GO:0008409 ! 5'-3' exonuclease activity is_a: GO:0016896 ! exoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004535 name: poly(A)-specific ribonuclease activity namespace: molecular_function def: "Catalysis of the exonucleolytic cleavage of poly(A) to 5'-AMP." [EC:3.1.13.4, ISBN:0198547684] xref_analog: EC:3.1.13.4 xref_analog: MetaCyc:3.1.13.4-RXN is_a: GO:0016896 ! exoribonuclease activity, producing 5'-phosphomonoesters [Term] id: GO:0004536 name: deoxyribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid." [GOC:mah, ISBN:0198547684] comment: Consider also annotating to the molecular function term 'DNA binding ; GO:0003677'. subset: gosubset_prok is_a: GO:0004518 ! nuclease activity [Term] id: GO:0004537 name: caspase-activated deoxyribonuclease activity namespace: molecular_function is_a: GO:0004536 ! deoxyribonuclease activity [Term] id: GO:0004540 name: ribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of phosphodiester bonds in chains of RNA." [GOC:mah, ISBN:0198547684] comment: Consider also annotating to the molecular function term 'RNA binding ; GO:0003723'. subset: gosubset_prok is_a: GO:0004518 ! nuclease activity [Term] id: GO:0004549 name: tRNA-specific ribonuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of phosphodiester bonds in tRNA molecules." [GOC:mah] subset: gosubset_prok is_a: GO:0004540 ! ribonuclease activity [Term] id: GO:0004550 name: nucleoside diphosphate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + nucleoside diphosphate = ADP + nucleoside triphosphate." [EC:2.7.4.6] subset: gosubset_prok exact_synonym: "nucleoside-diphosphate kinase activity" [] xref_analog: EC:2.7.4.6 xref_analog: MetaCyc:NUCLEOSIDE-DIP-KIN-RXN xref_analog: Reactome:110617 xref_analog: Reactome:110622 xref_analog: Reactome:110637 xref_analog: Reactome:114358 xref_analog: Reactome:114361 xref_analog: Reactome:114364 xref_analog: Reactome:114369 xref_analog: Reactome:114409 xref_analog: Reactome:116721 xref_analog: Reactome:116724 xref_analog: Reactome:116727 xref_analog: Reactome:116732 xref_analog: Reactome:116766 xref_analog: Reactome:119451 xref_analog: Reactome:119456 xref_analog: Reactome:119494 xref_analog: Reactome:121973 xref_analog: Reactome:122006 xref_analog: Reactome:123985 xref_analog: Reactome:123988 xref_analog: Reactome:123991 xref_analog: Reactome:123996 xref_analog: Reactome:12403 xref_analog: Reactome:124034 xref_analog: Reactome:73544 xref_analog: Reactome:74194 is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor is_a: GO:0019205 ! nucleobase, nucleoside, nucleotide kinase activity [Term] id: GO:0004551 name: nucleotide diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: a dinucleotide + H2O = 2 mononucleotides." [EC:3.6.1.9] subset: gosubset_prok exact_synonym: "nucleotide pyrophosphatase activity" [] xref_analog: EC:3.6.1.9 xref_analog: MetaCyc:NUCLEOTIDE-PYROPHOSPHATASE-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0004552 name: octanol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 1-octanol + NAD+ = 1-octanal + NADH + H+." [EC:1.1.1.73] xref_analog: EC:1.1.1.73 xref_analog: MetaCyc:OCTANOL-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004553 name: hydrolase activity, hydrolyzing O-glycosyl compounds namespace: molecular_function subset: gosubset_prok exact_synonym: "O-glucosyl hydrolase" [] xref_analog: EC:3.2.1 is_a: GO:0016798 ! hydrolase activity, acting on glycosyl bonds [Term] id: GO:0004555 name: alpha,alpha-trehalase activity namespace: molecular_function def: "Catalysis of the reaction: alpha,alpha-trehalose + H2O = 2 D-glucose." [EC:3.2.1.28] subset: gosubset_prok xref_analog: EC:3.2.1.28 xref_analog: MetaCyc:TREHALA-RXN is_a: GO:0015927 ! trehalase activity [Term] id: GO:0004556 name: alpha-amylase activity namespace: molecular_function def: "Catalysis of the endohydrolysis of 1,4-alpha-D-glucosidic linkages in polysaccharides containing three or more 1,4-alpha-linked D-glucose units." [EC:3.2.1.1] subset: gosubset_prok xref_analog: EC:3.2.1.1 xref_analog: MetaCyc:3.2.1.1-RXN is_a: GO:0016160 ! amylase activity [Term] id: GO:0004557 name: alpha-galactosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal, non-reducing alpha-D-galactose residues in alpha-D-galactosides, including galactose oligosaccharides, galactomannans and galactohydrolase." [EC:3.2.1.22] subset: gosubset_prok xref_analog: EC:3.2.1.22 xref_analog: MetaCyc:ALPHAGALACTOSID-RXN is_a: GO:0015925 ! galactosidase activity [Term] id: GO:0004558 name: alpha-glucosidase activity namespace: molecular_function alt_id: GO:0004562 alt_id: GO:0016982 def: "Catalysis of the hydrolysis of terminal, non-reducing 1,4-linked alpha-D-glucose residues with release of alpha-D-glucose." [EC:3.2.1.20] subset: gosubset_prok related_synonym: "alpha-glucosidase II" [] exact_synonym: "maltase" [] xref_analog: EC:3.2.1.20 xref_analog: MetaCyc:3.2.1.20-RXN is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004559 name: alpha-mannosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal, non-reducing alpha-D-mannose residues in alpha-D-mannosides." [EC:3.2.1.24] subset: gosubset_prok xref_analog: EC:3.2.1.24 xref_analog: MetaCyc:3.2.1.24-RXN is_a: GO:0015923 ! mannosidase activity [Term] id: GO:0004560 name: alpha-L-fucosidase activity namespace: molecular_function def: "Catalysis of the reaction: an alpha-L-fucoside + H2O = an alcohol + L-fucose." [EC:3.2.1.51] subset: gosubset_prok xref_analog: EC:3.2.1.51 xref_analog: MetaCyc:ALPHA-L-FUCOSIDASE-RXN is_a: GO:0015928 ! fucosidase activity [Term] id: GO:0004561 name: alpha-N-acetylglucosaminidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal non-reducing N-acetyl-D-glucosamine residues in N-acetyl-alpha-D-glucosaminides." [EC:3.2.1.50] xref_analog: EC:3.2.1.50 xref_analog: MetaCyc:3.2.1.50-RXN is_a: GO:0015929 ! hexosaminidase activity [Term] id: GO:0004563 name: beta-N-acetylhexosaminidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides." [EC:3.2.1.52] subset: gosubset_prok xref_analog: EC:3.2.1.52 xref_analog: MetaCyc:3.2.1.52-RXN is_a: GO:0015929 ! hexosaminidase activity [Term] id: GO:0004564 name: beta-fructofuranosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal non-reducing beta-D-fructofuranoside residues in beta-D-fructofuranosides." [EC:3.2.1.26] subset: gosubset_prok exact_synonym: "acid invertase activity" [] exact_synonym: "alkaline invertase activity" [] exact_synonym: "beta-D-fructofuranoside fructohydrolase activity" [] exact_synonym: "beta-h-fructosidase activity" [] exact_synonym: "fructosylinvertase activity" [] exact_synonym: "glucosucrase activity" [] exact_synonym: "maxinvert L 1000 activity" [] exact_synonym: "saccharase activity" [] broad_synonym: "beta-fructosidase activity" [] broad_synonym: "invertase activity" [] broad_synonym: "invertin activity" [] broad_synonym: "sucrase activity" [] xref_analog: EC:3.2.1.26 xref_analog: MetaCyc:3.2.1.26-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0004565 name: beta-galactosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal, non-reducing beta-D-galactose residues in beta-D-galactosides." [EC:3.2.1.23] comment: Note that the inclusion of 'MetaCyc:BGALACT-PWY' is exceptional: normally MetaCyc pathway entries are database references for biological process terms, not molecular function terms. An exception was made in this case because the MetaCyc entry 'BGALACT-PWY' describes only one reaction, that catalyzed by beta-galactosidase. subset: gosubset_prok related_synonym: "lactose hydrolysis" [] xref_analog: EC:3.2.1.23 xref_analog: MetaCyc:3.2.1.23-RXN xref_analog: MetaCyc:BGALACT-PWY is_a: GO:0015925 ! galactosidase activity [Term] id: GO:0004566 name: beta-glucuronidase activity namespace: molecular_function def: "Catalysis of the reaction: a beta-D-glucuronoside + H2O = an alcohol + D-glucuronate." [EC:3.2.1.31] subset: gosubset_prok xref_analog: EC:3.2.1.31 xref_analog: MetaCyc:BETA-GLUCURONID-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0004567 name: beta-mannosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of terminal, non-reducing beta-D-mannose residues in beta-D-mannosides." [EC:3.2.1.25] subset: gosubset_prok xref_analog: EC:3.2.1.25 xref_analog: MetaCyc:3.2.1.25-RXN is_a: GO:0015923 ! mannosidase activity [Term] id: GO:0004568 name: chitinase activity namespace: molecular_function def: "Catalysis of the random hydrolysis of N-acetyl-beta-D-glucosaminide 1,4-beta-linkages in chitin and chitodextrins." [EC:3.2.1.14] subset: gosubset_prok xref_analog: EC:3.2.1.14 xref_analog: MetaCyc:3.2.1.14-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0004569 name: glycoprotein endo-alpha-1,2-mannosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the terminal alpha-glucosyl-(1,3)-mannosyl unit from Glc-Man(9)-(GlcNAc)(2) oligosaccharide component of the glycoprotein produced in the Golgi membrane." [EC:3.2.1.130] xref_analog: EC:3.2.1.130 xref_analog: MetaCyc:3.2.1.130-RXN is_a: GO:0004559 ! alpha-mannosidase activity [Term] id: GO:0004571 name: mannosyl-oligosaccharide 1,2-alpha-mannosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the terminal 1,2-linked alpha-D-mannose residues in the oligo-mannose oligosaccharide Man(9)(GlcNAc)(2)." [EC:3.2.1.113] subset: gosubset_prok xref_analog: EC:3.2.1.113 xref_analog: MetaCyc:3.2.1.113-RXN is_a: GO:0015924 ! mannosyl-oligosaccharide mannosidase activity [Term] id: GO:0004572 name: mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of the terminal 1,3- and 1,6-linked alpha-D-mannose residues in the mannosyl-oligosaccharide Man(5)(GlcNAc)(3)." [EC:3.2.1.114] xref_analog: EC:3.2.1.114 xref_analog: MetaCyc:3.2.1.114-RXN is_a: GO:0015924 ! mannosyl-oligosaccharide mannosidase activity [Term] id: GO:0004573 name: mannosyl-oligosaccharide glucosidase activity namespace: molecular_function def: "Catalysis of the exohydrolysis of the non-reducing terminal glucose residue in the mannosyl-oligosaccharide Glc(3)Man(9)GlcNAc(2)." [EC:3.2.1.106] exact_synonym: "mannosyl-oligosaccharide glucosidase (processing A-glucosidase I) activity" [] xref_analog: EC:3.2.1.106 xref_analog: MetaCyc:3.2.1.106-RXN is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004574 name: oligo-1,6-glucosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of 1,6-alpha-D-glucosidic linkages in some oligosaccharides produced from starch and glycogen by alpha-amylase, and in isomaltose." [EC:3.2.1.10] subset: gosubset_prok broad_synonym: "sucrase-isomaltase activity" [] xref_analog: EC:3.2.1.10 xref_analog: MetaCyc:3.2.1.10-RXN is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004575 name: sucrose alpha-glucosidase activity namespace: molecular_function def: "Catalysis of the hydrolysis of sucrose and maltose by an alpha-D-glucosidase-type action." [EC:3.2.1.48] exact_synonym: "sucrase" [] exact_synonym: "sucrase-isomaltase" [] exact_synonym: "sucrose alpha-D-glucohydrolase" [] xref_analog: EC:3.2.1.48 xref_analog: MetaCyc:3.2.1.48-RXN is_a: GO:0015926 ! glucosidase activity [Term] id: GO:0004576 name: oligosaccharyl transferase activity namespace: molecular_function def: "Catalysis of the transfer of a oligosaccharyl group to an acceptor molecule, typically another carbohydrate or a lipid." [GOC:ai] subset: gosubset_prok xref_analog: EC:2.4.1.- is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0004577 name: N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + N-acetyl-D-glucosaminyl-diphosphodolichol = UDP + N,N''-diacetylchitobiosyldiphosphodolichol." [EC:2.4.1.141] xref_analog: EC:2.4.1.141 xref_analog: MetaCyc:2.4.1.141-RXN is_a: GO:0008375 ! acetylglucosaminyltransferase activity [Term] id: GO:0004578 name: chitobiosyldiphosphodolichol beta-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: GDP-mannose + chitobiosyldiphosphodolichol = GDP + beta-D-mannosylchitobiosyldiphosphodolichol." [EC:2.4.1.142] xref_analog: EC:2.4.1.142 xref_analog: MetaCyc:2.4.1.142-RXN is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0004579 name: dolichyl-diphosphooligosaccharide-protein glycotransferase activity namespace: molecular_function def: "Catalysis of the reaction: dolichyl diphosphooligosaccharide + protein L-asparagine = dolichyl diphosphate + a glycoprotein with the oligosaccharide chain attached by glycosylamine linkage to protein L-asparagine." [EC:2.4.1.119] exact_synonym: "dolichyl-diphosphooligosaccharide-protein glycosyltransferase activity" [] xref_analog: EC:2.4.1.119 xref_analog: MetaCyc:2.4.1.119-RXN is_a: GO:0004576 ! oligosaccharyl transferase activity [Term] id: GO:0004581 name: dolichyl-phosphate beta-glucosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-glucose + dolichyl phosphate = UDP + dolichyl beta-D-glucosyl phosphate." [EC:2.4.1.117] subset: gosubset_prok xref_analog: EC:2.4.1.117 xref_analog: MetaCyc:2.4.1.117-RXN is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] id: GO:0004582 name: dolichyl-phosphate beta-D-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: GDP-mannose + dolichyl phosphate = GDP + dolichyl D-mannosyl phosphate." [EC:2.4.1.83] subset: gosubset_prok xref_analog: EC:2.4.1.83 xref_analog: MetaCyc:2.4.1.83-RXN xref_analog: Reactome:12521 is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0004583 name: dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity namespace: molecular_function xref_analog: EC:2.4.1.- is_a: GO:0046527 ! glucosyltransferase activity [Term] id: GO:0004584 name: dolichyl-phosphate-mannose-glycolipid alpha-mannosyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of an alpha-D-mannosyl residue from dolichyl-phosphate D-mannose into membrane lipid-linked oligosaccharide." [EC:2.4.1.130] xref_analog: EC:2.4.1.130 xref_analog: MetaCyc:2.4.1.130-RXN is_a: GO:0000030 ! mannosyltransferase activity [Term] id: GO:0004585 name: ornithine carbamoyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: carbamoyl phosphate + L-ornithine = phosphate + L-citrulline." [EC:2.1.3.3] subset: gosubset_prok xref_analog: EC:2.1.3.3 xref_analog: MetaCyc:ORNCARBAMTRANSFER-RXN xref_analog: Reactome:115112 xref_analog: Reactome:117615 xref_analog: Reactome:120280 xref_analog: Reactome:124697 xref_analog: Reactome:12530 xref_analog: Reactome:70559 is_a: GO:0016743 ! carboxyl- and carbamoyltransferase activity [Term] id: GO:0004586 name: ornithine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: L-ornithine = putrescine + CO2." [EC:4.1.1.17] subset: gosubset_prok narrow_synonym: "L-ornithine carboxy-lyase" [] xref_analog: EC:4.1.1.17 xref_analog: MetaCyc:ORNDECARBOX-RXN xref_analog: Reactome:115874 xref_analog: Reactome:118503 xref_analog: Reactome:121112 xref_analog: Reactome:123249 xref_analog: Reactome:12531 xref_analog: Reactome:125352 xref_analog: Reactome:70691 is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004587 name: ornithine-oxo-acid transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-ornithine + a 2-oxo acid = L-glutamate 5-semialdehyde + an L-amino acid." [EC:2.6.1.13] subset: gosubset_prok exact_synonym: "ornithine-oxo-acid aminotransferase activity" [] xref_analog: EC:2.6.1.13 xref_analog: MetaCyc:ORNITHINE--OXO-ACID-AMINOTRANSFERASE-RXN xref_analog: Reactome:115552 xref_analog: Reactome:118144 xref_analog: Reactome:120733 xref_analog: Reactome:122957 xref_analog: Reactome:125045 xref_analog: Reactome:12532 xref_analog: Reactome:70653 is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004588 name: orotate phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: orotidine 5'-phosphate + diphosphate = orotate + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.10] subset: gosubset_prok xref_analog: EC:2.4.2.10 xref_analog: MetaCyc:OROPRIBTRANS-RXN xref_analog: Reactome:115878 xref_analog: Reactome:118507 xref_analog: Reactome:121116 xref_analog: Reactome:123253 xref_analog: Reactome:12534 xref_analog: Reactome:125356 xref_analog: Reactome:73491 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004589 name: orotate reductase (NADH) activity namespace: molecular_function def: "Catalysis of the reaction: (S)-dihydroorotate + NAD+ = orotate + NADH + H+." [EC:1.3.1.14] xref_analog: EC:1.3.1.14 xref_analog: MetaCyc:OROTATE-REDUCTASE-(NADH)-RXN is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0004590 name: orotidine-5'-phosphate decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: orotidine 5'-phosphate = UMP + CO2." [EC:4.1.1.23] subset: gosubset_prok xref_analog: EC:4.1.1.23 xref_analog: MetaCyc:OROTPDECARB-RXN xref_analog: Reactome:115880 xref_analog: Reactome:118509 xref_analog: Reactome:121118 xref_analog: Reactome:123255 xref_analog: Reactome:125358 xref_analog: Reactome:12548 xref_analog: Reactome:73492 is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004591 name: oxoglutarate dehydrogenase (succinyl-transferring) activity namespace: molecular_function def: "Catalysis of the reaction: 2-oxoglutarate + lipoamide = S-succinyldihydrolipoamide + CO2." [EC:1.2.4.2] subset: gosubset_prok exact_synonym: "oxoglutarate dehydrogenase (lipoamide) activity" [] xref_analog: EC:1.2.4.2 xref_analog: MetaCyc:RXN0-1146 is_a: GO:0016624 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor [Term] id: GO:0004592 name: pantoate-beta-alanine ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (R)-pantoate + beta-alanine = AMP + diphosphate + (R)-pantothenate." [EC:6.3.2.1] subset: gosubset_prok xref_analog: EC:6.3.2.1 xref_analog: MetaCyc:PANTOATE-BETA-ALANINE-LIG-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004593 name: pantothenase activity namespace: molecular_function def: "Catalysis of the reaction: pantothenate + H2O = pantoate + beta-alanine." [EC:3.5.1.22] xref_analog: EC:3.5.1.22 xref_analog: MetaCyc:PANTOTHENASE-RXN is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides [Term] id: GO:0004594 name: pantothenate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + pantothenate = ADP + D-4'-phosphopantothenate." [EC:2.7.1.33] subset: gosubset_prok xref_analog: EC:2.7.1.33 xref_analog: MetaCyc:PANTOTHENATE-KIN-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004595 name: pantetheine-phosphate adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + pantetheine 4'-phosphate = diphosphate + dephospho-CoA." [EC:2.7.7.3] subset: gosubset_prok exact_synonym: "ATP:pantetheine-phosphate adenylyltransferase activity" [] xref_analog: EC:2.7.7.3 xref_analog: MetaCyc:PANTEPADENYLYLTRAN-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004596 name: peptide alpha-N-acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + peptide = CoA + N-alpha-acetylpeptide." [EC:2.3.1.88] subset: gosubset_prok xref_analog: EC:2.3.1.88 xref_analog: MetaCyc:PEPTIDE-ALPHA-N-ACETYLTRANSFERASE-RXN is_a: GO:0008080 ! N-acetyltransferase activity [Term] id: GO:0004597 name: peptide-aspartate beta-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: peptide L-aspartate + 2-oxoglutarate + O2 = peptide 3-hydroxy-L-aspartate + succinate + CO2." [EC:1.14.11.16] subset: gosubset_prok related_synonym: "aspartyl/asparaginyl beta-hydroxylase" [] exact_synonym: "aspartate beta-hydroxylase" [] xref_analog: EC:1.14.11.16 xref_analog: MetaCyc:PEPTIDE-ASPARTATE-BETA-DIOXYGENASE-RXN is_a: GO:0016706 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors [Term] id: GO:0004598 name: peptidylamidoglycolate lyase activity namespace: molecular_function def: "Catalysis of the reaction: peptidylamidoglycolate = peptidyl amide + glyoxylate." [EC:4.3.2.5] xref_analog: EC:4.3.2.5 xref_analog: MetaCyc:PEPTIDYLAMIDOGLYCOLATE-LYASE-RXN is_a: GO:0016842 ! amidine-lyase activity [Term] id: GO:0004600 name: cyclophilin namespace: molecular_function def: "OBSOLETE. A protein to which cyclosporin A (an immunosuppressant) binds. Possesses peptidyl-prolyl isomerase activity." [EC:5.2.1.8, ISBN:0198506732] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the molecular function terms 'peptidyl-prolyl cis-trans isomerase activity ; GO:0003755' and 'cyclosporin A binding ; GO:0016018'. is_obsolete: true [Term] id: GO:0004601 name: peroxidase activity namespace: molecular_function alt_id: GO:0016685 alt_id: GO:0016686 alt_id: GO:0016687 def: "Catalysis of the reaction: donor + H2O2 = oxidized donor + 2 H2O." [EC:1.11.1.7] subset: gosubset_prok exact_synonym: "peroxidase reaction" [] narrow_synonym: "bacterial catalase-peroxidase activity" [] narrow_synonym: "eosinophil peroxidase activity" [] narrow_synonym: "lactoperoxidase activity" [] narrow_synonym: "myeloperoxidase activity" [] xref_analog: EC:1.11.1.7 xref_analog: MetaCyc:PEROXID-RXN xref_analog: Reactome:4411 is_a: GO:0016209 ! antioxidant activity is_a: GO:0016684 ! oxidoreductase activity, acting on peroxide as acceptor [Term] id: GO:0004602 name: glutathione peroxidase activity namespace: molecular_function alt_id: GO:0016224 def: "Catalysis of the reaction: 2 glutathione + H2O2 = oxidized glutathione + 2 H2O." [EC:1.11.1.9] subset: gosubset_prok narrow_synonym: "non-selenium glutathione peroxidase activity" [] xref_analog: EC:1.11.1.9 xref_analog: MetaCyc:GLUTATHIONE-PEROXIDASE-RXN xref_analog: Reactome:13237 xref_analog: Reactome:71675 is_a: GO:0004601 ! peroxidase activity [Term] id: GO:0004603 name: phenylethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + phenylethanolamine = S-adenosyl-L-homocysteine + N-methylphenylethanolamine." [EC:2.1.1.28] xref_analog: EC:2.1.1.28 xref_analog: MetaCyc:2.1.1.28-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004604 name: phosphoadenylyl-sulfate reductase (thioredoxin) activity namespace: molecular_function def: "Catalysis of the reaction: adenosine 3',5'-bisphosphate + sulfite + thioredoxin disulfide = 3'-phosphoadenosine 5'-phosphosulfate + thioredoxin. Thioredoxin disulfide is the oxidized form of thioredoxin; 3'-phosphoadenosine 5'-phosphosulfate is also known as PAPS." [EC:1.8.4.8] subset: gosubset_prok exact_synonym: "PAPS reductase" [] exact_synonym: "phosphoadenylyl-sulphate reductase (thioredoxin) activity" [] xref_analog: EC:1.8.4.8 xref_analog: MetaCyc:1.8.4.8-RXN is_a: GO:0016671 ! oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor [Term] id: GO:0004605 name: phosphatidate cytidylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: CTP + phosphatidate = diphosphate + CDP-diacylglycerol." [EC:2.7.7.41] subset: gosubset_prok exact_synonym: "CDP-diacylglycerol synthase activity" [] exact_synonym: "CDP-diglyceride diphosphorylase activity" [] exact_synonym: "CDP-diglyceride pyrophosphorylase activity" [] exact_synonym: "CDP-diglyceride synthase activity" [] xref_analog: EC:2.7.7.41 xref_analog: MetaCyc:CDPDIGLYSYN-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004607 name: phosphatidylcholine-sterol O-acyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: phosphatidylcholine + a sterol = a sterol ester + 1-acylglycerophosphocholine." [EC:2.3.1.43] subset: gosubset_prok exact_synonym: "lecithin-cholesterol acyltransferase" [] xref_analog: EC:2.3.1.43 xref_analog: MetaCyc:2.3.1.43-RXN is_a: GO:0008374 ! O-acyltransferase activity [Term] id: GO:0004608 name: phosphatidylethanolamine N-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + phosphatidylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-methylethanolamine." [EC:2.1.1.17] subset: gosubset_prok xref_analog: EC:2.1.1.17 xref_analog: MetaCyc:2.1.1.17-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004609 name: phosphatidylserine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: phosphatidyl-L-serine = phosphatidylethanolamine + CO2." [EC:4.1.1.65] subset: gosubset_prok xref_analog: EC:4.1.1.65 xref_analog: MetaCyc:PHOSPHASERDECARB-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004610 name: phosphoacetylglucosamine mutase activity namespace: molecular_function def: "Catalysis of the reaction: N-acetyl-D-glucosamine 1-phosphate = N-acetyl-D-glucosamine 6-phosphate." [EC:5.4.2.3] subset: gosubset_prok xref_analog: EC:5.4.2.3 xref_analog: MetaCyc:PHOSACETYLGLUCOSAMINEMUT-RXN is_a: GO:0016868 ! intramolecular transferase activity, phosphotransferases [Term] id: GO:0004611 name: phosphoenolpyruvate carboxykinase activity namespace: molecular_function def: "Catalysis of the reaction: source of phosphate + oxaloacetate = phosphoenolpyruvate + CO2." [EC:4.1.1.-] subset: gosubset_prok xref_analog: EC:4.1.1.- is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004612 name: phosphoenolpyruvate carboxykinase (ATP) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + oxaloacetate = ADP + phosphoenolpyruvate + CO2." [EC:4.1.1.49] subset: gosubset_prok xref_analog: EC:4.1.1.49 xref_analog: MetaCyc:PEPCARBOXYKIN-RXN is_a: GO:0004611 ! phosphoenolpyruvate carboxykinase activity [Term] id: GO:0004613 name: phosphoenolpyruvate carboxykinase (GTP) activity namespace: molecular_function def: "Catalysis of the reaction: GTP + oxaloacetate = GDP + phosphoenolpyruvate + CO2." [EC:4.1.1.32] subset: gosubset_prok exact_synonym: "phosphoenolpyruvate carboxylase (GTP)" [] xref_analog: EC:4.1.1.32 xref_analog: MetaCyc:4.1.1.32-RXN xref_analog: Reactome:115598 xref_analog: Reactome:118180 xref_analog: Reactome:120810 xref_analog: Reactome:123013 xref_analog: Reactome:13265 xref_analog: Reactome:70496 is_a: GO:0004611 ! phosphoenolpyruvate carboxykinase activity [Term] id: GO:0004614 name: phosphoglucomutase activity namespace: molecular_function def: "Catalysis of the reaction: alpha-D-glucose 1-phosphate = alpha-D-glucose 6-phosphate." [EC:5.4.2.2] subset: gosubset_prok xref_analog: EC:5.4.2.2 xref_analog: MetaCyc:PHOSPHOGLUCMUT-RXN xref_analog: Reactome:114838 xref_analog: Reactome:117271 xref_analog: Reactome:119988 xref_analog: Reactome:122416 xref_analog: Reactome:124464 xref_analog: Reactome:13266 xref_analog: Reactome:70219 is_a: GO:0016868 ! intramolecular transferase activity, phosphotransferases [Term] id: GO:0004615 name: phosphomannomutase activity namespace: molecular_function alt_id: GO:0008971 def: "Catalysis of the reaction: D-mannose 1-phosphate = D-mannose 6-phosphate." [EC:5.4.2.8] subset: gosubset_prok xref_analog: EC:5.4.2.8 xref_analog: MetaCyc:PHOSMANMUT-RXN is_a: GO:0016868 ! intramolecular transferase activity, phosphotransferases [Term] id: GO:0004616 name: phosphogluconate dehydrogenase (decarboxylating) activity namespace: molecular_function def: "Catalysis of the reaction: 6-phospho-D-gluconate + NADP+ = D-ribulose 5-phosphate + CO2 + NADPH + H+." [EC:1.1.1.44] subset: gosubset_prok xref_analog: EC:1.1.1.44 xref_analog: MetaCyc:6PGLUCONDEHYDROG-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004617 name: phosphoglycerate dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: 3-phosphoglycerate + NAD+ = 3-phosphohydroxypyruvate + NADH + H+." [EC:1.1.1.95] subset: gosubset_prok xref_analog: EC:1.1.1.95 xref_analog: MetaCyc:PGLYCDEHYDROG-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004618 name: phosphoglycerate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 3-phospho-D-glycerate = ADP + 3-phospho-D-glyceroyl phosphate." [EC:2.7.2.3] subset: gosubset_prok xref_analog: EC:2.7.2.3 xref_analog: MetaCyc:PHOSGLYPHOS-RXN xref_analog: Reactome:117207 xref_analog: Reactome:119919 xref_analog: Reactome:122367 xref_analog: Reactome:124408 xref_analog: Reactome:13282 xref_analog: Reactome:70485 is_a: GO:0016301 ! kinase activity is_a: GO:0016774 ! phosphotransferase activity, carboxyl group as acceptor [Term] id: GO:0004619 name: phosphoglycerate mutase activity namespace: molecular_function def: "Catalysis of the reaction: 2-phospho-D-glycerate = 3-phospho-D-glycerate." [EC:5.4.2.1] subset: gosubset_prok exact_synonym: "PGM" [] xref_analog: EC:5.4.2.1 xref_analog: MetaCyc:3PGAREARR-RXN xref_analog: Reactome:114506 xref_analog: Reactome:114511 xref_analog: Reactome:116888 xref_analog: Reactome:116893 xref_analog: Reactome:119609 xref_analog: Reactome:122097 xref_analog: Reactome:124135 xref_analog: Reactome:13285 xref_analog: Reactome:70489 xref_analog: Reactome:71444 is_a: GO:0016868 ! intramolecular transferase activity, phosphotransferases [Term] id: GO:0004620 name: phospholipase activity namespace: molecular_function def: "Catalysis of the hydrolysis of a glycerophospholipid." [ISBN:0198506732] subset: gosubset_prok xref_analog: EC:3.1.1.- is_a: GO:0016298 ! lipase activity [Term] id: GO:0004621 name: glycosylphosphatidylinositol phospholipase D activity namespace: molecular_function def: "Catalysis of the reaction: glycoprotein phosphatidylinositol + H2O = phosphatidate + glycoprotein inositol." [EC:3.1.4.50] exact_synonym: "glycoprotein phospholipase D activity" [] xref_analog: EC:3.1.4.50 xref_analog: MetaCyc:GLYCOPROTEIN-PHOSPHOLIPASE-D-RXN is_a: GO:0004630 ! phospholipase D activity [Term] id: GO:0004622 name: lysophospholipase activity namespace: molecular_function alt_id: GO:0045126 def: "Catalysis of the reaction: 2-lysophosphatidylcholine + H2O = glycerophosphocholine + a carboxylate." [EC:3.1.1.5] subset: gosubset_prok exact_synonym: "phospholipase B" [] xref_analog: EC:3.1.1.5 xref_analog: MetaCyc:LYSOPHOSPHOLIPASE-RXN is_a: GO:0004620 ! phospholipase activity [Term] id: GO:0004623 name: phospholipase A2 activity namespace: molecular_function def: "Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a carboxylate." [EC:3.1.1.4] subset: gosubset_prok narrow_synonym: "cytosolic phospholipase A2 activity" [] narrow_synonym: "secreted phospholipase A2 activity" [] xref_analog: EC:3.1.1.4 xref_analog: MetaCyc:PHOSPHOLIPASE-A2-RXN is_a: GO:0004620 ! phospholipase activity [Term] id: GO:0004624 name: secreted phospholipase A2 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a fatty acid anion." [EC:3.1.1.4] comment: This term was made obsolete because it represents component and function information. To update annotations, use the cellular component term 'extracellular region ; GO:0005576' and the molecular function term 'phospholipase A2 activity ; GO:0004623'. is_obsolete: true [Term] id: GO:0004625 name: calcium-dependent secreted phospholipase A2 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a fatty acid anion." [EC:3.1.1.4] comment: This term was made obsolete because it represents component and function information. To update annotations, use the cellular component term 'extracellular region ; GO:0005576' and the molecular function term 'calcium-dependent phospholipase A2 activity ; GO:0047498'. is_obsolete: true [Term] id: GO:0004626 name: cytosolic phospholipase A2 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a fatty acid anion." [EC:3.1.1.4] comment: This term was made obsolete because it represents component and function information. To update annotations, use the cellular component term 'cytosol ; GO:0005829' and the molecular function term 'phospholipase A2 activity ; GO:0004623'. is_obsolete: true [Term] id: GO:0004627 name: calcium-dependent cytosolic phospholipase A2 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a fatty acid anion." [EC:3.1.1.4] comment: This term was made obsolete because it represents component and function information. To update annotations, use the cellular component term 'cytosol ; GO:0005829' and the molecular function term 'calcium-dependent phospholipase A2 activity ; GO:0047498'. is_obsolete: true [Term] id: GO:0004628 name: calcium-independent cytosolic phospholipase A2 activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phosphatidylcholine + H2O = 1-acylglycerophosphocholine + a fatty acid anion." [EC:3.1.1.4] comment: This term was made obsolete because it represents component and function information. To update annotations, use the cellular component term 'cytosol ; GO:0005829' and the molecular function term 'calcium-independent phospholipase A2 activity ; GO:0047499'. is_obsolete: true [Term] id: GO:0004629 name: phospholipase C activity namespace: molecular_function alt_id: GO:0042298 def: "Catalysis of the reaction: a phosphatidylcholine + H2O = 1,2-diacylglycerol + choline phosphate." [EC:3.1.4.3, ISBN:0198506732] subset: gosubset_prok narrow_synonym: "phospholipase C, acting on phosphatidylcholine" [] xref_analog: EC:3.1.4.3 xref_analog: MetaCyc:PHOSPHOLIPASE-C-RXN xref_analog: Reactome:11457 is_a: GO:0004620 ! phospholipase activity is_a: GO:0008081 ! phosphoric diester hydrolase activity [Term] id: GO:0004630 name: phospholipase D activity namespace: molecular_function def: "Catalysis of the reaction: a phosphatidylcholine + H2O = choline + a phosphatidate." [EC:3.1.4.4] subset: gosubset_prok exact_synonym: "choline phosphatase" [] xref_analog: EC:3.1.4.4 xref_analog: MetaCyc:PHOSPHOLIPASE-D-RXN is_a: GO:0004620 ! phospholipase activity is_a: GO:0008081 ! phosphoric diester hydrolase activity is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004631 name: phosphomevalonate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (R)-5-phosphomevalonate = ADP + (R)-5-diphosphomevalonate." [EC:2.7.4.2] subset: gosubset_prok xref_analog: EC:2.7.4.2 xref_analog: MetaCyc:PHOSPHOMEVALONATE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor [Term] id: GO:0004632 name: phosphopantothenate--cysteine ligase activity namespace: molecular_function def: "Catalysis of the reaction: CTP + (R)-4'-phosphopantothenate + L-cysteine = CMP + diphosphate + (R)-4'-phosphopantothenoyl-L-cysteine. Cysteine can be replaced by some of its derivatives." [EC:6.3.2.5] subset: gosubset_prok exact_synonym: "phosphopantothenate-cysteine ligase activity" [] exact_synonym: "phosphopantothenoylcysteine synthetase activity" [] xref_analog: EC:6.3.2.5 xref_analog: MetaCyc:P-PANTOCYSLIG-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004633 name: phosphopantothenoylcysteine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: N-((R)-4-phosphopantothenoyl)-L-cysteine = pantetheine 4'-phosphate + CO2." [EC:4.1.1.36] subset: gosubset_prok xref_analog: EC:4.1.1.36 xref_analog: MetaCyc:P-PANTOCYSDECARB-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004634 name: phosphopyruvate hydratase activity namespace: molecular_function def: "Catalysis of the reaction: 2-phospho-D-glycerate = phosphoenolpyruvate + H2O." [EC:4.2.1.11, ISBN:0198506732] subset: gosubset_prok exact_synonym: "2-phospho-D-glycerate-hydrolase" [] exact_synonym: "enolase" [] xref_analog: EC:4.2.1.11 xref_analog: MetaCyc:2PGADEHYDRAT-RXN xref_analog: Reactome:114516 xref_analog: Reactome:114521 xref_analog: Reactome:114526 xref_analog: Reactome:116898 xref_analog: Reactome:116903 xref_analog: Reactome:116908 xref_analog: Reactome:119614 xref_analog: Reactome:119619 xref_analog: Reactome:122102 xref_analog: Reactome:122107 xref_analog: Reactome:124140 xref_analog: Reactome:13384 xref_analog: Reactome:70493 xref_analog: Reactome:71431 xref_analog: Reactome:71435 xref_analog: Reactome:71439 is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004635 name: phosphoribosyl-AMP cyclohydrolase activity namespace: molecular_function def: "Catalysis of the reaction: 1-(5-phosphoribosyl)-AMP + H2O = 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide." [EC:3.5.4.19] subset: gosubset_prok xref_analog: EC:3.5.4.19 xref_analog: MetaCyc:HISTCYCLOHYD-RXN is_a: GO:0019238 ! cyclohydrolase activity [Term] id: GO:0004636 name: phosphoribosyl-ATP diphosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 5-phosphoribosyl-ATP + H2O = 5-phosphoribosyl-AMP + diphosphate." [EC:3.6.1.31] subset: gosubset_prok exact_synonym: "phosphoribosyl-ATP pyrophosphatase activity" [] xref_analog: EC:3.6.1.31 xref_analog: MetaCyc:HISTPRATPHYD-RXN is_a: GO:0016462 ! pyrophosphatase activity [Term] id: GO:0004637 name: phosphoribosylamine-glycine ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N1-(5-phospho-D-ribosyl)glycinamide." [EC:6.3.4.13] subset: gosubset_prok xref_analog: EC:6.3.4.13 xref_analog: MetaCyc:GLYRIBONUCSYN-RXN xref_analog: Reactome:114587 xref_analog: Reactome:116997 xref_analog: Reactome:119760 xref_analog: Reactome:124215 xref_analog: Reactome:13392 xref_analog: Reactome:73807 is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004638 name: phosphoribosylaminoimidazole carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate = 5-amino-1-(5-phospho-D-ribosyl)imidazole + CO2." [EC:4.1.1.21] subset: gosubset_prok xref_analog: EC:4.1.1.21 xref_analog: MetaCyc:AIRCARBOXY-RXN xref_analog: Reactome:114552 xref_analog: Reactome:116962 xref_analog: Reactome:119725 xref_analog: Reactome:122156 xref_analog: Reactome:124184 xref_analog: Reactome:13396 xref_analog: Reactome:73802 is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004639 name: phosphoribosylaminoimidazolesuccinocarboxamide synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate + L-aspartate = ADP + phosphate + (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate." [EC:6.3.2.6] subset: gosubset_prok xref_analog: EC:6.3.2.6 xref_analog: MetaCyc:SAICARSYN-RXN xref_analog: Reactome:114559 xref_analog: Reactome:116969 xref_analog: Reactome:119732 xref_analog: Reactome:122163 xref_analog: Reactome:124191 xref_analog: Reactome:13398 xref_analog: Reactome:73801 is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004640 name: phosphoribosylanthranilate isomerase activity namespace: molecular_function def: "Catalysis of the reaction: N-(5-phospho-beta-D-ribosyl)-anthranilate = 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate." [EC:5.3.1.24] subset: gosubset_prok xref_analog: EC:5.3.1.24 xref_analog: MetaCyc:PRAISOM-RXN is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004641 name: phosphoribosylformylglycinamidine cyclo-ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine = ADP + phosphate + 5-amino-1-(5-phospho-D-ribosyl)imidazole." [EC:6.3.3.1] subset: gosubset_prok xref_analog: EC:6.3.3.1 xref_analog: MetaCyc:AIRS-RXN xref_analog: Reactome:114574 xref_analog: Reactome:116984 xref_analog: Reactome:119747 xref_analog: Reactome:124202 xref_analog: Reactome:13434 xref_analog: Reactome:73809 is_a: GO:0016882 ! cyclo-ligase activity [Term] id: GO:0004642 name: phosphoribosylformylglycinamidine synthase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + 5'-phosphoribosylformylglycinamide + L-glutamine + H2O = ADP + phosphate + 5'-phosphoribosylformylglycinamidine + L-glutamate." [EC:6.3.5.3] subset: gosubset_prok xref_analog: EC:6.3.5.3 xref_analog: MetaCyc:FGAMSYN-RXN xref_analog: Reactome:114570 xref_analog: Reactome:116980 xref_analog: Reactome:119743 xref_analog: Reactome:122174 xref_analog: Reactome:13437 xref_analog: Reactome:73811 is_a: GO:0016884 ! carbon-nitrogen ligase activity, with glutamine as amido-N-donor [Term] id: GO:0004643 name: phosphoribosylaminoimidazolecarboxamide formyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 10-formyltetrahydrofolate + 5'-phosphoribosyl-5-amino-4-imidazolecarboxamide = tetrahydrofolate + 5'-phosphoribosyl-5-formamido-4-imidazolecarboxamide." [EC:2.1.2.3] subset: gosubset_prok xref_analog: EC:2.1.2.3 xref_analog: MetaCyc:AICARTRANSFORM-RXN xref_analog: Reactome:114557 xref_analog: Reactome:116967 xref_analog: Reactome:119730 xref_analog: Reactome:122161 xref_analog: Reactome:124189 xref_analog: Reactome:13439 xref_analog: Reactome:73796 is_a: GO:0016742 ! hydroxymethyl-, formyl- and related transferase activity [Term] id: GO:0004644 name: phosphoribosylglycinamide formyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 10-formyltetrahydrofolate + N1-(5-phospho-D-ribosyl)glycinamide = tetrahydrofolate + N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide." [EC:2.1.2.2] subset: gosubset_prok xref_analog: EC:2.1.2.2 xref_analog: MetaCyc:GART-RXN xref_analog: Reactome:114589 xref_analog: Reactome:116999 xref_analog: Reactome:119762 xref_analog: Reactome:124217 xref_analog: Reactome:13440 xref_analog: Reactome:73808 is_a: GO:0016742 ! hydroxymethyl-, formyl- and related transferase activity [Term] id: GO:0004645 name: phosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: 1,4-alpha-D-glucosyl(n) + phosphate = 1,4-alpha-D-glucosyl(n-1) + alpha-D-glucose 1-phosphate. The name should be qualified in each instance by adding the name of the natural substrate, e.g. maltodextrin phosphorylase, starch phosphorylase, glycogen phosphorylase." [EC:2.4.1.1] subset: gosubset_prok xref_analog: EC:2.4.1.1 xref_analog: MetaCyc:RXN-1826 is_a: GO:0016758 ! transferase activity, transferring hexosyl groups [Term] id: GO:0004647 name: phosphoserine phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: L(or D)-O-phosphoserine + H2O = L(or D)-serine + phosphate." [EC:3.1.3.3] subset: gosubset_prok xref_analog: EC:3.1.3.3 xref_analog: MetaCyc:PSERPHOSPHA-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004648 name: phosphoserine transaminase activity namespace: molecular_function alt_id: GO:0004646 def: "Catalysis of the reaction: O-phospho-L-serine + 2-oxoglutarate = 3-phosphonooxypyruvate + L-glutamate." [EC:2.6.1.52] subset: gosubset_prok exact_synonym: "phosphoserine aminotransferase activity" [] xref_analog: EC:2.6.1.52 xref_analog: MetaCyc:PSERTRANSAM-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004649 name: poly(ADP-ribose) glycohydrolase activity namespace: molecular_function def: "Catalysis of the hydrolysis of poly(ADP-ribose) at glycosidic (1''-2') linkage of ribose-ribose bond to produce free ADP-ribose." [EC:3.2.1.143] xref_analog: EC:3.2.1.143 xref_analog: MetaCyc:3.2.1.143-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0004650 name: polygalacturonase activity namespace: molecular_function def: "Catalysis of the random hydrolysis of 1,4-alpha-D-galactosiduronic linkages in pectate and other galacturonans." [EC:3.2.1.15] subset: gosubset_prok exact_synonym: "endo-D-galacturonase activity" [] exact_synonym: "endo-polygalacturonase activity" [] exact_synonym: "endogalacturonase activity" [] exact_synonym: "endopolygalacturonase activity" [] exact_synonym: "poly(1,4-alpha-D-galacturonide) glycanohydrolase activity" [] exact_synonym: "poly-alpha-1,4-galacturonide glycanohydrolase activity" [] xref_analog: EC:3.2.1.15 xref_analog: MetaCyc:3.2.1.15-RXN is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0004651 name: polynucleotide 5'-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: 5'-phosphopolynucleotide + H2O = polynucleotide + phosphate." [EC:3.1.3.33] xref_analog: EC:3.1.3.33 xref_analog: MetaCyc:POLYNUCLEOTIDE-5'-PHOSPHATASE-RXN xref_analog: Reactome:13463 xref_analog: Reactome:77052 is_a: GO:0019204 ! nucleotide phosphatase activity [Term] id: GO:0004652 name: polynucleotide adenylyltransferase activity namespace: molecular_function def: "Catalysis of the template-independent extension of the 3'- end of an RNA or DNA strand by addition of one adenosine molecule at a time. Cannot initiate a chain 'de novo'. The primer, depending on the source of the enzyme, may be an RNA or DNA fragment, or oligo(A) bearing a 3'-OH terminal group." [EC:2.7.7.19] subset: gosubset_prok exact_synonym: "poly-A polymerase" [] xref_analog: EC:2.7.7.19 xref_analog: MetaCyc:POLYNUCLEOTIDE-ADENYLYLTRANSFERASE-RXN xref_analog: Reactome:72182 xref_analog: Reactome:72183 is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004653 name: polypeptide N-acetylgalactosaminyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UDP-N-acetyl-D-galactosamine + polypeptide = UDP + N-acetyl-D-galactosaminyl-polypeptide. Catalyzes of the modification of serine or threonine residues in polypeptide chains by the transfer of a N-acetylgalactose from UDP-N-acetylgalactose to the hydroxyl group of the amino acid; it is the first step in O-glycan biosynthesis." [EC:2.4.1.41, ISBN:0879695595] xref_analog: EC:2.4.1.41 xref_analog: MetaCyc:2.4.1.41-RXN is_a: GO:0008376 ! acetylgalactosaminyltransferase activity [Term] id: GO:0004654 name: polyribonucleotide nucleotidyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + RNA(n) = diphosphate + RNA(n+1)." [EC:2.7.7.8] subset: gosubset_prok xref_analog: EC:2.7.7.8 xref_analog: MetaCyc:2.7.7.8-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004655 name: porphobilinogen synthase activity namespace: molecular_function def: "Catalysis of the reaction: 2 5-aminolevulinate = porphobilinogen + 2 H2O." [EC:4.2.1.24] subset: gosubset_prok exact_synonym: "aminolevulinate dehydratase activity" [] exact_synonym: "delta-aminolevulinic acid dehydratase activity" [] xref_analog: EC:4.2.1.24 xref_analog: MetaCyc:PORPHOBILSYNTH-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004656 name: procollagen-proline 4-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: procollagen L-proline + 2-oxoglutarate + O2 = procollagen trans-4-hydroxy-L-proline + succinate + CO2." [EC:1.14.11.2] exact_synonym: "procollagen-proline,2-oxoglutarate-4-dioxygenase activity" [] broad_synonym: "prolyl 4-hydroxylase" [] xref_analog: EC:1.14.11.2 xref_analog: MetaCyc:1.14.11.2-RXN is_a: GO:0019798 ! procollagen-proline dioxygenase activity is_a: GO:0031545 ! peptidyl-proline 4-dioxygenase activity [Term] id: GO:0004657 name: proline dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: L-proline + acceptor = (S)-1-pyrroline-5-carboxylate + reduced acceptor." [EC:1.5.99.8] subset: gosubset_prok xref_analog: EC:1.5.99.8 xref_analog: MetaCyc:RXN-7181 xref_analog: Reactome:116039 xref_analog: Reactome:118667 xref_analog: Reactome:121293 xref_analog: Reactome:123374 xref_analog: Reactome:125493 xref_analog: Reactome:13472 xref_analog: Reactome:70669 is_a: GO:0016645 ! oxidoreductase activity, acting on the CH-NH group of donors [Term] id: GO:0004658 name: propionyl-CoA carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + propanoyl-CoA + HCO3- = ADP + phosphate + (S)-methylmalonyl-CoA." [EC:6.4.1.3] subset: gosubset_prok xref_analog: EC:6.4.1.3 xref_analog: MetaCyc:PROPIONYL-COA-CARBOXY-RXN xref_analog: Reactome:121302 xref_analog: Reactome:123383 xref_analog: Reactome:125502 xref_analog: Reactome:13473 xref_analog: Reactome:71030 is_a: GO:0016421 ! CoA carboxylase activity [Term] id: GO:0004659 name: prenyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a prenyl group from one compound (donor) to another (acceptor)." [GOC:mah] subset: gosubset_prok xref_analog: EC:2.5.1.- is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004660 name: protein farnesyltransferase activity namespace: molecular_function alt_id: GO:0018223 def: "Catalysis of the reaction: farnesyl diphosphate + protein-cysteine = S-farnesyl protein + diphosphate." [EC:2.5.1.58, PMID:8621375] exact_synonym: "protein-cysteine farnesyltransferase activity" [] xref_analog: EC:2.5.1.58 is_a: GO:0008318 ! protein prenyltransferase activity [Term] id: GO:0004661 name: protein geranylgeranyltransferase activity namespace: molecular_function alt_id: GO:0018224 def: "Catalysis of the covalent addition of a geranylgeranyl (20-carbon isoprenoid) group via thioether linkages to a cysteine residue at or near the C terminus of a protein." [PMID:8621375] exact_synonym: "protein-cysteine geranylgeranyltransferase activity" [] xref_analog: EC:2.5.1.- is_a: GO:0008318 ! protein prenyltransferase activity [Term] id: GO:0004662 name: CAAX-protein geranylgeranyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: geranylgeranyl diphosphate + protein-cysteine = S-geranylgeranyl-protein + diphosphate. This reaction is the formation of a thioether linkage between the C-1 atom of the geranylgeranyl group and a cysteine residue fourth from the C-terminus of the protein. The protein substrates have the C-terminal sequence CA1A2X, where the terminal residue, X, is preferably leucine and A2 should not be aromatic. Known substrates include most g-subunits of heterotrimeric G proteins and Ras-related GTPases such as members of the Ras and Rac/Rho families." [EC:2.5.1.59, PMID:8621375] exact_synonym: "geranylgeranyl-diphosphate:protein-cysteine geranyltransferase activity" [] exact_synonym: "geranylgeranyltransferase type I activity" [] exact_synonym: "GGTase-I activity" [] exact_synonym: "GGTaseI activity" [] xref_analog: EC:2.5.1.59 is_a: GO:0004661 ! protein geranylgeranyltransferase activity [Term] id: GO:0004663 name: Rab-protein geranylgeranyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 2 geranylgeranyl diphosphate + protein-cysteine = 2 S-geranylgeranyl-protein + 2 diphosphate. This reaction is the formation of two thioether linkages between the C-1 atom of the geranylgeranyl groups and two cysteine residues within the terminal sequence motifs XXCC, XCXC or CCXX. Known substrates include Ras-related GTPases of a single family and the Rab family." [EC:2.5.1.60, GOC:mah, PMID:8621375] exact_synonym: "geranylgeranyl-diphosphate,geranylgeranyl-diphosphate:protein-cysteine geranyltransferase activity" [] exact_synonym: "GGTase-II activity" [] exact_synonym: "GGTaseII activity" [] exact_synonym: "protein geranylgeranyltransferase type II activity" [] exact_synonym: "Rab geranylgeranyltransferase activity" [] exact_synonym: "RabGGTase activity" [] xref_analog: EC:2.5.1.60 is_a: GO:0004661 ! protein geranylgeranyltransferase activity [Term] id: GO:0004664 name: prephenate dehydratase activity namespace: molecular_function def: "Catalysis of the reaction: prephenate = phenylpyruvate + H2O + CO2." [EC:4.2.1.51] subset: gosubset_prok xref_analog: EC:4.2.1.51 xref_analog: MetaCyc:PREPHENATEDEHYDRAT-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004665 name: prephenate dehydrogenase (NADP+) activity namespace: molecular_function def: "Catalysis of the reaction: prephenate + NADP+ = 4-hydroxyphenylpyruvate + CO2 + NADPH + H+." [EC:1.3.1.13] subset: gosubset_prok xref_analog: EC:1.3.1.13 xref_analog: MetaCyc:PREPHENATE-DEHYDROGENASE-(NADP+)-RXN is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor [Term] id: GO:0004666 name: prostaglandin-endoperoxide synthase activity namespace: molecular_function def: "Catalysis of the reaction: arachidonate + donor-H2 + 2 O2 = prostaglandin H2 + acceptor + H2O." [EC:1.14.99.1] xref_analog: EC:1.14.99.1 xref_analog: MetaCyc:PROSTAGLANDIN-ENDOPEROXIDE-SYNTHASE-RXN xref_analog: Reactome:13496 is_a: GO:0016705 ! oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen [Term] id: GO:0004667 name: prostaglandin-D synthase activity namespace: molecular_function def: "Catalysis of the reaction: (5Z,13E)-(15S)-9-alpha,11-alpha-epidioxy-15-hydroxyprosta-5,13-dienoate = (5Z,13E)-(15S)-9-alpha,15-dihydroxy-11-oxoprosta-5,13-dienoate." [EC:5.3.99.2] xref_analog: EC:5.3.99.2 xref_analog: MetaCyc:PROSTAGLANDIN-D-SYNTHASE-RXN is_a: GO:0016860 ! intramolecular oxidoreductase activity [Term] id: GO:0004668 name: protein-arginine deiminase activity namespace: molecular_function def: "Catalysis of the reaction: protein L-arginine + H2O = protein L-citrulline + NH3." [EC:3.5.3.15] subset: gosubset_prok xref_analog: EC:3.5.3.15 xref_analog: MetaCyc:PROTEIN-ARGININE-DEIMINASE-RXN is_a: GO:0016813 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines [Term] id: GO:0004671 name: protein-S-isoprenylcysteine O-methyltransferase activity namespace: molecular_function alt_id: GO:0018225 def: "Catalysis of the reaction: S-adenosyl-L-methionine + protein C-terminal S-farnesyl-L-cysteine = S-adenosyl-L-homocysteine + protein C-terminal S-farnesyl-L-cysteine methyl ester." [EC:2.1.1.100] subset: gosubset_prok xref_analog: EC:2.1.1.100 xref_analog: MetaCyc:2.1.1.100-RXN is_a: GO:0003880 ! C-terminal protein carboxyl methyltransferase activity is_a: GO:0008171 ! O-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004672 name: protein kinase activity namespace: molecular_function alt_id: GO:0050222 def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a protein substrate." [GOC:jl] subset: goslim_generic subset: goslim_yeast subset: gosubset_prok narrow_synonym: "protamine kinase activity" [] xref_analog: EC:2.7.1.37 xref_analog: MetaCyc:PROTEIN-KINASE-RXN xref_analog: Reactome:4030 is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004673 name: protein histidine kinase activity namespace: molecular_function alt_id: GO:0008896 def: "Catalysis of the reaction: ATP + protein L-histidine = ADP + protein phospho-L-histidine." [EC:2.7.3.11, EC:2.7.3.12, GOC:mah] subset: gosubset_prok exact_synonym: "histidine kinase" [] exact_synonym: "protein-histidine kinase activity" [] xref_analog: EC:2.7.3.- is_a: GO:0004672 ! protein kinase activity is_a: GO:0016775 ! phosphotransferase activity, nitrogenous group as acceptor [Term] id: GO:0004674 name: protein serine/threonine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein serine/threonine = ADP + protein serine/threonine phosphate." [GOC:bf] subset: gosubset_prok narrow_synonym: "SAP kinase 3 activity" [] narrow_synonym: "SAP kinase 4 activity" [] narrow_synonym: "SAP kinase 5 activity" [] xref_analog: Reactome:112341 xref_analog: Reactome:4028 is_a: GO:0004672 ! protein kinase activity [Term] id: GO:0004675 name: transmembrane receptor protein serine/threonine kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004702 ! receptor signaling protein serine/threonine kinase activity is_a: GO:0019199 ! transmembrane receptor protein kinase activity [Term] id: GO:0004676 name: 3-phosphoinositide-dependent protein kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the presence of a 3-phosphoinositide." [GOC:mah] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004677 name: DNA-dependent protein kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004679 name: AMP-activated protein kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the presence of AMP." [GOC:mah] exact_synonym: "5'-AMP-activated protein kinase" [] narrow_synonym: "SNF1A/AMP-activated protein kinase activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004680 name: casein kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004681 name: casein kinase I activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004680 ! casein kinase activity [Term] id: GO:0004682 name: protein kinase CK2 activity namespace: molecular_function alt_id: GO:0008604 def: "Catalysis of the reaction: casein + ATP = phosphocasein + ADP." [EC:2.7.1.37] related_synonym: "casein kinase II activity" [] exact_synonym: "casein kinase II, catalytic activity" [] exact_synonym: "protein kinase CK2, intrinsic catalyst activity" [] is_a: GO:0004680 ! casein kinase activity [Term] id: GO:0004683 name: calmodulin regulated protein kinase activity namespace: molecular_function subset: gosubset_prok xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004684 name: calmodulin-dependent protein kinase I activity namespace: molecular_function def: "Catalysis of the reaction: ATP + protein = ADP + O-phosphoprotein." [EC:2.7.1.123] exact_synonym: "CaMKI" [] is_a: GO:0004683 ! calmodulin regulated protein kinase activity [Term] id: GO:0004685 name: calcium- and calmodulin-dependent protein kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + protein = ADP + O-phosphoprotein." [EC:2.7.1.123] subset: gosubset_prok exact_synonym: "calcium/calmodulin-dependent protein kinase activity" [] exact_synonym: "CaMKII" [] xref_analog: EC:2.7.1.123 xref_analog: MetaCyc:2.7.1.123-RXN is_a: GO:0004683 ! calmodulin regulated protein kinase activity [Term] id: GO:0004686 name: eukaryotic elongation factor-2 kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of eukaryotic elongation factor-2." [GOC:jl, PMID:11904175] exact_synonym: "eEF-2 kinase" [] xref_analog: EC:2.7.1.- is_a: GO:0004683 ! calmodulin regulated protein kinase activity [Term] id: GO:0004687 name: myosin light chain kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (myosin-light-chain) = ADP + (myosin-light-chain) phosphate." [EC:2.7.1.117] exact_synonym: "myosin-light-chain kinase activity" [] xref_analog: EC:2.7.1.117 xref_analog: MetaCyc:MYOSIN-LIGHT-CHAIN-KINASE-RXN is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004688 name: multifunctional calcium- and calmodulin-regulated protein kinase activity namespace: molecular_function related_synonym: "CaMKIV" [] exact_synonym: "multifunctional calcium/calmodulin regulated protein kinase activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004683 ! calmodulin regulated protein kinase activity [Term] id: GO:0004689 name: phosphorylase kinase activity namespace: molecular_function alt_id: GO:0008606 def: "Catalysis of the reaction: 4 ATP + 2 phosphorylase b = 4 ADP + phosphorylase a." [EC:2.7.1.38] subset: gosubset_prok exact_synonym: "phosphorylase kinase, intrinsic catalyst activity" [] xref_analog: EC:2.7.1.38 xref_analog: MetaCyc:PHOSPHORYLASE-KINASE-RXN xref_analog: Reactome:115594 xref_analog: Reactome:120775 xref_analog: Reactome:120788 xref_analog: Reactome:122994 xref_analog: Reactome:13545 xref_analog: Reactome:71521 xref_analog: Reactome:71535 is_a: GO:0004683 ! calmodulin regulated protein kinase activity [Term] id: GO:0004690 name: cyclic nucleotide-dependent protein kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the presence of a cyclic nucleotide." [GOC:mah] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004691 name: cAMP-dependent protein kinase activity namespace: molecular_function alt_id: GO:0008602 def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the presence of cAMP." [EC:2.7.1.37] exact_synonym: "3',5' cAMP-dependent protein kinase activity" [] exact_synonym: "3',5'-cAMP-dependent protein kinase activity" [] exact_synonym: "adenosine 3',5'-cyclophosphate-dependent protein kinase activity" [] exact_synonym: "cAMP-dependent protein kinase, intrinsic catalyst activity" [] exact_synonym: "cyclic AMP-dependent protein kinase activity" [] exact_synonym: "PKA" [] is_a: GO:0004690 ! cyclic nucleotide-dependent protein kinase activity [Term] id: GO:0004692 name: cGMP-dependent protein kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the presence of cGMP." [GOC:mah] exact_synonym: "PKG" [] xref_analog: EC:2.7.1.- is_a: GO:0004690 ! cyclic nucleotide-dependent protein kinase activity [Term] id: GO:0004693 name: cyclin-dependent protein kinase activity namespace: molecular_function alt_id: GO:0016537 def: "Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; dependent on the binding of a regulatory cyclin subunit and full activity requires stimulatory phosphorylation by a CDK-activating kinase (CAK)." [GOC:rn, PMID:7877684, PMID:9841670] exact_synonym: "CDK activity" [] exact_synonym: "CDK, catalytic subunit activity" [] exact_synonym: "cyclin-dependent protein kinase, intrinsic catalyst activity" [] xref_analog: EC:2.7.1.- xref_analog: Reactome:113738 xref_analog: Reactome:113743 xref_analog: Reactome:116019 xref_analog: Reactome:116021 xref_analog: Reactome:116023 xref_analog: Reactome:116025 xref_analog: Reactome:118645 xref_analog: Reactome:118647 xref_analog: Reactome:118649 xref_analog: Reactome:118651 xref_analog: Reactome:121211 xref_analog: Reactome:121265 xref_analog: Reactome:121267 xref_analog: Reactome:123355 xref_analog: Reactome:125471 xref_analog: Reactome:125473 xref_analog: Reactome:125475 xref_analog: Reactome:13565 xref_analog: Reactome:69623 xref_analog: Reactome:69627 xref_analog: Reactome:69630 xref_analog: Reactome:69632 xref_analog: Reactome:69633 xref_analog: Reactome:69751 xref_analog: Reactome:69755 xref_analog: Reactome:69757 xref_analog: Reactome:69823 xref_analog: Reactome:76013 xref_analog: Reactome:76014 is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004694 name: eukaryotic translation initiation factor 2alpha kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004695 name: galactosyltransferase-associated kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004696 name: glycogen synthase kinase 3 activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004697 name: protein kinase C activity namespace: molecular_function exact_synonym: "PKC activity" [] xref_analog: EC:2.7.1.- is_a: GO:0001565 ! phorbol ester receptor activity is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004698 name: calcium-dependent protein kinase C activity namespace: molecular_function exact_synonym: "calcium-dependent PKC activity" [] xref_analog: EC:2.7.1.- xref_analog: Reactome:13572 is_a: GO:0004697 ! protein kinase C activity [Term] id: GO:0004699 name: calcium-independent protein kinase C activity namespace: molecular_function exact_synonym: "calcium-independent PKC activity" [] is_a: GO:0004697 ! protein kinase C activity [Term] id: GO:0004700 name: atypical protein kinase C activity namespace: molecular_function exact_synonym: "atypical PKC activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004697 ! protein kinase C activity [Term] id: GO:0004701 name: diacylglycerol-activated phospholipid-dependent protein kinase C activity namespace: molecular_function exact_synonym: "diacylglycerol-activated phospholipid-dependent PKC activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004697 ! protein kinase C activity [Term] id: GO:0004702 name: receptor signaling protein serine/threonine kinase activity namespace: molecular_function exact_synonym: "receptor signalling protein serine/threonine kinase activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0004703 name: G-protein coupled receptor kinase activity namespace: molecular_function alt_id: GO:0004678 def: "Catalysis of the phosphorylation of a G-protein coupled receptor, thereby modulating its activity." [GOC:dph] exact_synonym: "G protein coupled receptor phosphorylating protein kinase activity" [] exact_synonym: "G-protein-coupled receptor phosphorylating protein kinase activity" [] exact_synonym: "GPCR phosphorylating protein kinase activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004704 name: NF-kappaB-inducing kinase activity namespace: molecular_function exact_synonym: "NIK" [] xref_analog: EC:2.7.1.- is_a: GO:0004702 ! receptor signaling protein serine/threonine kinase activity [Term] id: GO:0004705 name: JUN kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation and activation of members of the JUN family, a gene family that encodes nuclear transcription factors." [GOC:bf, ISBN:0198506732] exact_synonym: "JNK" [] narrow_synonym: "SAPK1" [] xref_analog: EC:2.7.1.- is_a: GO:0016909 ! SAP kinase activity [Term] id: GO:0004706 name: JUN kinase kinase kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation and activation of JUN kinase kinases (JNKKs)." [GOC:bf] related_synonym: "JNK kinase kinase activity" [] exact_synonym: "JNKKK" [] xref_analog: EC:2.7.1.- is_a: GO:0004709 ! MAP kinase kinase kinase activity [Term] id: GO:0004707 name: MAP kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of proteins. Mitogen-activated protein kinase; a family of protein kinases that perform a crucial step in relaying signals from the plasma membrane to the nucleus. They are activated by a wide range of proliferation- or differentiation-inducing signals; activation is strong with agonists such as polypeptide growth factors and tumor-promoting phorbol esters, but weak (in most cell backgrounds) by stress stimuli." [GOC:ma, ISBN:0198547684] exact_synonym: "MAPK" [] exact_synonym: "mitogen activated kinase" [] xref_analog: EC:2.7.1.- xref_analog: Reactome:109691 xref_analog: Reactome:118552 xref_analog: Reactome:121165 xref_analog: Reactome:4049 is_a: GO:0004702 ! receptor signaling protein serine/threonine kinase activity [Term] id: GO:0004708 name: MAP kinase kinase activity namespace: molecular_function def: "Catalysis of the concomitant phosphorylation of threonine (T) and tyrosine (Y) residues in a Thr-Glu-Tyr (TEY) thiolester sequence in MAP kinases. It is a dual-specificity mitogen-activated protein kinase kinase and requires activation by the serine/threonine kinase, MAP kinase kinase kinase." [ISBN:0198547684] exact_synonym: "ERK activator kinase activity" [] exact_synonym: "MAPKK activity" [] broad_synonym: "MEK activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004712 ! protein threonine/tyrosine kinase activity [Term] id: GO:0004709 name: MAP kinase kinase kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation and activation of MAP kinase kinases; each MAP kinase kinase can be phosphorylated by any of several MAP kinase kinase kinases." [PMID:9561267] exact_synonym: "MAPKKK activity" [] broad_synonym: "MEK kinase activity" [] broad_synonym: "MEKK activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004702 ! receptor signaling protein serine/threonine kinase activity [Term] id: GO:0004710 name: MAP/ERK kinase kinase activity namespace: molecular_function exact_synonym: "MEKK activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004709 ! MAP kinase kinase kinase activity [Term] id: GO:0004711 name: ribosomal protein S6 kinase activity namespace: molecular_function def: "Catalysis of the phosphorylation of ribosomal protein S6." [GOC:mah, PMID:9822608] xref_analog: EC:2.7.1.- is_a: GO:0004674 ! protein serine/threonine kinase activity [Term] id: GO:0004712 name: protein threonine/tyrosine kinase activity namespace: molecular_function subset: gosubset_prok broad_synonym: "dual-specificity protein kinase" [] xref_analog: EC:2.7.1.- is_a: GO:0004672 ! protein kinase activity [Term] id: GO:0004713 name: protein-tyrosine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate." [EC:2.7.1.112] subset: gosubset_prok related_synonym: "focal adhesion kinase activity" [] exact_synonym: "protein tyrosine kinase activity" [] xref_analog: EC:2.7.1.112 xref_analog: MetaCyc:PROTEIN-TYROSINE-KINASE-RXN xref_analog: Reactome:11065 is_a: GO:0004672 ! protein kinase activity [Term] id: GO:0004714 name: transmembrane receptor protein tyrosine kinase activity namespace: molecular_function subset: gosubset_prok related_synonym: "neurotrophin TRK receptor activity" [] related_synonym: "neurotrophin TRKA receptor activity" [] related_synonym: "neurotrophin TRKB receptor activity" [] related_synonym: "neurotrophin TRKC receptor activity" [] related_synonym: "sevenless receptor activity" [] xref_analog: EC:2.7.1.- xref_analog: Reactome:11064 xref_analog: Reactome:115038 xref_analog: Reactome:116003 xref_analog: Reactome:116027 xref_analog: Reactome:117502 xref_analog: Reactome:118629 xref_analog: Reactome:118653 xref_analog: Reactome:120190 xref_analog: Reactome:121248 xref_analog: Reactome:121269 xref_analog: Reactome:122588 xref_analog: Reactome:123339 xref_analog: Reactome:123357 xref_analog: Reactome:74710 xref_analog: Reactome:74714 xref_analog: Reactome:74741 is_a: GO:0004713 ! protein-tyrosine kinase activity is_a: GO:0019199 ! transmembrane receptor protein kinase activity [Term] id: GO:0004715 name: non-membrane spanning protein tyrosine kinase activity namespace: molecular_function xref_analog: EC:2.7.1.- is_a: GO:0004713 ! protein-tyrosine kinase activity [Term] id: GO:0004716 name: receptor signaling protein tyrosine kinase activity namespace: molecular_function exact_synonym: "receptor signalling protein tyrosine kinase activity" [] xref_analog: EC:2.7.1.- is_a: GO:0004713 ! protein-tyrosine kinase activity is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0004717 name: focal adhesion kinase activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jic] comment: This term was made obsolete because it represents a gene product, and because the gene was named after its location of action rather than after its molecular function. To update annotations, use the molecular function term 'protein-tyrosine kinase activity ; GO:0004713'. exact_synonym: "FAK" [] is_obsolete: true [Term] id: GO:0004718 name: Janus kinase activity namespace: molecular_function exact_synonym: "JAK" [] xref_analog: EC:2.7.1.- is_a: GO:0004716 ! receptor signaling protein tyrosine kinase activity [Term] id: GO:0004719 name: protein-L-isoaspartate (D-aspartate) O-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + protein L-beta-aspartate = S-adenosyl-L-homocysteine + protein L-beta-aspartate methyl ester." [EC:2.1.1.77] subset: gosubset_prok xref_analog: EC:2.1.1.77 xref_analog: MetaCyc:2.1.1.77-RXN is_a: GO:0008171 ! O-methyltransferase activity is_a: GO:0008276 ! protein methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004720 name: protein-lysine 6-oxidase activity namespace: molecular_function alt_id: GO:0018056 def: "Catalysis of the reaction: peptidyl-L-lysyl-peptide + H2O + O2 = peptidyl-allysyl-peptide + NH3 + H2O2." [EC:1.4.3.13] exact_synonym: "lysyl oxidase" [] xref_analog: EC:1.4.3.13 xref_analog: MetaCyc:PROTEIN-LYSINE-6-OXIDASE-RXN is_a: GO:0016641 ! oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor [Term] id: GO:0004721 name: phosphoprotein phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. Together with protein kinases, these enzymes control the state of phosphorylation of cell proteins and thereby provide an important mechanism for regulating cellular activity." [EC:3.1.3.16, ISBN:0198547684] subset: goslim_generic subset: goslim_yeast subset: gosubset_prok exact_synonym: "protein phosphatase activity" [] xref_analog: EC:3.1.3.16 xref_analog: MetaCyc:3.1.3.16-RXN xref_analog: Reactome:113432 xref_analog: Reactome:113757 xref_analog: Reactome:115322 xref_analog: Reactome:115328 xref_analog: Reactome:115332 xref_analog: Reactome:117849 xref_analog: Reactome:117855 xref_analog: Reactome:117859 xref_analog: Reactome:117862 xref_analog: Reactome:120480 xref_analog: Reactome:120488 xref_analog: Reactome:122808 xref_analog: Reactome:122814 xref_analog: Reactome:122818 xref_analog: Reactome:124864 xref_analog: Reactome:124870 xref_analog: Reactome:1887 xref_analog: Reactome:69198 xref_analog: Reactome:69262 xref_analog: Reactome:69735 xref_analog: Reactome:69742 is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004722 name: protein serine/threonine phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: protein serine/threonine phosphate + H2O = protein serine/threonine + phosphate." [GOC:bf] subset: gosubset_prok is_a: GO:0004721 ! phosphoprotein phosphatase activity [Term] id: GO:0004723 name: calcium-dependent protein serine/threonine phosphatase activity namespace: molecular_function alt_id: GO:0008596 def: "Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate." [EC:3.1.3.16] exact_synonym: "calcium-dependent protein serine/threonine phosphatase, intrinsic catalyst activity" [] narrow_synonym: "calcineurin" [] is_a: GO:0004722 ! protein serine/threonine phosphatase activity [Term] id: GO:0004724 name: magnesium-dependent protein serine/threonine phosphatase activity namespace: molecular_function def: "Catalysis of the removal of a serine- or threonine-bound phosphate group from a protein; action dependent on magnesium." [EC:3.1.3.16] is_a: GO:0004722 ! protein serine/threonine phosphatase activity [Term] id: GO:0004725 name: protein tyrosine phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate." [EC:3.1.3.48] subset: gosubset_prok exact_synonym: "protein tyrosine phosphatase activity" [] xref_analog: EC:3.1.3.48 xref_analog: MetaCyc:PROTEIN-TYROSINE-PHOSPHATASE-RXN xref_analog: Reactome:11061 xref_analog: Reactome:115703 xref_analog: Reactome:118298 xref_analog: Reactome:120920 xref_analog: Reactome:123111 xref_analog: Reactome:74732 is_a: GO:0004721 ! phosphoprotein phosphatase activity [Term] id: GO:0004726 name: non-membrane spanning protein tyrosine phosphatase activity namespace: molecular_function subset: gosubset_prok is_a: GO:0004725 ! protein tyrosine phosphatase activity [Term] id: GO:0004727 name: prenylated protein tyrosine phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate." [EC:3.1.3.48] is_a: GO:0004725 ! protein tyrosine phosphatase activity [Term] id: GO:0004728 name: receptor signaling protein tyrosine phosphatase activity namespace: molecular_function exact_synonym: "receptor signalling protein tyrosine phosphatase activity" [] is_a: GO:0004725 ! protein tyrosine phosphatase activity is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0004729 name: protoporphyrinogen oxidase activity namespace: molecular_function def: "Catalysis of the reaction: protoporphyrinogen-IX + O2 = protoporphyrin-IX + H2O2." [EC:1.3.3.4] subset: gosubset_prok xref_analog: EC:1.3.3.4 xref_analog: MetaCyc:PROTOPORGENOXI-RXN is_a: GO:0016634 ! oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor [Term] id: GO:0004730 name: pseudouridylate synthase activity namespace: molecular_function def: "Catalysis of the reaction: uracil + D-ribose 5-phosphate = pseudouridine 5'-phosphate + H2O." [EC:4.2.1.70] comment: Note that this term should not be confused with 'pseudouridine synthase activity ; GO:0009982', which refers to the intramolecular isomerization of uridine to pseudouridine. subset: gosubset_prok exact_synonym: "pseudouridine monophosphate synthase" [] xref_analog: EC:4.2.1.70 xref_analog: MetaCyc:PSEUDOURIDYLATE-SYNTHASE-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004731 name: purine-nucleoside phosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: purine nucleoside + phosphate = purine + alpha-D-ribose 1-phosphate." [EC:2.4.2.1] subset: gosubset_prok xref_analog: EC:2.4.2.1 xref_analog: MetaCyc:PNP-RXN xref_analog: Reactome:114428 xref_analog: Reactome:116785 xref_analog: Reactome:119513 xref_analog: Reactome:122021 xref_analog: Reactome:124052 xref_analog: Reactome:14201 xref_analog: Reactome:74238 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004732 name: pyridoxal oxidase activity namespace: molecular_function def: "Catalysis of the reaction: pyridoxal + H2O + O2 = 4-pyridoxate + H2O2." [EC:1.2.3.8] xref_analog: EC:1.2.3.8 xref_analog: MetaCyc:PYRIDOXAL-OXIDASE-RXN is_a: GO:0016623 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, oxygen as acceptor [Term] id: GO:0004733 name: pyridoxamine-phosphate oxidase activity namespace: molecular_function def: "Catalysis of the reaction: pyridoxamine 5'-phosphate + H2O + O2 = pyridoxal 5'-phosphate + NH3 + H2O2." [EC:1.4.3.5] subset: gosubset_prok xref_analog: EC:1.4.3.5 xref_analog: MetaCyc:PMPOXI-RXN is_a: GO:0016641 ! oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor [Term] id: GO:0004734 name: pyrimidodiazepine synthase activity namespace: molecular_function def: "Catalysis of the reaction: a pyrimidodiazepine + oxidized glutathione = 6-pyruvoyltetrahydropterin + 2 glutathione." [EC:1.5.4.1] xref_analog: EC:1.5.4.1 xref_analog: MetaCyc:1.5.4.1-RXN is_a: GO:0016648 ! oxidoreductase activity, acting on the CH-NH group of donors, disulfide as acceptor [Term] id: GO:0004735 name: pyrroline-5-carboxylate reductase activity namespace: molecular_function def: "Catalysis of the reaction: L-proline + NADP+ = 1-pyrroline-5-carboxylate + NADPH + H+." [EC:1.5.1.2] subset: gosubset_prok xref_analog: EC:1.5.1.2 xref_analog: MetaCyc:PYRROLINECARBREDUCT-RXN xref_analog: Reactome:115747 xref_analog: Reactome:118365 xref_analog: Reactome:120975 xref_analog: Reactome:123157 xref_analog: Reactome:14208 xref_analog: Reactome:70663 is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004736 name: pyruvate carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + pyruvate + HCO3- = ADP + phosphate + oxaloacetate." [EC:6.4.1.1] subset: gosubset_prok xref_analog: EC:6.4.1.1 xref_analog: MetaCyc:PYRUVATE-CARBOXYLASE-RXN xref_analog: Reactome:115022 xref_analog: Reactome:117486 xref_analog: Reactome:120174 xref_analog: Reactome:14209 xref_analog: Reactome:70500 is_a: GO:0016885 ! ligase activity, forming carbon-carbon bonds [Term] id: GO:0004737 name: pyruvate decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: a 2-oxo acid = an aldehyde + CO2." [EC:4.1.1.1] subset: gosubset_prok xref_analog: EC:4.1.1.1 xref_analog: MetaCyc:PYRUVATE-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004738 name: pyruvate dehydrogenase activity namespace: molecular_function def: "Catalysis of the oxidative decarboxylation of pyruvate." [ISBN:0716020094] subset: gosubset_prok is_a: GO:0016903 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors [Term] id: GO:0004739 name: pyruvate dehydrogenase (acetyl-transferring) activity namespace: molecular_function def: "Catalysis of the reaction: pyruvate + lipoamide = S-acetyldihydrolipoamide + CO2." [EC:1.2.4.1] subset: gosubset_prok exact_synonym: "pyruvate dehydrogenase (lipoamide) activity" [] xref_analog: EC:1.2.4.1 xref_analog: MetaCyc:PYRUVATEDECARB-RXN xref_analog: Reactome:116867 xref_analog: Reactome:118681 xref_analog: Reactome:119583 xref_analog: Reactome:121315 xref_analog: Reactome:122087 xref_analog: Reactome:123396 xref_analog: Reactome:124125 xref_analog: Reactome:125515 xref_analog: Reactome:14213 xref_analog: Reactome:70071 xref_analog: Reactome:70075 is_a: GO:0004738 ! pyruvate dehydrogenase activity is_a: GO:0016624 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor [Term] id: GO:0004740 name: [pyruvate dehydrogenase (lipoamide)] kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + (pyruvate dehydrogenase (lipoamide)) = ADP + (pyruvate dehydrogenase (lipoamide)) phosphate." [EC:2.7.1.99] exact_synonym: "pyruvate dehydrogenase (lipoamide) kinase activity" [] xref_analog: EC:2.7.1.99 xref_analog: MetaCyc:2.7.1.99-RXN is_a: GO:0004672 ! protein kinase activity [Term] id: GO:0004741 name: [pyruvate dehydrogenase (lipoamide)] phosphatase activity namespace: molecular_function alt_id: GO:0019906 def: "Catalysis of the reaction: [pyruvate dehydrogenase (lipoamide)] phosphate + H2O = [pyruvate dehydrogenase (lipoamide)] + phosphate." [EC:3.1.3.43] exact_synonym: "[pyruvate dehydrogenase (lipoamide)] phosphatase, intrinsic catalyst activity" [] exact_synonym: "pyruvate dehydrogenase (lipoamide) phosphatase activity" [] xref_analog: EC:3.1.3.43 xref_analog: MetaCyc:3.1.3.43-RXN is_a: GO:0016791 ! phosphoric monoester hydrolase activity [Term] id: GO:0004742 name: dihydrolipoyllysine-residue acetyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: acetyl-CoA + dihydrolipoamide = CoA + S-acetyldihydrolipoamide." [EC:2.3.1.12] subset: gosubset_prok exact_synonym: "dihydrolipoamide S-acetyltransferase activity" [] xref_analog: EC:2.3.1.12 xref_analog: MetaCyc:DIHYDLIPACETRANS-RXN xref_analog: Reactome:118785 xref_analog: Reactome:121401 xref_analog: Reactome:123441 xref_analog: Reactome:125565 xref_analog: Reactome:14238 xref_analog: Reactome:70080 is_a: GO:0016418 ! S-acetyltransferase activity is_a: GO:0030523 ! dihydrolipoamide S-acyltransferase activity [Term] id: GO:0004743 name: pyruvate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + pyruvate = ADP + phosphoenolpyruvate." [EC:2.7.1.40] subset: gosubset_prok xref_analog: EC:2.7.1.40 xref_analog: MetaCyc:PEPDEPHOS-RXN xref_analog: Reactome:114777 xref_analog: Reactome:114782 xref_analog: Reactome:117216 xref_analog: Reactome:119928 xref_analog: Reactome:119933 xref_analog: Reactome:124417 xref_analog: Reactome:14240 xref_analog: Reactome:70099 xref_analog: Reactome:71669 is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004744 name: retinal isomerase activity namespace: molecular_function def: "Catalysis of the reaction: all-trans-retinal = 11-cis-retinal." [EC:5.2.1.3] xref_analog: EC:5.2.1.3 xref_analog: MetaCyc:RETINAL-ISOMERASE-RXN is_a: GO:0016859 ! cis-trans isomerase activity [Term] id: GO:0004745 name: retinol dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: retinol + NAD+ = retinal + NADH + H+." [EC:1.1.1.105] subset: gosubset_prok xref_analog: EC:1.1.1.105 xref_analog: MetaCyc:RETINOL-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004746 name: riboflavin synthase activity namespace: molecular_function def: "Catalysis of the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine." [EC:2.5.1.9] subset: gosubset_prok exact_synonym: "vitamin B2 synthase activity" [] xref_analog: EC:2.5.1.9 xref_analog: MetaCyc:RIBOFLAVIN-SYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004747 name: ribokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-ribose = ADP + D-ribose 5-phosphate." [EC:2.7.1.15] subset: gosubset_prok xref_analog: EC:2.7.1.15 xref_analog: MetaCyc:RIBOKIN-RXN is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004748 name: ribonucleoside-diphosphate reductase activity namespace: molecular_function def: "Catalysis of the reaction: 2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin. Thioredoxin disulfide is the oxidized form of thioredoxin." [EC:1.17.4.1] subset: gosubset_prok related_synonym: "purine/pyrimidine nucleoside diphosphate reduction" [] exact_synonym: "ribonucleotide reductase" [] exact_synonym: "RNR" [] xref_analog: EC:1.17.4.1 xref_analog: MetaCyc:RIBONUCLEOSIDE-DIP-REDUCTI-RXN is_a: GO:0016728 ! oxidoreductase activity, acting on CH2 groups, disulfide as acceptor [Term] id: GO:0004749 name: ribose phosphate diphosphokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-ribose 5-phosphate = AMP + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.7.6.1] subset: gosubset_prok exact_synonym: "ribose-phosphate diphosphokinase activity" [] exact_synonym: "ribose-phosphate pyrophosphokinase activity" [] xref_analog: EC:2.7.6.1 xref_analog: MetaCyc:PRPPSYN-RXN xref_analog: Reactome:111174 xref_analog: Reactome:111212 xref_analog: Reactome:115294 xref_analog: Reactome:115299 xref_analog: Reactome:115303 xref_analog: Reactome:117806 xref_analog: Reactome:117811 xref_analog: Reactome:117815 xref_analog: Reactome:120443 xref_analog: Reactome:122776 xref_analog: Reactome:124837 xref_analog: Reactome:124842 xref_analog: Reactome:14245 xref_analog: Reactome:73484 xref_analog: Reactome:73486 is_a: GO:0016778 ! diphosphotransferase activity is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004750 name: ribulose-phosphate 3-epimerase activity namespace: molecular_function def: "Catalysis of the reaction: D-ribulose 5-phosphate = D-xylulose 5-phosphate." [EC:5.1.3.1] subset: gosubset_prok xref_analog: EC:5.1.3.1 xref_analog: MetaCyc:RIBULP3EPIM-RXN xref_analog: Reactome:115307 xref_analog: Reactome:117819 xref_analog: Reactome:14262 xref_analog: Reactome:71302 is_a: GO:0016857 ! racemase and epimerase activity, acting on carbohydrates and derivatives [Term] id: GO:0004751 name: ribose-5-phosphate isomerase activity namespace: molecular_function def: "Catalysis of the reaction: D-ribose 5-phosphate = D-ribulose 5-phosphate." [EC:5.3.1.6] subset: gosubset_prok xref_analog: EC:5.3.1.6 xref_analog: MetaCyc:RIB5PISOM-RXN xref_analog: Reactome:14263 xref_analog: Reactome:71305 is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004753 name: saccharopine dehydrogenase activity namespace: molecular_function subset: gosubset_prok xref_analog: EC:1.5.1.- is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor [Term] id: GO:0004754 name: saccharopine dehydrogenase (NAD+, L-lysine-forming) activity namespace: molecular_function def: "Catalysis of the reaction: saccharopine + NAD+ + H2O = L-lysine + 2-oxoglutarate + NADH + H+." [EC:1.5.1.7] subset: gosubset_prok xref_analog: EC:1.5.1.7 xref_analog: MetaCyc:1.5.1.7-RXN xref_analog: Reactome:118401 xref_analog: Reactome:121003 xref_analog: Reactome:123190 xref_analog: Reactome:125263 xref_analog: Reactome:70922 xref_analog: Reactome:70934 is_a: GO:0004753 ! saccharopine dehydrogenase activity [Term] id: GO:0004755 name: saccharopine dehydrogenase (NADP+, L-glutamate-forming) activity namespace: molecular_function def: "Catalysis of the reaction: N6-(L-1,3-dicarboxypropyl)-L-lysine + NADP+ + H2O = L-glutamate + 2-aminoadipate 6-semialdehyde + NADPH + H+." [EC:1.5.1.10] subset: gosubset_prok xref_analog: EC:1.5.1.10 xref_analog: MetaCyc:1.5.1.10-RXN xref_analog: Reactome:118799 xref_analog: Reactome:121415 xref_analog: Reactome:123451 xref_analog: Reactome:125575 xref_analog: Reactome:70935 xref_analog: Reactome:70937 is_a: GO:0004753 ! saccharopine dehydrogenase activity [Term] id: GO:0004756 name: selenide, water dikinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + selenide + H2O = AMP + selenophosphate + phosphate." [EC:2.7.9.3] subset: gosubset_prok exact_synonym: "selenophosphate synthase activity" [] xref_analog: EC:2.7.9.3 xref_analog: MetaCyc:2.7.9.3-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016781 ! phosphotransferase activity, paired acceptors [Term] id: GO:0004757 name: sepiapterin reductase activity namespace: molecular_function def: "Catalysis of the reaction: 7,8-dihydrobiopterin + NADP+ = sepiapterin + NADPH + H+." [EC:1.1.1.153] subset: gosubset_prok xref_analog: EC:1.1.1.153 xref_analog: MetaCyc:SEPIAPTERIN-REDUCTASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004758 name: serine C-palmitoyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: palmitoyl-CoA + L-serine = CoA + 3-dehydro-D-sphinganine + CO2." [EC:2.3.1.50] broad_synonym: "serine palmitoyltransferase" [] xref_analog: EC:2.3.1.50 xref_analog: MetaCyc:SERINE-C-PALMITOYLTRANSFERASE-RXN is_a: GO:0016454 ! C-palmitoyltransferase activity [Term] id: GO:0004759 name: serine esterase activity namespace: molecular_function def: "Catalysis of the reaction: a carboxylic ester + H2O = an alcohol + a carboxylate." [EC:3.1.1.1] subset: gosubset_prok is_a: GO:0004091 ! carboxylesterase activity [Term] id: GO:0004760 name: serine-pyruvate transaminase activity namespace: molecular_function alt_id: GO:0004761 alt_id: GO:0004762 alt_id: GO:0004763 def: "Catalysis of the reaction: L-serine + pyruvate = 3-hydroxypyruvate + L-alanine." [EC:2.6.1.51] subset: gosubset_prok exact_synonym: "serine-pyruvate aminotransferase activity" [] narrow_synonym: "serine-pyruvate aminotransferase, type 1" [] narrow_synonym: "serine-pyruvate aminotransferase, type 2A" [] narrow_synonym: "serine-pyruvate aminotransferase, type 2B" [] xref_analog: EC:2.6.1.51 xref_analog: MetaCyc:SERINE--PYRUVATE-AMINOTRANSFERASE-RXN is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004764 name: shikimate 5-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: shikimate + NADP+ = 5-dehydroshikimate + NADPH + H+." [EC:1.1.1.25] subset: gosubset_prok xref_analog: EC:1.1.1.25 xref_analog: MetaCyc:SHIKIMATE-5-DEHYDROGENASE-RXN is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Term] id: GO:0004765 name: shikimate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + shikimate = ADP + shikimate 3-phosphate." [EC:2.7.1.71] subset: gosubset_prok xref_analog: EC:2.7.1.71 xref_analog: MetaCyc:SHIKIMATE-KINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] id: GO:0004766 name: spermidine synthase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosylmethioninamine + putrescine = 5'-methylthioadenosine + spermidine." [EC:2.5.1.16] subset: gosubset_prok xref_analog: EC:2.5.1.16 xref_analog: MetaCyc:SPERMIDINESYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004767 name: sphingomyelin phosphodiesterase activity namespace: molecular_function alt_id: GO:0030230 alt_id: GO:0030231 def: "Catalysis of the reaction: sphingomyelin + H2O = N-acylsphingosine + choline phosphate." [EC:3.1.4.12] subset: gosubset_prok exact_synonym: "sphingomyelinase" [] narrow_synonym: "acid sphingomyelin phosphodiesterase" [] narrow_synonym: "acid sphingomyelinase" [] narrow_synonym: "neutral sphingomyelin phosphodiesterase" [] narrow_synonym: "neutral sphingomyelinase" [] xref_analog: EC:3.1.4.12 xref_analog: MetaCyc:SPHINGOMYELIN-PHOSPHODIESTERASE-RXN is_a: GO:0008081 ! phosphoric diester hydrolase activity [Term] id: GO:0004768 name: stearoyl-CoA 9-desaturase activity namespace: molecular_function alt_id: GO:0016214 def: "Catalysis of the reaction: stearoyl-CoA + 2 ferrocytochrome b5 + O2 + 2 H+ = oleoyl-CoA + 2 ferricytochrome b5 + H2O." [EC:1.14.19.1] comment: Note that this function was formerly EC:1.14.99.5. subset: gosubset_prok exact_synonym: "fatty acid desaturase" [] exact_synonym: "stearoyl-CoA desaturase activity" [] xref_analog: EC:1.14.19.1 xref_analog: MetaCyc:1.14.19.1-RXN is_a: GO:0016215 ! CoA desaturase activity [Term] id: GO:0004769 name: steroid delta-isomerase activity namespace: molecular_function def: "Catalysis of the reaction: a 3-oxo-delta(5)-steroid = a 3-oxo-delta(4)-steroid." [EC:5.3.3.1] subset: gosubset_prok exact_synonym: "steroid D-isomerase activity" [] xref_analog: EC:5.3.3.1 xref_analog: MetaCyc:STEROID-DELTA-ISOMERASE-RXN is_a: GO:0016863 ! intramolecular oxidoreductase activity, transposing C=C bonds [Term] id: GO:0004770 name: sterol carrier protein X-related thiolase activity namespace: molecular_function is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004771 name: sterol esterase activity namespace: molecular_function def: "Catalysis of the reaction: a steryl ester + H2O = a sterol + a fatty acid." [EC:3.1.1.13] xref_analog: EC:3.1.1.13 xref_analog: MetaCyc:STEROL-ESTERASE-RXN is_a: GO:0016789 ! carboxylic ester hydrolase activity [Term] id: GO:0004772 name: sterol O-acyltransferase activity namespace: molecular_function alt_id: GO:0017066 def: "Catalysis of the reaction: acyl-CoA + cholesterol = CoA + cholesterol ester." [EC:2.3.1.26] exact_synonym: "ACAT" [] exact_synonym: "acylcoenzyme A:cholesterol O-acyltransferase" [] exact_synonym: "cholesterol O-acyltransferase" [] xref_analog: EC:2.3.1.26 xref_analog: MetaCyc:STEROL-O-ACYLTRANSFERASE-RXN is_a: GO:0008374 ! O-acyltransferase activity [Term] id: GO:0004773 name: steryl-sulfatase activity namespace: molecular_function def: "Catalysis of the reaction: 3-beta-hydroxyandrost-5-en-17-one 3-sulfate + H2O = 3-beta-hydroxyandrost-5-en-17-one + SO4(2-) (sulfate)." [EC:3.1.6.2] exact_synonym: "steryl-sulphatase activity" [] xref_analog: EC:3.1.6.2 xref_analog: MetaCyc:STERYL-SULFATASE-RXN is_a: GO:0008484 ! sulfuric ester hydrolase activity [Term] id: GO:0004774 name: succinate-CoA ligase activity namespace: molecular_function def: "Catalysis of the reaction between succinate and CoA to form succinyl-CoA." [EC:6.2.1.-, GOC:ai] subset: gosubset_prok xref_analog: EC:6.2.1.- is_a: GO:0016405 ! CoA-ligase activity is_a: GO:0016878 ! acid-thiol ligase activity [Term] id: GO:0004775 name: succinate-CoA ligase (ADP-forming) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + succinate + CoA = ADP + succinyl-CoA + phosphate." [EC:6.2.1.5] subset: gosubset_prok xref_analog: EC:6.2.1.5 xref_analog: MetaCyc:SUCCCOASYN-RXN xref_analog: Reactome:114772 xref_analog: Reactome:117211 xref_analog: Reactome:119923 xref_analog: Reactome:122371 xref_analog: Reactome:124412 xref_analog: Reactome:14321 xref_analog: Reactome:70996 is_a: GO:0004774 ! succinate-CoA ligase activity [Term] id: GO:0004776 name: succinate-CoA ligase (GDP-forming) activity namespace: molecular_function def: "Catalysis of the reaction: GTP + succinate + CoA = GDP + succinyl-CoA + phosphate." [EC:6.2.1.4] subset: gosubset_prok xref_analog: EC:6.2.1.4 xref_analog: MetaCyc:SUCCINATE--COA-LIGASE-(GDP-FORMING)-RXN xref_analog: Reactome:115540 xref_analog: Reactome:118128 xref_analog: Reactome:120717 xref_analog: Reactome:122941 xref_analog: Reactome:125033 xref_analog: Reactome:14322 xref_analog: Reactome:71774 is_a: GO:0004774 ! succinate-CoA ligase activity [Term] id: GO:0004777 name: succinate-semialdehyde dehydrogenase activity namespace: molecular_function alt_id: GO:0008952 def: "Catalysis of the reaction: succinate semialdehyde + NAD+ + H2O = succinate + NADH + H+." [EC:1.2.1.24] subset: gosubset_prok xref_analog: EC:1.2.1.24 xref_analog: MetaCyc:SUCCINATE-SEMIALDEHYDE-DEHYDROGENASE-RXN is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor [Term] id: GO:0004778 name: succinyl-CoA hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: succinyl-CoA + H2O = CoA + succinate." [EC:3.1.2.3] xref_analog: EC:3.1.2.3 xref_analog: MetaCyc:SUCCINYL-COA-HYDROLASE-RXN is_a: GO:0016289 ! CoA hydrolase activity [Term] id: GO:0004779 name: sulfate adenylyltransferase activity namespace: molecular_function subset: gosubset_prok exact_synonym: "sulphate adenylyltransferase activity" [] xref_analog: EC:2.7.7.- is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004780 name: sulfate adenylyltransferase (ADP) activity namespace: molecular_function def: "Catalysis of the reaction: ADP + SO4(2-) (sulfate) = phosphate + adenylylsulfate." [EC:2.7.7.5] exact_synonym: "ADP:sulfate adenylyltransferase activity" [] exact_synonym: "sulphate adenylyltransferase (ADP) activity" [] xref_analog: EC:2.7.7.5 xref_analog: MetaCyc:SULFATE-ADENYLYLTRANSFERASE-(ADP)-RXN is_a: GO:0004779 ! sulfate adenylyltransferase activity [Term] id: GO:0004781 name: sulfate adenylyltransferase (ATP) activity namespace: molecular_function def: "Catalysis of the reaction: ATP + SO4(2-) (sulfate) = diphosphate + adenylylsulfate." [EC:2.7.7.4] subset: gosubset_prok exact_synonym: "ATP:sulfate adenylyltransferase activity" [] exact_synonym: "sulphate adenylyltransferase (ATP) activity" [] xref_analog: EC:2.7.7.4 xref_analog: MetaCyc:SULFATE-ADENYLYLTRANS-RXN is_a: GO:0004779 ! sulfate adenylyltransferase activity [Term] id: GO:0004782 name: sulfinoalanine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: 3-sulfino-L-alanine = hypotaurine + CO2." [EC:4.1.1.29] exact_synonym: "sulphinoalanine decarboxylase activity" [] xref_analog: EC:4.1.1.29 xref_analog: MetaCyc:SULFINOALANINE-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004783 name: sulfite reductase (NADPH) activity namespace: molecular_function def: "Catalysis of the reaction: H2S + 3 NADP+ + 3 H2O = SO3(2-) (sulfite) + 3 NADPH + 3 H+." [EC:1.8.1.2] subset: gosubset_prok related_synonym: "NADPH:sulfite reductase flavoprotein" [] exact_synonym: "sulphite reductase (NADPH) activity" [] xref_analog: EC:1.8.1.2 xref_analog: MetaCyc:SULFITE-REDUCT-RXN is_a: GO:0009055 ! electron carrier activity is_a: GO:0016668 ! oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor [Term] id: GO:0004784 name: superoxide dismutase activity namespace: molecular_function def: "Catalysis of the reaction: 2 peroxide radical + 2 H+ = O2 + H2O2." [EC:1.15.1.1] subset: gosubset_prok exact_synonym: "superoxide:superoxide oxidoreductase" [] narrow_synonym: "Mn, Fe superoxide dismutase" [] xref_analog: EC:1.15.1.1 xref_analog: MetaCyc:SUPEROX-DISMUT-RXN is_a: GO:0016721 ! oxidoreductase activity, acting on superoxide radicals as acceptor [Term] id: GO:0004785 name: copper, zinc superoxide dismutase activity namespace: molecular_function def: "Catalysis of the reaction: 2 peroxide radical + 2 H+ = O2 + H2O2." [EC:1.15.1.1] subset: gosubset_prok related_synonym: "zinc superoxide oxidoreductase" [] is_a: GO:0004784 ! superoxide dismutase activity [Term] id: GO:0004786 name: Mn, Fe superoxide dismutase namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because the function is covered by an existing term. To update annotations, consider the molecular function term 'superoxide dismutase activity ; GO:0004784'. is_obsolete: true [Term] id: GO:0004787 name: thiamin-pyrophosphatase activity namespace: molecular_function def: "Catalysis of the reaction: TDP + H2O = TMP + phosphate." [EC:3.6.1.-, GOC:ai] exact_synonym: "thiamin pyrophosphatase activity" [] exact_synonym: "thiamine pyrophosphatase activity" [] exact_synonym: "TPPase activity" [] xref_analog: EC:3.6.1.- is_a: GO:0017110 ! nucleoside-diphosphatase activity [Term] id: GO:0004788 name: thiamin diphosphokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + thiamin = AMP + thiamin diphosphate." [EC:2.7.6.2] subset: gosubset_prok exact_synonym: "thiamin pyrophosphokinase activity" [] exact_synonym: "thiamine pyrophosphokinase activity" [] xref_analog: EC:2.7.6.2 xref_analog: MetaCyc:THIAMIN-PYROPHOSPHOKINASE-RXN is_a: GO:0016301 ! kinase activity is_a: GO:0016778 ! diphosphotransferase activity [Term] id: GO:0004789 name: thiamin-phosphate diphosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: 2-methyl-4-amino-5-hydroxymethylpyrimidine diphosphate + 4-4-methyl-5-(2-phosphonooxyethyl)-thiazole = diphosphate + thiamin monophosphate." [EC:2.5.1.3] subset: gosubset_prok exact_synonym: "thiamin-phosphate pyrophosphorylase activity" [] exact_synonym: "thiamine-phosphate pyrophosphorylase activity" [] xref_analog: EC:2.5.1.3 xref_analog: MetaCyc:THI-P-SYN-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004790 name: thioether S-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + dimethyl sulfide = S-adenosyl-L-homocysteine + trimethylsulfonium." [EC:2.1.1.96] xref_analog: EC:2.1.1.96 xref_analog: MetaCyc:THIOETHER-S-METHYLTRANSFERASE-RXN is_a: GO:0008172 ! S-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004791 name: thioredoxin-disulfide reductase activity namespace: molecular_function def: "Catalysis of the reaction: thioredoxin + NADP+ = thioredoxin disulfide + NADPH + H+." [EC:1.8.1.9, ISBN:0198547684] subset: gosubset_prok exact_synonym: "thioredoxin disulfide reductase activity" [] exact_synonym: "thioredoxin reductase (NADPH) activity" [] exact_synonym: "thioredoxin-disulphide reductase activity" [] xref_analog: EC:1.8.1.9 xref_analog: MetaCyc:THIOREDOXIN-REDUCT-NADPH-RXN xref_analog: Reactome:116135 xref_analog: Reactome:118834 xref_analog: Reactome:125592 xref_analog: Reactome:14367 xref_analog: Reactome:73533 is_a: GO:0009055 ! electron carrier activity is_a: GO:0016209 ! antioxidant activity is_a: GO:0016668 ! oxidoreductase activity, acting on sulfur group of donors, NAD or NADP as acceptor [Term] id: GO:0004792 name: thiosulfate sulfurtransferase activity namespace: molecular_function def: "Catalysis of the reaction: thiosulfate + cyanide = SO3(2-) (sulfite) + thiocyanate." [EC:2.8.1.1] subset: gosubset_prok exact_synonym: "thiosulphate sulphurtransferase activity" [] xref_analog: EC:2.8.1.1 xref_analog: MetaCyc:THIOSULFATE-SULFURTRANSFERASE-RXN is_a: GO:0016783 ! sulfurtransferase activity [Term] id: GO:0004793 name: threonine aldolase activity namespace: molecular_function def: "Catalysis of the reaction: L-threonine = glycine + acetaldehyde." [EC:4.1.2.5] subset: gosubset_prok xref_analog: EC:4.1.2.5 xref_analog: MetaCyc:THREONINE-ALDOLASE-RXN is_a: GO:0016832 ! aldehyde-lyase activity [Term] id: GO:0004794 name: threonine ammonia-lyase activity namespace: molecular_function def: "Catalysis of the reaction: L-threonine = 2-oxobutanoate + NH3." [EC:4.2.1.16] comment: Note that this function was formerly EC:4.2.1.16. subset: gosubset_prok exact_synonym: "threonine dehydratase activity" [] xref_analog: EC:4.3.1.19 xref_analog: MetaCyc:THREDEHYD-RXN xref_analog: UM-BBD_enzymeID:e0306 is_a: GO:0016841 ! ammonia-lyase activity [Term] id: GO:0004795 name: threonine synthase activity namespace: molecular_function def: "Catalysis of the reaction: O-phospho-L-homoserine + H2O = L-threonine + phosphate." [EC:4.2.3.1] subset: gosubset_prok xref_analog: EC:4.2.3.1 xref_analog: MetaCyc:THRESYN-RXN is_a: GO:0016838 ! carbon-oxygen lyase activity, acting on phosphates [Term] id: GO:0004796 name: thromboxane-A synthase activity namespace: molecular_function alt_id: GO:0008400 def: "Catalysis of the reaction: (5Z,13E)-(15S)-9-alpha,11-alpha-epidioxy-15-hydroxyprosta-5,13-dienoate = (5Z,13E)-(15S)-9-alpha,11-alpha-epoxy-15-hydroxythromba-5,13-dienoate." [EC:5.3.99.5] narrow_synonym: "cytochrome P450 CYP5" [] xref_analog: EC:5.3.99.5 xref_analog: MetaCyc:THROMBOXANE-A-SYNTHASE-RXN xref_analog: Reactome:14373 is_a: GO:0016860 ! intramolecular oxidoreductase activity [Term] id: GO:0004797 name: thymidine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + thymidine = ADP + thymidine 5'-phosphate." [EC:2.7.1.21] subset: gosubset_prok xref_analog: EC:2.7.1.21 xref_analog: MetaCyc:THYKI-RXN is_a: GO:0019136 ! deoxynucleoside kinase activity [Term] id: GO:0004798 name: thymidylate kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate." [EC:2.7.4.9] subset: gosubset_prok exact_synonym: "dTMP kinase activity" [] xref_analog: EC:2.7.4.9 xref_analog: MetaCyc:DTMPKI-RXN is_a: GO:0016776 ! phosphotransferase activity, phosphate group as acceptor is_a: GO:0019201 ! nucleotide kinase activity [Term] id: GO:0004799 name: thymidylate synthase activity namespace: molecular_function def: "Catalysis of the reaction: 5,10-methylenetetrahydrofolate + dUMP = dihydrofolate + dTMP." [EC:2.1.1.45] subset: gosubset_prok xref_analog: EC:2.1.1.45 xref_analog: MetaCyc:THYMIDYLATESYN-RXN xref_analog: Reactome:114495 xref_analog: Reactome:116847 xref_analog: Reactome:119563 xref_analog: Reactome:124105 xref_analog: Reactome:14376 xref_analog: Reactome:73520 is_a: GO:0042083 ! 5,10-methylenetetrahydrofolate-dependent methyltransferase activity [Term] id: GO:0004800 name: thyroxine 5'-deiodinase activity namespace: molecular_function def: "Catalysis of the reaction: 3,5,3'-L-triiodo-L-thyronine + iodide + acceptor + H+ = L-thyroxine + donor-H2." [EC:1.97.1.10] comment: Note that this was EC:3.8.1.4. exact_synonym: "thyroxine 5' deiodinase activity" [] exact_synonym: "thyroxine deiodinase activity" [] xref_analog: EC:1.97.1.10 xref_analog: MetaCyc:THYROXINE-DEIODINASE-RXN is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0004801 name: transaldolase activity namespace: molecular_function def: "Catalysis of the reaction: sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-erythrose 4-phosphate + D-fructose 6-phosphate." [EC:2.2.1.2] subset: gosubset_prok xref_analog: EC:2.2.1.2 xref_analog: MetaCyc:TRANSALDOL-RXN xref_analog: Reactome:116121 xref_analog: Reactome:118803 xref_analog: Reactome:121419 xref_analog: Reactome:123455 xref_analog: Reactome:125579 xref_analog: Reactome:15049 xref_analog: Reactome:71333 is_a: GO:0016744 ! transferase activity, transferring aldehyde or ketonic groups [Term] id: GO:0004802 name: transketolase activity namespace: molecular_function def: "Catalysis of the reaction: sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-ribose 5-phosphate + D-xylulose 5-phosphate." [EC:2.2.1.1] subset: gosubset_prok xref_analog: EC:2.2.1.1 xref_analog: MetaCyc:1TRANSKETO-RXN xref_analog: Reactome:116117 xref_analog: Reactome:118769 xref_analog: Reactome:121388 xref_analog: Reactome:125560 xref_analog: Reactome:15050 xref_analog: Reactome:71323 is_a: GO:0016744 ! transferase activity, transferring aldehyde or ketonic groups [Term] id: GO:0004803 name: transposase activity namespace: molecular_function def: "Catalysis of the transposition of transposable elements or transposons. Transposases are involved in site-specific DNA recombination required for transposition in bacteria and other organisms." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0003824 ! catalytic activity [Term] id: GO:0004804 name: P-element encoded transposase activity namespace: molecular_function is_a: GO:0004803 ! transposase activity [Term] id: GO:0004805 name: trehalose-phosphatase activity namespace: molecular_function def: "Catalysis of the reaction: trehalose 6-phosphate + H2O = trehalose + phosphate." [EC:3.1.3.12] subset: gosubset_prok exact_synonym: "trehalose phosphatase activity" [] xref_analog: EC:3.1.3.12 xref_analog: MetaCyc:TREHALOSEPHOSPHA-RXN is_a: GO:0019203 ! carbohydrate phosphatase activity [Term] id: GO:0004806 name: triacylglycerol lipase activity namespace: molecular_function def: "Catalysis of the reaction: triacylglycerol + H2O = diacylglycerol + a fatty acid anion." [EC:3.1.1.3] subset: gosubset_prok xref_analog: EC:3.1.1.3 xref_analog: MetaCyc:TRIACYLGLYCEROL-LIPASE-RXN xref_analog: Reactome:15058 is_a: GO:0016298 ! lipase activity [Term] id: GO:0004807 name: triose-phosphate isomerase activity namespace: molecular_function def: "Catalysis of the reaction: D-glyceraldehyde 3-phosphate = glycerone phosphate." [EC:5.3.1.1] subset: gosubset_prok xref_analog: EC:5.3.1.1 xref_analog: MetaCyc:TRIOSEPISOMERIZATION-RXN xref_analog: Reactome:115289 xref_analog: Reactome:117801 xref_analog: Reactome:120438 xref_analog: Reactome:124832 xref_analog: Reactome:70450 xref_analog: Reactome:70453 is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldoses and ketoses [Term] id: GO:0004808 name: tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity namespace: molecular_function alt_id: GO:0016425 def: "Catalysis of the reaction: S-adenosyl-L-methionine + tRNA = S-adenosyl-L-homocysteine + tRNA containing 5-methylaminomethyl-2-thiouridylate." [EC:2.1.1.61] subset: gosubset_prok xref_analog: EC:2.1.1.61 xref_analog: MetaCyc:2.1.1.61-RXN is_a: GO:0008175 ! tRNA methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004809 name: tRNA (guanine-N2-)-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + tRNA = S-adenosyl-L-homocysteine + tRNA containing N2-methylguanine." [EC:2.1.1.32] subset: gosubset_prok xref_analog: EC:2.1.1.32 xref_analog: MetaCyc:TRNA-(GUANINE-N2-)-METHYLTRANSFERASE-RXN is_a: GO:0008170 ! N-methyltransferase activity is_a: GO:0016423 ! tRNA (guanine) methyltransferase activity [Term] id: GO:0004810 name: tRNA adenylyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + tRNA(n) = diphosphate + tRNA(n+1)." [EC:2.7.7.25] subset: gosubset_prok exact_synonym: "ATP:tRNA adenylyltransferase activity" [] xref_analog: EC:2.7.7.25 xref_analog: MetaCyc:TRNA-ADENYLYLTRANSFERASE-RXN is_a: GO:0016779 ! nucleotidyltransferase activity [Term] id: GO:0004811 name: tRNA isopentenyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: isopentenyl diphosphate + tRNA = diphosphate + tRNA containing 6-isopentenyladenosine." [EC:2.5.1.8] subset: gosubset_prok xref_analog: EC:2.5.1.8 xref_analog: MetaCyc:TRNA-ISOPENTENYLTRANSFERASE-RXN is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0004812 name: aminoacyl-tRNA ligase activity namespace: molecular_function def: "Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of pyrophosphate and AMP." [ISBN:0198506732] comment: Note that the bond resulting from this reaction is an carboxylic acid ester bond, linking the alpha carboxyl group of the amino acid to either the 2' or 3' hydroxyl of the 3'- terminal adenyl residue of the tRNA. subset: gosubset_prok exact_synonym: "aminoacyl-tRNA synthetase activity" [GOC:hjd] xref_analog: EC:6.1.1.- is_a: GO:0016876 ! ligase activity, forming aminoacyl-tRNA and related compounds [Term] id: GO:0004813 name: alanine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-alanine + tRNA(Ala) = AMP + diphosphate + L-alanyl-tRNA(Ala)." [EC:6.1.1.7] subset: gosubset_prok exact_synonym: "alanyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.7 xref_analog: MetaCyc:ALANINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004814 name: arginine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-arginine + tRNA(Arg) = AMP + diphosphate + L-arginyl-tRNA(Arg)." [EC:6.1.1.19] subset: gosubset_prok exact_synonym: "arginyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.19 xref_analog: MetaCyc:ARGININE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004815 name: aspartate-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-aspartate + tRNA(Asp) = AMP + diphosphate + L-aspartyl-tRNA(Asp)." [EC:6.1.1.12] subset: gosubset_prok exact_synonym: "aspartyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.12 xref_analog: MetaCyc:ASPARTATE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004816 name: asparagine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-asparagine + tRNA(Asn) = AMP + diphosphate + L-asparaginyl-tRNA(Asn)." [EC:6.1.1.22] subset: gosubset_prok exact_synonym: "asparaginyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.22 xref_analog: MetaCyc:ASPARAGINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004817 name: cysteine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-cysteine + tRNA(Cys) = AMP + diphosphate + L-cysteinyl-tRNA(Cys)." [EC:6.1.1.16] subset: gosubset_prok exact_synonym: "cysteinyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.16 xref_analog: MetaCyc:CYSTEINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004818 name: glutamate-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-glutamate + tRNA(Glu) = AMP + diphosphate + L-glutamyl-tRNA(Glu)." [EC:6.1.1.17] subset: gosubset_prok exact_synonym: "glutamyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.17 xref_analog: MetaCyc:GLURS-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004819 name: glutamine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-glutamine + tRNA(Gln) = AMP + diphosphate + L-glutaminyl-tRNA(Gln)." [EC:6.1.1.18] subset: gosubset_prok exact_synonym: "glutaminyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.18 xref_analog: MetaCyc:GLUTAMINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004820 name: glycine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + glycine + tRNA(Gly) = AMP + diphosphate + glycyl-tRNA(Gly)." [EC:6.1.1.14] subset: gosubset_prok exact_synonym: "glycyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.14 xref_analog: MetaCyc:GLYCINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004821 name: histidine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-histidine + tRNA(His) = AMP + diphosphate + L-histidyl-tRNA(His)." [EC:6.1.1.21] subset: gosubset_prok exact_synonym: "histidyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.21 xref_analog: MetaCyc:HISTIDINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004822 name: isoleucine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-isoleucine + tRNA(Ile) = AMP + diphosphate + L-isoleucyl-tRNA(Ile)." [EC:6.1.1.5] subset: gosubset_prok exact_synonym: "isoleucyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.5 xref_analog: MetaCyc:ISOLEUCINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004823 name: leucine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-leucine + tRNA(Leu) = AMP + diphosphate + L-leucyl-tRNA(Leu)." [EC:6.1.1.4] subset: gosubset_prok exact_synonym: "leucyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.4 xref_analog: MetaCyc:LEUCINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004824 name: lysine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-tRNA(Lys)." [EC:6.1.1.6] subset: gosubset_prok exact_synonym: "lysyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.6 xref_analog: MetaCyc:LYSINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004825 name: methionine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-methionine + tRNA(Met) = AMP + diphosphate + L-methionyl-tRNA(Met)." [EC:6.1.1.10] subset: gosubset_prok exact_synonym: "methionyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.10 xref_analog: MetaCyc:METHIONINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004826 name: phenylalanine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-phenylalanine + tRNA(Phe) = AMP + diphosphate + L-phenylalanyl-tRNA(Phe)." [EC:6.1.1.20] subset: gosubset_prok exact_synonym: "phenylalanyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.20 xref_analog: MetaCyc:PHENYLALANINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004827 name: proline-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-proline + tRNA(Pro) = AMP + diphosphate + L-prolyl-tRNA(Pro)." [EC:6.1.1.15] subset: gosubset_prok exact_synonym: "prolyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.15 xref_analog: MetaCyc:PROLINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004828 name: serine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-serine + tRNA(Ser) = AMP + diphosphate + L-seryl-tRNA(Ser)." [EC:6.1.1.11] subset: gosubset_prok exact_synonym: "seryl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.11 xref_analog: MetaCyc:SERINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004829 name: threonine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-threonine + tRNA(Thr) = AMP + diphosphate + L-threonyl-tRNA(Thr)." [EC:6.1.1.3] subset: gosubset_prok exact_synonym: "threonyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.3 xref_analog: MetaCyc:THREONINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004830 name: tryptophan-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-tryptophan + tRNA(Trp) = AMP + diphosphate + L-tryptophanyl-tRNA(Trp)." [EC:6.1.1.2] subset: gosubset_prok exact_synonym: "tryptophanyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.2 xref_analog: MetaCyc:TRYPTOPHAN--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004831 name: tyrosine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + L-tyrosyl-tRNA(Tyr)." [EC:6.1.1.1] subset: gosubset_prok exact_synonym: "tyrosyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.1 xref_analog: MetaCyc:TYROSINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004832 name: valine-tRNA ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val)." [EC:6.1.1.9] subset: gosubset_prok exact_synonym: "valyl-tRNA synthetase activity" [] xref_analog: EC:6.1.1.9 xref_analog: MetaCyc:VALINE--TRNA-LIGASE-RXN is_a: GO:0004812 ! aminoacyl-tRNA ligase activity [Term] id: GO:0004833 name: tryptophan 2,3-dioxygenase activity namespace: molecular_function def: "Catalysis of the reaction: L-tryptophan + O2 = L-formylkynurenine." [EC:1.13.11.11] subset: gosubset_prok xref_analog: EC:1.13.11.11 xref_analog: MetaCyc:TRYPTOPHAN-2,3-DIOXYGENASE-RXN xref_analog: Reactome:116177 xref_analog: Reactome:118878 xref_analog: Reactome:121467 xref_analog: Reactome:123500 xref_analog: Reactome:125626 xref_analog: Reactome:15133 xref_analog: Reactome:71187 is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen [Term] id: GO:0004834 name: tryptophan synthase activity namespace: molecular_function def: "Catalysis of the reaction: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O." [EC:4.2.1.20] subset: gosubset_prok xref_analog: EC:4.2.1.20 xref_analog: MetaCyc:TRYPSYN-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004835 name: tubulin-tyrosine ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + detyrosinated alpha-tubulin + L-tyrosine = alpha-tubulin + ADP + phosphate." [EC:6.3.2.25] exact_synonym: "tubulinyl-tyrosine ligase activity" [] xref_analog: EC:6.3.2.25 xref_analog: MetaCyc:6.3.2.25-RXN is_a: GO:0016881 ! acid-amino acid ligase activity [Term] id: GO:0004836 name: tyramine-beta hydroxylase activity namespace: molecular_function def: "Catalysis of the hydroxylation of tyramine to form octopamine." [PMID:10745161] is_a: GO:0016491 ! oxidoreductase activity [Term] id: GO:0004837 name: tyrosine decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: L-tyrosine = tyramine + CO2." [EC:4.1.1.25] xref_analog: EC:4.1.1.25 xref_analog: MetaCyc:TYROSINE-DECARBOXYLASE-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004838 name: tyrosine transaminase activity namespace: molecular_function def: "Catalysis of the reaction: L-tyrosine + 2-oxoglutarate = 4-hydroxyphenylpyruvate + L-glutamate." [EC:2.6.1.5] subset: gosubset_prok exact_synonym: "tyrosine aminotransferase activity" [] xref_analog: EC:2.6.1.5 xref_analog: MetaCyc:TYROSINE-AMINOTRANSFERASE-RXN xref_analog: Reactome:118884 xref_analog: Reactome:121472 xref_analog: Reactome:125635 xref_analog: Reactome:15141 xref_analog: Reactome:71154 is_a: GO:0008483 ! transaminase activity [Term] id: GO:0004839 name: ubiquitin activating enzyme activity namespace: molecular_function def: "Catalysis of the activation of the C-terminal carboxyl group of ubiquitin by the formation of a high-energy thiolester bond in an ATP-dependent manner." [http://www.bostonbiochem.com/E-301.html, PMID:10072378] exact_synonym: "E1" [] is_a: GO:0008641 ! small protein activating enzyme activity [Term] id: GO:0004840 name: ubiquitin conjugating enzyme activity namespace: molecular_function alt_id: GO:0004841 def: "Catalysis of the linkage of ubiquitin with lysine residues on a target protein. This function may be performed alone or in conjunction with E3, ubiquitin-protein ligase." [PMID:10072378] subset: gosubset_prok exact_synonym: "E2" [] exact_synonym: "ubiquitin-conjugating enzyme activity" [] is_a: GO:0008639 ! small protein conjugating enzyme activity [Term] id: GO:0004842 name: ubiquitin-protein ligase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine. Catalyzes the mediation of substrate recognition in ubiquitin-mediated protein degradation; binds directly to the substrate and its cognate E2 (ubiquitin conjugating enzyme)." [EC:6.3.2.19, PMID:9635407] subset: gosubset_prok exact_synonym: "ubiquitin ligase activity" [] exact_synonym: "ubiquitin-ligase activity" [] narrow_synonym: "E3" [] xref_analog: EC:6.3.2.19 xref_analog: MetaCyc:UBIQUITIN--PROTEIN-LIGASE-RXN xref_analog: Reactome:116188 xref_analog: Reactome:123512 xref_analog: Reactome:125643 xref_analog: Reactome:15171 xref_analog: Reactome:69594 is_a: GO:0019787 ! small conjugating protein ligase activity [Term] id: GO:0004843 name: ubiquitin-specific protease activity namespace: molecular_function def: "Catalysis of the hydrolysis of various forms of polymeric ubiquitin sequences. Will remove ubiquitin from larger leaving groups." [ISBN:0120793709] subset: gosubset_prok narrow_synonym: "UBP" [] narrow_synonym: "UCH2" [] is_a: GO:0019783 ! small conjugating protein-specific protease activity [Term] id: GO:0004844 name: uracil DNA N-glycosylase activity namespace: molecular_function def: "Catalysis of the cleavage of the N-C1' glycosidic bond between the damaged DNA base and the deoxyribose sugar, releasing a free base and leaving an apyrimidinic (AP) site. Enzymes with this activity recognize and remove uracil bases in DNA that result from the deamination of cytosine or the misincorporation of dUTP opposite an adenine." [GOC:elh, PMID:9224623] subset: gosubset_prok exact_synonym: "uracil-DNA glycosylase" [] xref_analog: EC:3.2.2.- xref_analog: Reactome:110214 xref_analog: Reactome:115156 xref_analog: Reactome:117659 xref_analog: Reactome:120306 xref_analog: Reactome:15174 is_a: GO:0019104 ! DNA N-glycosylase activity [Term] id: GO:0004845 name: uracil phosphoribosyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: UMP + diphosphate = uracil + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.9] subset: gosubset_prok xref_analog: EC:2.4.2.9 xref_analog: MetaCyc:URACIL-PRIBOSYLTRANS-RXN xref_analog: Reactome:15175 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004846 name: urate oxidase activity namespace: molecular_function def: "Catalysis of the reaction: urate + O2 + H2O = 5-hydroxyisourate + H2O2." [EC:1.7.3.3] subset: gosubset_prok xref_analog: EC:1.7.3.3 xref_analog: MetaCyc:URATE-OXIDASE-RXN is_a: GO:0016663 ! oxidoreductase activity, acting on other nitrogenous compounds as donors, oxygen as acceptor [Term] id: GO:0004847 name: urea carboxylase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + urea + CO2 = ADP + phosphate + urea-1-carboxylate." [EC:6.3.4.6] subset: gosubset_prok xref_analog: EC:6.3.4.6 xref_analog: MetaCyc:UREA-CARBOXYLASE-RXN is_a: GO:0016879 ! ligase activity, forming carbon-nitrogen bonds [Term] id: GO:0004848 name: ureidoglycolate hydrolase activity namespace: molecular_function def: "Catalysis of the reaction: (-)-ureidoglycolate + H2O = glyoxylate + 2 NH3 + CO2." [EC:3.5.3.19] subset: gosubset_prok xref_analog: EC:3.5.3.19 xref_analog: MetaCyc:UREIDOGLYCOLATE-HYDROLASE-RXN is_a: GO:0016813 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines [Term] id: GO:0004849 name: uridine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + uridine = ADP + UMP." [EC:2.7.1.48] subset: gosubset_prok exact_synonym: "uridine kinase reaction" [] xref_analog: EC:2.7.1.48 xref_analog: MetaCyc:URIDINEKIN-RXN is_a: GO:0019206 ! nucleoside kinase activity [Term] id: GO:0004850 name: uridine phosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: uridine + phosphate = uracil + alpha-D-ribose 1-phosphate." [EC:2.4.2.3] subset: gosubset_prok xref_analog: EC:2.4.2.3 xref_analog: MetaCyc:URPHOS-RXN xref_analog: Reactome:114465 xref_analog: Reactome:116822 xref_analog: Reactome:119542 xref_analog: Reactome:122048 xref_analog: Reactome:124082 xref_analog: Reactome:15196 xref_analog: Reactome:73557 is_a: GO:0016763 ! transferase activity, transferring pentosyl groups [Term] id: GO:0004851 name: uroporphyrin-III C-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: 2 S-adenosyl-L-methionine + uroporphyrin III = 2 S-adenosyl-L-homocysteine + precorrin-2." [EC:2.1.1.107] subset: gosubset_prok xref_analog: EC:2.1.1.107 xref_analog: MetaCyc:UROPORIIIMETHYLTRANSA-RXN is_a: GO:0008169 ! C-methyltransferase activity is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity [Term] id: GO:0004852 name: uroporphyrinogen-III synthase activity namespace: molecular_function def: "Catalysis of the reaction: hydroxymethylbilane = uroporphyrinogen-III + H2O." [EC:4.2.1.75] subset: gosubset_prok xref_analog: EC:4.2.1.75 xref_analog: MetaCyc:UROGENIIISYN-RXN is_a: GO:0016836 ! hydro-lyase activity [Term] id: GO:0004853 name: uroporphyrinogen decarboxylase activity namespace: molecular_function def: "Catalysis of the reaction: uroporphyrinogen-III = coproporphyrinogen + 4 CO2." [EC:4.1.1.37] subset: gosubset_prok xref_analog: EC:4.1.1.37 xref_analog: MetaCyc:UROGENDECARBOX-RXN is_a: GO:0016831 ! carboxy-lyase activity [Term] id: GO:0004854 name: xanthine dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: xanthine + NAD+ + H2O = urate + NADH + H+." [EC:1.17.1.4] subset: gosubset_prok xref_analog: EC:1.17.1.4 xref_analog: MetaCyc:XANTHINE-DEHYDROGENASE-RXN is_a: GO:0016726 ! oxidoreductase activity, acting on CH2 groups, NAD or NADP as acceptor [Term] id: GO:0004855 name: xanthine oxidase activity namespace: molecular_function def: "Catalysis of the reaction: xanthine + H2O + O2 = urate + H2O2." [EC:1.17.3.2] subset: gosubset_prok xref_analog: EC:1.17.3.2 xref_analog: MetaCyc:XANTHINE-OXIDASE-RXN xref_analog: Reactome:115668 xref_analog: Reactome:118255 xref_analog: Reactome:120883 xref_analog: Reactome:123078 xref_analog: Reactome:125146 xref_analog: Reactome:15204 xref_analog: Reactome:74246 is_a: GO:0016727 ! oxidoreductase activity, acting on CH2 groups, oxygen as acceptor [Term] id: GO:0004856 name: xylulokinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + D-xylulose = ADP + D-xylulose 5-phosphate." [EC:2.7.1.17] subset: gosubset_prok xref_analog: EC:2.7.1.17 xref_analog: MetaCyc:XYLULOKIN-RXN is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor is_a: GO:0019200 ! carbohydrate kinase activity [Term] id: GO:0004857 name: enzyme inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of an enzyme." [GOC:ai] subset: gosubset_prok narrow_synonym: "diazepam binding inhibitor activity" [] is_a: GO:0030234 ! enzyme regulator activity [Term] id: GO:0004858 name: dUTP pyrophosphatase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of dUTP pyrophosphatase." [GOC:mah] is_a: GO:0004857 ! enzyme inhibitor activity [Term] id: GO:0004859 name: phospholipase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of a phospholipase, an enzyme that catalyzes of the hydrolysis of a glycerophospholipid." [GOC:ai] is_a: GO:0004857 ! enzyme inhibitor activity [Term] id: GO:0004860 name: protein kinase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of a protein kinase, an enzyme which phosphorylates a protein." [GOC:ai] subset: gosubset_prok is_a: GO:0019210 ! kinase inhibitor activity is_a: GO:0019887 ! protein kinase regulator activity [Term] id: GO:0004861 name: cyclin-dependent protein kinase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of a cyclin-dependent protein kinase." [GOC:mah] related_synonym: "CDK inhibitor" [] related_synonym: "cyclin dependent kinase inhibitor" [] related_synonym: "cyclin-dependent kinase inhibitor" [] exact_synonym: "cyclin dependent protein kinase inhibitor activity" [] is_a: GO:0004860 ! protein kinase inhibitor activity [Term] id: GO:0004862 name: cAMP-dependent protein kinase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of a cAMP-dependent protein kinase." [GOC:mah] is_a: GO:0004860 ! protein kinase inhibitor activity [Term] id: GO:0004863 name: diacylglycerol-activated phospholipid-dependent protein kinase C inhibitor activity namespace: molecular_function exact_synonym: "diacylglycerol-activated phospholipid-dependent PKC inhibitor activity" [] is_a: GO:0008426 ! protein kinase C inhibitor activity [Term] id: GO:0004864 name: protein phosphatase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of a protein phosphatase, an enzyme that hydrolyzes phosphate groups from proteins." [GOC:ai] is_a: GO:0019212 ! phosphatase inhibitor activity [Term] id: GO:0004865 name: type 1 serine/threonine specific protein phosphatase inhibitor activity namespace: molecular_function is_a: GO:0004864 ! protein phosphatase inhibitor activity [Term] id: GO:0004866 name: endopeptidase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of an endopeptidase, any enzyme that hydrolyzes nonterminal peptide linkages in polypeptides." [GOC:jl] subset: gosubset_prok related_synonym: "alpha-2 macroglobulin" [] exact_synonym: "endoproteinase inhibitor" [] broad_synonym: "proteinase inhibitor" [] is_a: GO:0030414 ! protease inhibitor activity [Term] id: GO:0004867 name: serine-type endopeptidase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of serine-type endopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide linkages in oligopeptides or polypeptides; a serine residue (and a histidine residue) are at the active center of the enzyme." [GOC:ai] subset: gosubset_prok related_synonym: "serpin" [] exact_synonym: "serine protease inhibitor activity" [] exact_synonym: "serine proteinase inhibitor activity" [] exact_synonym: "serpin activity" [] xref_analog: Reactome:15233 is_a: GO:0004866 ! endopeptidase inhibitor activity [Term] id: GO:0004868 name: serpin namespace: molecular_function def: "OBSOLETE. A superfamily of proteins, many of which inhibit serine proteinases and exhibit a high degree of homology with classical serine proteinase inhibitors such as alpha1-antitrypsin or antithrombin." [GOC:ai, ISBN:0198506732] comment: This term was made obsolete because it represents a class of gene products. To update annotations, consider the molecular function term 'serine-type endopeptidase inhibitor activity ; GO:0004867'. is_obsolete: true [Term] id: GO:0004869 name: cysteine protease inhibitor activity namespace: molecular_function alt_id: GO:0004870 subset: gosubset_prok exact_synonym: "thiol protease inhibitor" [] is_a: GO:0004866 ! endopeptidase inhibitor activity [Term] id: GO:0004871 name: signal transducer activity namespace: molecular_function def: "Mediates the transfer of a signal from the outside to the inside of a cell by means other than the introduction of the signal molecule itself into the cell." [GOC:jl, ISBN:0198506732] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok narrow_synonym: "SAP kinase 3 activity" [] narrow_synonym: "SAP kinase 4 activity" [] narrow_synonym: "SAP kinase 5 activity" [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0004872 name: receptor activity namespace: molecular_function def: "Combining with an extracellular or intracellular messenger to initiate a change in cell activity." [GOC:ceb, ISBN:0198506732] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok related_synonym: "immunophilin" [] narrow_synonym: "endoplasmic reticulum receptor activity" [] narrow_synonym: "GPI-anchored membrane-bound receptor" [] narrow_synonym: "peroxisome integral membrane receptor" [] narrow_synonym: "peroxisome receptor" [] narrow_synonym: "receptor guanylate cyclase activity" [] is_a: GO:0004871 ! signal transducer activity [Term] id: GO:0004873 name: asialoglycoprotein receptor activity namespace: molecular_function def: "The mediation of the endocytosis of plasma glycoproteins from which the terminal sialic acid residue on their complex carbohydrate moieties has been removed; recognizes the terminal galactose and N-acetylgalactosamine units; the complex of receptor and ligand is internalized and transported to a sorting organelle where disassociation occurs, the receptor being recycled to the cell membrane." [UniProtKB:P24721] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004874 name: aryl hydrocarbon receptor activity namespace: molecular_function def: "Combining with an aryl hydrocarbon to initiate a change in cell activity." [GOC:ai] is_a: GO:0004872 ! receptor activity [Term] id: GO:0004875 name: complement receptor activity namespace: molecular_function def: "Combining with any component or product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] comment: Note that the complement cascade includes all of the components involved in the classical complement pathway, the alternative complement pathway, and the lectin complement pathway, as well as the common components of all three pathways. is_a: GO:0001848 ! complement binding is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004876 name: complement component C3a receptor activity namespace: molecular_function def: "Combining with the C3a product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0004877 name: complement component C3b receptor activity namespace: molecular_function def: "Combining with the C3b product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001850 ! complement component C3a binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0004878 name: complement component C5a receptor activity namespace: molecular_function def: "Combining with the C5a product of the complement cascade to initiate a change in cell activity." [GOC:add, ISBN:0781735149 "Fundamental Immunology"] is_a: GO:0001847 ! opsonin receptor activity is_a: GO:0001856 ! complement component C5a binding is_a: GO:0004875 ! complement receptor activity [Term] id: GO:0004879 name: ligand-dependent nuclear receptor activity namespace: molecular_function def: "A ligand-dependent receptor found in the nucleus of the cell." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. narrow_synonym: "nuclear hormone receptor" [] is_a: GO:0004872 ! receptor activity [Term] id: GO:0004880 name: juvenile hormone receptor activity namespace: molecular_function def: "Combining with juvenile hormone to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0004879 ! ligand-dependent nuclear receptor activity [Term] id: GO:0004882 name: androgen receptor activity namespace: molecular_function def: "Combining with an androgen to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0003707 ! steroid hormone receptor activity [Term] id: GO:0004883 name: glucocorticoid receptor activity namespace: molecular_function def: "Combining with a glucocorticoid to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0003707 ! steroid hormone receptor activity [Term] id: GO:0004884 name: ecdysteroid hormone receptor activity namespace: molecular_function def: "Combining with ecdysteroid hormone to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0003707 ! steroid hormone receptor activity [Term] id: GO:0004886 name: retinoid-X receptor activity namespace: molecular_function exact_synonym: "RXR" [] is_a: GO:0003708 ! retinoic acid receptor activity [Term] id: GO:0004887 name: thyroid hormone receptor activity namespace: molecular_function def: "Combining with thyroid hormone to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents a function and not a gene product. Consider also annotating to the molecular function term 'transcription regulator activity ; GO:0030528'. is_a: GO:0004879 ! ligand-dependent nuclear receptor activity [Term] id: GO:0004888 name: transmembrane receptor activity namespace: molecular_function def: "Combining with an extracellular or intracellular messenger to initiate a change in cell activity, and spanning to the membrane of either the cell or an organelle." [GOC:go_curators, http://en.wikipedia.org/] subset: gosubset_prok is_a: GO:0004872 ! receptor activity [Term] id: GO:0004889 name: nicotinic acetylcholine-activated cation-selective channel activity namespace: molecular_function alt_id: GO:0016904 xref_analog: TC:1.A.9.1.- is_a: GO:0005231 ! excitatory extracellular ligand-gated ion channel activity is_a: GO:0005261 ! cation channel activity [Term] id: GO:0004890 name: GABA-A receptor activity namespace: molecular_function def: "Combining with the amino acid gamma-aminobutyric acid (GABA, 4-aminobutyrate) to initiate a change in cell activity. GABA-A receptors function as chloride channels." [PMID:8974333] comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function term 'chloride channel activity ; GO:0005254' and 'inhibitory extracellular ligand-gated ion channel activity ; GO:0005237'. xref_analog: TC:1.A.9.4.- is_a: GO:0016917 ! GABA receptor activity [Term] id: GO:0004891 name: glycine-inhibited chloride channel activity namespace: molecular_function comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function term 'receptor activity ; GO:0004872'. xref_analog: TC:1.A.9.3.- is_a: GO:0005237 ! inhibitory extracellular ligand-gated ion channel activity is_a: GO:0005254 ! chloride channel activity [Term] id: GO:0004892 name: B cell receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it describes the receptor type, and not an activity. To update annotations, consider the molecular function term 'antigen binding ; GO:0003823'. is_obsolete: true [Term] id: GO:0004894 name: T cell receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it describes a receptor type, and not an activity. To update annotations, consider the molecular function terms 'MHC class II protein binding ; GO:0042289', 'exogenous peptide antigen binding ; GO:0042607'. is_obsolete: true [Term] id: GO:0004895 name: cell adhesion receptor activity namespace: molecular_function def: "OBSOLETE. Combining with cell adhesion molecules to initiate a change in cell activity." [GOC:ai] comment: This term was made obsolete because it represents gene products involved in the biological process of cell adhesion. To update annotations, consider the molecular function terms 'carbohydrate binding ; GO:0030246' or 'cell adhesion molecule binding ; GO:0050839', 'protein binding ; GO:0005515' and 'receptor binding ; GO:0005102', the biological process term 'cell adhesion ; GO:0007155', and the cellular component term 'integral to membrane ; GO:0016021'. is_obsolete: true [Term] id: GO:0004896 name: hematopoietin/interferon-class (D200-domain) cytokine receptor activity namespace: molecular_function is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004897 name: ciliary neurotrophic factor receptor activity namespace: molecular_function narrow_synonym: "gp130" [] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004898 name: gp130 namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function terms 'interleukin-11 receptor activity ; GO:0004921', 'interleukin-6 receptor activity ; GO:0004915', 'ciliary neurotrophic factor receptor activity ; GO:0004897', 'hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity ; GO:0005062'. is_obsolete: true [Term] id: GO:0004899 name: leukemia inhibitory factor receptor beta-protein activity namespace: molecular_function is_a: GO:0004897 ! ciliary neurotrophic factor receptor activity is_a: GO:0005062 ! hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity [Term] id: GO:0004900 name: erythropoietin receptor activity namespace: molecular_function def: "Combining with erythropoietin to initiate a change in cell activity." [GOC:ai] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004901 name: granulocyte macrophage colony-stimulating factor receptor activity namespace: molecular_function alt_id: GO:0030525 def: "Combining with granulocyte macrophage colony-stimulating factor to initiate a change in cell activity." [GOC:mah] related_synonym: "CSF-2" [] exact_synonym: "GM-CSF receptor activity" [] exact_synonym: "GMC-SF receptor activity" [] is_a: GO:0004900 ! erythropoietin receptor activity [Term] id: GO:0004902 name: granulocyte colony-stimulating factor receptor activity namespace: molecular_function alt_id: GO:0030524 def: "Combining with granulocyte colony-stimulating factor to initiate a change in cell activity." [GOC:mah] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004903 name: growth hormone receptor activity namespace: molecular_function def: "Combining with growth hormone to initiate a change in cell activity." [GOC:ai] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004904 name: interferon receptor activity namespace: molecular_function def: "Combining with an interferon to initiate a change in cell activity." [GOC:ai] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity is_a: GO:0019961 ! interferon binding [Term] id: GO:0004905 name: interferon-alpha/beta receptor activity namespace: molecular_function is_a: GO:0004904 ! interferon receptor activity is_a: GO:0019962 ! interferon-alpha/beta binding [Term] id: GO:0004906 name: interferon-gamma receptor activity namespace: molecular_function def: "Combining with interferon-gamma to initiate a change in cell activity." [GOC:ai] is_a: GO:0004904 ! interferon receptor activity is_a: GO:0019964 ! interferon-gamma binding [Term] id: GO:0004907 name: interleukin receptor activity namespace: molecular_function def: "Combining with an interleukin to initiate a change in cell activity." [GOC:ai] exact_synonym: "IL receptor" [] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity is_a: GO:0019965 ! interleukin binding [Term] id: GO:0004908 name: interleukin-1 receptor activity namespace: molecular_function def: "Combining with interleukin-1 to initiate a change in cell activity. Interleukin-1 is produced mainly by activated macrophages and is involved in the inflammatory response." [GOC:jl] exact_synonym: "IL-1R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019966 ! interleukin-1 binding [Term] id: GO:0004909 name: interleukin-1, Type I, activating receptor activity namespace: molecular_function exact_synonym: "IL-1 type I, activating receptor" [] is_a: GO:0004908 ! interleukin-1 receptor activity is_a: GO:0019967 ! interleukin-1, Type I, activating binding [Term] id: GO:0004910 name: interleukin-1, Type II, blocking receptor activity namespace: molecular_function exact_synonym: "IL-1 type II, blocking receptor" [] is_a: GO:0004908 ! interleukin-1 receptor activity is_a: GO:0019968 ! interleukin-1, Type II, blocking binding [Term] id: GO:0004911 name: interleukin-2 receptor activity namespace: molecular_function def: "Combining with interleukin-2 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-2R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019976 ! interleukin-2 binding [Term] id: GO:0004912 name: interleukin-3 receptor activity namespace: molecular_function def: "Combining with interleukin-3 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-3R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019978 ! interleukin-3 binding [Term] id: GO:0004913 name: interleukin-4 receptor activity namespace: molecular_function def: "Combining with interleukin-4 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-4R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019979 ! interleukin-4 binding [Term] id: GO:0004914 name: interleukin-5 receptor activity namespace: molecular_function def: "Combining with interleukin-5 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-5R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019980 ! interleukin-5 binding [Term] id: GO:0004915 name: interleukin-6 receptor activity namespace: molecular_function def: "Combining with interleukin-6 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-6R" [] narrow_synonym: "gp130" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019981 ! interleukin-6 binding [Term] id: GO:0004917 name: interleukin-7 receptor activity namespace: molecular_function def: "Combining with interleukin-7 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-7R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019982 ! interleukin-7 binding [Term] id: GO:0004918 name: interleukin-8 receptor activity namespace: molecular_function def: "Combining with interleukin-8 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-8R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0016494 ! C-X-C chemokine receptor activity is_a: GO:0019959 ! interleukin-8 binding [Term] id: GO:0004919 name: interleukin-9 receptor activity namespace: molecular_function def: "Combining with interleukin-9 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-9R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019983 ! interleukin-9 binding [Term] id: GO:0004920 name: interleukin-10 receptor activity namespace: molecular_function def: "Combining with interleukin-10 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-10R" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019969 ! interleukin-10 binding [Term] id: GO:0004921 name: interleukin-11 receptor activity namespace: molecular_function def: "Combining with interleukin-11 to initiate a change in cell activity." [GOC:jl] exact_synonym: "IL-11R" [] narrow_synonym: "gp130" [] is_a: GO:0004907 ! interleukin receptor activity is_a: GO:0019970 ! interleukin-11 binding [Term] id: GO:0004923 name: leukemia inhibitory factor receptor activity namespace: molecular_function def: "Combining with leukemia inhibitory factor to initiate a change in cell activity." [GOC:mah] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004924 name: oncostatin-M receptor activity namespace: molecular_function def: "Combining with oncostatin-M to initiate a change in cell activity." [GOC:mah] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004925 name: prolactin receptor activity namespace: molecular_function def: "Combining with prolactin to initiate a change in cell activity." [GOC:mah] is_a: GO:0004896 ! hematopoietin/interferon-class (D200-domain) cytokine receptor activity [Term] id: GO:0004926 name: non-G-protein coupled 7TM receptor activity namespace: molecular_function subset: gosubset_prok exact_synonym: "non G protein coupled 7TM receptor activity" [] exact_synonym: "non-G-protein-coupled 7TM receptor activity" [] narrow_synonym: "sevenless receptor activity" [] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004927 name: sevenless receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a gene product rather than an activity. To update annotations, consider the molecular function terms 'boss receptor activity ; GO:0008288', 'transmembrane receptor protein tyrosine kinase activity ; GO:0004714' and 'non-G-protein coupled 7TM receptor activity ; GO:0004926'. is_obsolete: true [Term] id: GO:0004928 name: frizzled receptor activity namespace: molecular_function def: "OBSOLETE. Combining with a member of the Wnt-family of signaling molecules to initiate a change in cell activity." [GOC:go_curators] comment: This term was made obsolete because it represents a gene product rather than an activity. To update annotations, use the molecular function term 'Wnt receptor activity ; GO:0042813' and consider the biological process term 'frizzled signaling pathway ; GO:0007222'. related_synonym: "Wnt receptor activity" [] is_obsolete: true [Term] id: GO:0004929 name: frizzled-2 receptor activity namespace: molecular_function def: "OBSOLETE. Combining with to a member of the Wnt-family of signaling molecules to initiate a change in cell activity." [GOC:go_curators] comment: This term was made obsolete because it represents a gene product rather than an activity. To update annotations, use the molecular function term 'Wnt receptor activity ; GO:0042813' and consider the biological process term 'frizzled-2 signaling pathway ; GO:0007223'. related_synonym: "Wnt receptor activity" [] is_obsolete: true [Term] id: GO:0004930 name: G-protein coupled receptor activity namespace: molecular_function def: "A receptor that binds an extracellular ligand and transmits the signal to a heterotrimeric G-protein complex. These receptors are characteristically seven-transmembrane receptors and are made up of hetero- or homodimers." [GOC:dph, IUPHAR:2.0] subset: gosubset_prok exact_synonym: "G protein coupled receptor activity" [] exact_synonym: "G protein linked receptor activity" [] exact_synonym: "G-protein linked receptor activity" [] exact_synonym: "G-protein-coupled receptor activity" [] exact_synonym: "GPCR activity" [] xref_analog: Reactome:35 is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004931 name: ATP-gated cation channel activity namespace: molecular_function comment: Note that this term refers to an activity and not a gene product. Consider also annotating to the molecular function term 'purinergic nucleotide receptor activity ; GO:0001614'. narrow_synonym: "purinoreceptor" [] broad_synonym: "P2X activity" [] xref_analog: TC:1.A.7.1.- is_a: GO:0005231 ! excitatory extracellular ligand-gated ion channel activity is_a: GO:0005261 ! cation channel activity [Term] id: GO:0004932 name: mating-type factor pheromone receptor activity namespace: molecular_function def: "Combining with a mating-type factor pheromone to initiate a change in cell activity." [GOC:dph] subset: gosubset_prok is_a: GO:0016503 ! pheromone receptor activity [Term] id: GO:0004933 name: mating-type a-factor pheromone receptor activity namespace: molecular_function def: "Combining with the mating-type a-factor pheromone to initiate a change in cell activity." [GOC:mah] broad_synonym: "class D G protein coupled receptor activity" [] broad_synonym: "class D G-protein coupled receptor activity" [] broad_synonym: "class D G-protein-coupled receptor activity" [] broad_synonym: "class D GPCR activity" [] is_a: GO:0004932 ! mating-type factor pheromone receptor activity [Term] id: GO:0004934 name: mating-type alpha-factor pheromone receptor activity namespace: molecular_function def: "Combining with the mating-type alpha-factor pheromone to initiate a change in cell activity." [GOC:mah] broad_synonym: "class D G protein coupled receptor activity" [] broad_synonym: "class D G-protein coupled receptor activity" [] broad_synonym: "class D G-protein-coupled receptor activity" [] broad_synonym: "class D GPCR activity" [] is_a: GO:0004932 ! mating-type factor pheromone receptor activity [Term] id: GO:0004935 name: adrenoceptor activity namespace: molecular_function exact_synonym: "adrenergic receptor" [] is_a: GO:0008227 ! amine receptor activity [Term] id: GO:0004936 name: alpha-adrenergic receptor activity namespace: molecular_function exact_synonym: "alpha adrenoceptor" [] is_a: GO:0004935 ! adrenoceptor activity [Term] id: GO:0004937 name: alpha1-adrenergic receptor activity namespace: molecular_function exact_synonym: "alpha1 adrenoceptor" [] is_a: GO:0004936 ! alpha-adrenergic receptor activity [Term] id: GO:0004938 name: alpha2-adrenergic receptor activity namespace: molecular_function exact_synonym: "alpha2 adrenoceptor" [] is_a: GO:0004936 ! alpha-adrenergic receptor activity [Term] id: GO:0004939 name: beta-adrenergic receptor activity namespace: molecular_function exact_synonym: "beta adrenoceptor" [] is_a: GO:0004935 ! adrenoceptor activity [Term] id: GO:0004940 name: beta1-adrenergic receptor activity namespace: molecular_function exact_synonym: "beta1 adrenoceptor" [] is_a: GO:0004939 ! beta-adrenergic receptor activity [Term] id: GO:0004941 name: beta2-adrenergic receptor activity namespace: molecular_function exact_synonym: "beta2 adrenoceptor" [] is_a: GO:0004939 ! beta-adrenergic receptor activity [Term] id: GO:0004942 name: anaphylatoxin receptor activity namespace: molecular_function def: "Combining with anaphylatoxin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004943 name: C3a anaphylatoxin receptor activity namespace: molecular_function def: "Combining with anaphylatoxin C3a to initiate a change in cell activity." [GOC:mah] is_a: GO:0004942 ! anaphylatoxin receptor activity [Term] id: GO:0004944 name: C5a anaphylatoxin receptor activity namespace: molecular_function def: "Combining with anaphylatoxin C5a to initiate a change in cell activity." [GOC:mah] is_a: GO:0004942 ! anaphylatoxin receptor activity [Term] id: GO:0004945 name: angiotensin type II receptor activity namespace: molecular_function is_a: GO:0001595 ! angiotensin receptor activity [Term] id: GO:0004946 name: bombesin receptor activity namespace: molecular_function def: "Combining with bombesin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004947 name: bradykinin receptor activity namespace: molecular_function def: "Combining with bradykinin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004948 name: calcitonin receptor activity namespace: molecular_function def: "Combining with calcitonin to initiate a change in cell activity." [GOC:mah] is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0004949 name: cannabinoid receptor activity namespace: molecular_function def: "Combining with cannabinoids to initiate a change in cell activity." [GOC:dph, IUPHAR:2.1.CBD] exact_synonym: "cannaboid receptor" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0004950 name: chemokine receptor activity namespace: molecular_function def: "Combining with chemokines, small chemoattractant molecules normally used to stimulate leukocytes, to initiate a change in cell activity." [IUPHAR:2.1 CHK, PMID:8662823] is_a: GO:0001637 ! G-protein chemoattractant receptor activity is_a: GO:0019956 ! chemokine binding [Term] id: GO:0004951 name: cholecystokinin receptor activity namespace: molecular_function def: "Combining with cholecystokinin, a 33-amino acid peptide secreted by the upper intestinal mucosa and also found in the central nervous system, to initiate a change in cell activity." [GOC:ai, http://cancerweb.ncl.ac.uk/] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004952 name: dopamine receptor activity namespace: molecular_function def: "Combining with the neurotransmitter dopamine to initiate a change in cell activity." [IUPHAR:2.1 DA] is_a: GO:0008227 ! amine receptor activity is_a: GO:0030594 ! neurotransmitter receptor activity is_a: GO:0035240 ! dopamine binding [Term] id: GO:0004953 name: icosanoid receptor activity namespace: molecular_function def: "Combining with an icosanoid to initiate a change in cell activity." [GOC:dph] exact_synonym: "eicosanoid receptor activity" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0004954 name: prostanoid receptor activity namespace: molecular_function def: "Combining with a prostanoid, any compound based on or derive4d from the prostanoate structure, to initiate a change in cell activity." [ISBN:0198506732] is_a: GO:0004953 ! icosanoid receptor activity [Term] id: GO:0004955 name: prostaglandin receptor activity namespace: molecular_function def: "Combining with a prostaglandin (PG) to initiate a change in cell activity." [ISBN:0198506732] is_a: GO:0004954 ! prostanoid receptor activity [Term] id: GO:0004956 name: prostaglandin D receptor activity namespace: molecular_function def: "Combining with prostaglandin D (PGD(2)) to initiate a change in cell activity." [ISBN:0198506732] related_synonym: "PGD receptor activity" [] exact_synonym: "PGD(2) receptor activity" [] is_a: GO:0004955 ! prostaglandin receptor activity [Term] id: GO:0004957 name: prostaglandin E receptor activity namespace: molecular_function def: "Combining with prostaglandin E (PGE(2)) to initiate a change in cell activity." [ISBN:0198506732] related_synonym: "PGE receptor activity" [] exact_synonym: "PGE(2) receptor activity" [] is_a: GO:0004955 ! prostaglandin receptor activity [Term] id: GO:0004958 name: prostaglandin F receptor activity namespace: molecular_function def: "Combining with prostaglandin F (PGF (2-alpha)) to initiate a change in cell activity." [ISBN:0198506732] related_synonym: "PGF receptor activity" [] exact_synonym: "PGF(2-alpha) receptor activity" [] is_a: GO:0004955 ! prostaglandin receptor activity [Term] id: GO:0004960 name: thromboxane receptor activity namespace: molecular_function def: "Combining with a thromboxane (TXA) to initiate a change in cell activity." [ISBN:0198506732] exact_synonym: "TXA receptor activity" [] is_a: GO:0004954 ! prostanoid receptor activity [Term] id: GO:0004961 name: thromboxane A2 receptor activity namespace: molecular_function def: "Combining with thromboxane A2 (TXA(2)) to initiate a change in cell activity." [ISBN:0198506732] exact_synonym: "TXA(2) receptor activity" [] is_a: GO:0004960 ! thromboxane receptor activity [Term] id: GO:0004962 name: endothelin receptor activity namespace: molecular_function def: "Combining with endothelin to initiate a change in cell activity." [GOC:dph, IUPHAR:2.1 ET] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004963 name: follicle stimulating hormone receptor activity namespace: molecular_function def: "Combining with follicle stimulating hormone to initiate a change in cell activity." [GOC:mah] is_a: GO:0016500 ! protein-hormone receptor activity [Term] id: GO:0004964 name: lutropin-choriogonadotropic hormone receptor activity namespace: molecular_function alt_id: GO:0004976 def: "Combining with lutropin-choriogonadotropic hormone to initiate a change in cell activity." [GOC:mah] is_a: GO:0016500 ! protein-hormone receptor activity [Term] id: GO:0004965 name: GABA-B receptor activity namespace: molecular_function def: "Combining with the amino acid gamma-aminobutyric acid (GABA, 4-aminobutyrate) to initiate a change in cell activity. GABA-B receptors are G-protein coupled receptors." [GOC:ai, IUPHAR:2.3 GLU] is_a: GO:0008067 ! metabotropic glutamate, GABA-B-like receptor activity is_a: GO:0016917 ! GABA receptor activity [Term] id: GO:0004966 name: galanin receptor activity namespace: molecular_function def: "Combining with galanin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004967 name: glucagon receptor activity namespace: molecular_function def: "Combining with glucagon to initiate a change in cell activity." [GOC:mah] is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0004968 name: gonadotropin-releasing hormone receptor activity namespace: molecular_function def: "Combining with gonadotropin-releasing hormone to initiate a change in cell activity." [GOC:mah] is_a: GO:0016500 ! protein-hormone receptor activity [Term] id: GO:0004969 name: histamine receptor activity namespace: molecular_function def: "Combining with histamine to initiate a change in cell activity. Histamine is a physiologically active amine, found in plant and animal tissue and released from mast cells as part of an allergic reaction in humans." [GOC:ai] is_a: GO:0008227 ! amine receptor activity [Term] id: GO:0004970 name: ionotropic glutamate receptor activity namespace: molecular_function def: "Combining with glutamate to initiate a change in cell activity through the regulation of ion channels." [ISBN:0198506732] comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function terms 'glutamate-gated ion channel activity ; GO:0005234' and 'cation channel activity ; GO:0005261'. subset: gosubset_prok is_a: GO:0008066 ! glutamate receptor activity [Term] id: GO:0004971 name: alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity namespace: molecular_function comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function terms 'inotropic glutamate receptor activity ; GO:0004970' and 'cation channel activity ; GO:0005261'. is_a: GO:0004970 ! ionotropic glutamate receptor activity [Term] id: GO:0004972 name: N-methyl-D-aspartate selective glutamate receptor activity namespace: molecular_function comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function terms 'inotropic glutamate receptor activity ; GO:0004970' and 'cation channel activity ; GO:0005261'. exact_synonym: "NMDA receptor" [] is_a: GO:0004970 ! ionotropic glutamate receptor activity [Term] id: GO:0004973 name: N-methyl-D-aspartate receptor-associated protein activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the molecular function terms 'protein binding ; GO:0005515' and 'receptor binding ; GO:0005102'. is_obsolete: true [Term] id: GO:0004974 name: leukotriene receptor activity namespace: molecular_function def: "Combining with a leukotriene to initiate a change in cell activity. Leukotrienes are pharmacologically active substances with a set of three conjugated double bonds; some contain a peptide moiety based on cysteine." [GOC:ai, ISBN:0198506732] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0004977 name: melanocortin receptor activity namespace: molecular_function def: "Combining with melanocortin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004978 name: adrenocorticotropin receptor activity namespace: molecular_function def: "Combining with adrenocorticotropin to initiate a change in cell activity." [GOC:ai] exact_synonym: "ACTH receptor activity" [] exact_synonym: "adrenocorticotropic hormone receptor activity" [] is_a: GO:0004977 ! melanocortin receptor activity is_a: GO:0008188 ! neuropeptide receptor activity is_a: GO:0042562 ! hormone binding [Term] id: GO:0004979 name: beta-endorphin receptor activity namespace: molecular_function def: "Combining with beta-endorphin to initiate a change in cell activity." [GOC:ai] is_a: GO:0004977 ! melanocortin receptor activity is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004980 name: melanocyte stimulating hormone receptor activity namespace: molecular_function def: "Combining with melanocyte stimulating hormone to initiate a change in cell activity." [GOC:jl, UniProtKB:Q01726] exact_synonym: "melanophore stimulating hormone receptor activity" [] broad_synonym: "MSH receptor activity" [] broad_synonym: "MSHR activity" [] is_a: GO:0004977 ! melanocortin receptor activity is_a: GO:0042562 ! hormone binding [Term] id: GO:0004981 name: muscarinic acetylcholine receptor activity namespace: molecular_function is_a: GO:0008227 ! amine receptor activity is_a: GO:0015464 ! acetylcholine receptor activity [Term] id: GO:0004982 name: N-formyl peptide receptor activity namespace: molecular_function def: "Combining with an N-formyl peptide to initiate a change in cell activity." [GOC:ai] exact_synonym: "Fmet-leu-phe receptor" [] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004983 name: neuropeptide Y receptor activity namespace: molecular_function def: "Combining with neuropeptide Y to initiate a change in cell activity." [IUPHAR:2.1 NPY, PMID:9315606] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004984 name: olfactory receptor activity namespace: molecular_function def: "Combining with airborne compounds to initiate a change in cell activity. These receptors are used for the sense of smell." [GOC:dph] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0004985 name: opioid receptor activity namespace: molecular_function def: "Combining with an opioid, any narcotic derived from or resembling opium, to initiate a change in cell activity." [GOC:ai, http://cancerweb.ncl.ac.uk/] is_a: GO:0008528 ! peptide receptor activity, G-protein coupled [Term] id: GO:0004986 name: delta-opioid receptor activity namespace: molecular_function is_a: GO:0004985 ! opioid receptor activity [Term] id: GO:0004987 name: kappa-opioid receptor activity namespace: molecular_function is_a: GO:0004985 ! opioid receptor activity [Term] id: GO:0004988 name: mu-opioid receptor activity namespace: molecular_function is_a: GO:0004985 ! opioid receptor activity [Term] id: GO:0004989 name: octopamine receptor activity namespace: molecular_function def: "Combining with the biogenic amine octopamine to initiate a change in cell activity. Octopamine is found in both vertebrates and invertebrates and can have properties both of a hormone and a neurotransmitter and acts as an adrenergic agonist." [GOC:ai, http://cancerweb.ncl.ac.uk/] is_a: GO:0008227 ! amine receptor activity [Term] id: GO:0004990 name: oxytocin receptor activity namespace: molecular_function def: "Combining with oxytocin to initiate a change in cell activity." [GOC:ai] is_a: GO:0001603 ! vasopressin-like receptor activity [Term] id: GO:0004991 name: parathyroid hormone receptor activity namespace: molecular_function def: "Combining with parathyroid hormone to initiate a change in cell activity." [GOC:mah] is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0004992 name: platelet activating factor receptor activity namespace: molecular_function def: "Combining with platelet activating factor to initiate a change in cell activity." [GOC:mah] exact_synonym: "PAF receptor activity" [] is_a: GO:0001584 ! rhodopsin-like receptor activity [Term] id: GO:0004993 name: serotonin receptor activity namespace: molecular_function alt_id: GO:0001585 def: "Combining with the biogenic amine serotonin, a neurotransmitter and hormone found in vertebrates, invertebrates and plants, to initiate a change in cell activity." [GOC:ai, http://cancerweb.ncl.ac.uk/] exact_synonym: "5-HT receptor" [] exact_synonym: "5-hydroxytryptamine receptor" [] is_a: GO:0008227 ! amine receptor activity [Term] id: GO:0004994 name: somatostatin receptor activity namespace: molecular_function def: "Combining with somatostatin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004995 name: tachykinin receptor activity namespace: molecular_function def: "Combining with tachykinin to initiate a change in cell activity." [GOC:ai] is_a: GO:0008188 ! neuropeptide receptor activity [Term] id: GO:0004996 name: thyroid-stimulating hormone receptor activity namespace: molecular_function def: "Combining with thyroid-stimulating hormone to initiate a change in cell activity." [GOC:mah] exact_synonym: "thyrotropin receptor" [] is_a: GO:0016500 ! protein-hormone receptor activity [Term] id: GO:0004997 name: thyrotropin-releasing hormone receptor activity namespace: molecular_function is_a: GO:0001615 ! thyrotropin releasing hormone and secretagogue-like receptors activity [Term] id: GO:0004998 name: transferrin receptor activity namespace: molecular_function def: "Combining with transferrin to initiate a change in cell activity." [GOC:mah] subset: gosubset_prok is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0004999 name: vasoactive intestinal polypeptide receptor activity namespace: molecular_function is_a: GO:0001633 ! secretin-like receptor activity [Term] id: GO:0005000 name: vasopressin receptor activity namespace: molecular_function def: "Combining with vasopressin to initiate a change in cell activity." [GOC:ai] is_a: GO:0001603 ! vasopressin-like receptor activity [Term] id: GO:0005001 name: transmembrane receptor protein tyrosine phosphatase activity namespace: molecular_function is_a: GO:0004725 ! protein tyrosine phosphatase activity is_a: GO:0019198 ! transmembrane receptor protein phosphatase activity [Term] id: GO:0005003 name: ephrin receptor activity namespace: molecular_function def: "Combining with an ephrin to initiate a change in cell activity." [GOC:mah] exact_synonym: "Eph receptor activity" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005004 name: GPI-linked ephrin receptor activity namespace: molecular_function exact_synonym: "GPI-linked Eph receptor activity" [] is_a: GO:0005003 ! ephrin receptor activity [Term] id: GO:0005005 name: transmembrane-ephrin receptor activity namespace: molecular_function exact_synonym: "transmembrane-Eph receptor activity" [] is_a: GO:0005003 ! ephrin receptor activity [Term] id: GO:0005006 name: epidermal growth factor receptor activity namespace: molecular_function alt_id: GO:0005023 def: "Combining with an epidermal growth factor to initiate a change in cell activity." [GOC:bf] subset: gosubset_prok exact_synonym: "EGF receptor activity" [] exact_synonym: "EGFR" [] exact_synonym: "TGF-alpha receptor activity" [] exact_synonym: "transforming growth factor-alpha receptor activity" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005007 name: fibroblast growth factor receptor activity namespace: molecular_function def: "Combining with fibroblast growth factor to initiate a change in cell activity." [GOC:mah] exact_synonym: "FGF receptor activity" [] exact_synonym: "FGFR" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005008 name: hepatocyte growth factor receptor activity namespace: molecular_function def: "Combining with hepatocye growth factor to initiate a change in cell activity." [GOC:mah] exact_synonym: "HGF receptor activity" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005009 name: insulin receptor activity namespace: molecular_function def: "Combining with insulin to initiate a change in cell activity." [ISBN:0198506732] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005010 name: insulin-like growth factor receptor activity namespace: molecular_function exact_synonym: "IGF receptor activity" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005011 name: macrophage colony stimulating factor receptor activity namespace: molecular_function def: "Combining with macrophage colony stimulating factor to initiate a change in cell activity." [GOC:mah] narrow_synonym: "CSF-1" [] narrow_synonym: "Fms" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005012 name: Neu/ErbB-2 receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a class of receptor rather than an activity. To update annotations, consider the molecular function term 'ErbB-3 class receptor binding ; GO:0043125'. is_obsolete: true [Term] id: GO:0005013 name: neurotrophin TRK receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jic] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'transmembrane receptor protein tyrosine kinase activity ; GO:0004714', those that are children of 'neurotrophin binding ; GO:0043121' and 'growth factor binding ; GO:0019838', and the biological process term 'signal transduction ; GO:0007165'. is_obsolete: true [Term] id: GO:0005014 name: neurotrophin TRKA receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jic] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function terms 'transmembrane receptor protein tyrosine kinase activity ; GO:0004714', 'neurotrophin-3 binding ; GO:0048404' and 'nerve growth factor binding ; GO:0048406', and the biological process term 'signal transduction ; GO:0007165'. is_obsolete: true [Term] id: GO:0005015 name: neurotrophin TRKB receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jic] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function terms 'transmembrane receptor protein tyrosine kinase activity ; GO:0004714', 'neurotrophin-3 binding ; GO:0048404', 'neurotrophin-4/5 binding ; GO:0048405' and 'brain-derived neurotrophic factor binding ; GO:0048403'; and the biological process term 'signal transduction ; GO:0007165'. is_obsolete: true [Term] id: GO:0005016 name: neurotrophin TRKC receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jic] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the molecular function term 'transmembrane receptor protein tyrosine kinase activity ; GO:0004714', 'neurotrophin-3 binding ; GO:0048404', and the biological process term 'signal transduction ; GO:0007165'. is_obsolete: true [Term] id: GO:0005017 name: platelet-derived growth factor receptor activity namespace: molecular_function def: "Combining with platelet-derived growth factor to initiate a change in cell activity." [GOC:mah] exact_synonym: "PDGF receptor activity" [] exact_synonym: "PDGFR activity" [] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005018 name: platelet-derived growth factor alpha-receptor activity namespace: molecular_function exact_synonym: "PDGF alpha-receptor activity" [] is_a: GO:0005017 ! platelet-derived growth factor receptor activity [Term] id: GO:0005019 name: platelet-derived growth factor beta-receptor activity namespace: molecular_function exact_synonym: "PDGF beta-receptor activity" [] is_a: GO:0005017 ! platelet-derived growth factor receptor activity [Term] id: GO:0005020 name: stem cell factor receptor activity namespace: molecular_function def: "Combining with stem cell factor, a cytokine that stimulates mast cell growth and differentiation, to initiate a change in cell activity." [GOC:jl, PMID:10698217] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005021 name: vascular endothelial growth factor receptor activity namespace: molecular_function def: "Combining with vascular endothelial growth factor to initiate a change in cell activity." [GOC:mah] is_a: GO:0004714 ! transmembrane receptor protein tyrosine kinase activity [Term] id: GO:0005024 name: transforming growth factor beta receptor activity namespace: molecular_function def: "Combining with transforming growth factor beta to initiate a change in cell activity." [GOC:mah] exact_synonym: "TGF-beta receptor activity" [] exact_synonym: "TGFbeta receptor activity" [] exact_synonym: "TGFbetaR" [] is_a: GO:0004675 ! transmembrane receptor protein serine/threonine kinase activity [Term] id: GO:0005025 name: transforming growth factor beta receptor activity, type I namespace: molecular_function def: "Combining with transforming growth factor beta to initiate a change in cell activity; upon ligand binding, catalyzes the phosphorylation of a type I TGF-beta receptor." [GOC:mah] related_synonym: "transforming growth factor beta ligand binding to type I receptor" [] exact_synonym: "type I TGF-beta receptor activity" [] exact_synonym: "type I TGFbeta receptor activity" [] exact_synonym: "type I transforming growth factor beta receptor activity" [] is_a: GO:0005024 ! transforming growth factor beta receptor activity [Term] id: GO:0005026 name: transforming growth factor beta receptor activity, type II namespace: molecular_function def: "Combining with transforming growth factor beta to initiate a change in cell activity; upon ligand binding, catalyzes the phosphorylation of a type I activin receptor." [GOC:mah] related_synonym: "transforming growth factor beta ligand binding to type II receptor" [] exact_synonym: "type II TGF-beta receptor activity" [] exact_synonym: "type II TGFbeta receptor activity" [] exact_synonym: "type II transforming growth factor beta receptor activity" [] is_a: GO:0005024 ! transforming growth factor beta receptor activity [Term] id: GO:0005027 name: NGF/TNF (6 C-domain) receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a protein family rather than a molecular function. To update annotations, consider the molecular function term 'tumor necrosis factor receptor activity ; GO:0005031'. is_obsolete: true [Term] id: GO:0005028 name: CD40 receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it describes the receptor type, and not an activity. To update annotations, consider the molecular function term 'CD154 receptor binding ; GO:0042615'. is_obsolete: true [Term] id: GO:0005029 name: CD27 receptor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it describes the receptor type, and not an activity. To update annotations, consider the molecular function term 'CD70 receptor binding ; GO:0042614'. is_obsolete: true [Term] id: GO:0005030 name: neurotrophin receptor activity namespace: molecular_function def: "Combining with neurotrophin, any of a family of growth factors that block apoptosis in neurons and thus promote nerve growth, to initiate a change in cell activity." [GOC:jl, http://www.mercksource.com/] is_a: GO:0004872 ! receptor activity is_a: GO:0043121 ! neurotrophin binding [Term] id: GO:0005031 name: tumor necrosis factor receptor activity namespace: molecular_function alt_id: GO:0005032 alt_id: GO:0005033 def: "Combining with tumor necrosis factor, a proinflammatory cytokine produced by monocytes and macrophages, to initiate a change in cell function." [GOC:jl, http://lookwayup.com/] exact_synonym: "TNF receptor activity" [] narrow_synonym: "NGF/TNF (6 C-domain) receptor activity" [] narrow_synonym: "TNF receptor activity, type I" [] narrow_synonym: "TNF receptor activity, type II" [] narrow_synonym: "tumor necrosis factor receptor activity, type I" [] narrow_synonym: "tumor necrosis factor receptor activity, type II" [] is_a: GO:0005035 ! death receptor activity is_a: GO:0043120 ! tumor necrosis factor binding [Term] id: GO:0005034 name: osmosensor activity namespace: molecular_function is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005035 name: death receptor activity namespace: molecular_function is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005037 name: death receptor adaptor protein activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the molecular function terms 'protein binding ; GO:0005515' and 'death receptor binding ; GO:0005123'. is_obsolete: true [Term] id: GO:0005038 name: death receptor interacting protein activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the molecular function terms 'protein binding ; GO:0005515' and 'death receptor binding ; GO:0005123'. is_obsolete: true [Term] id: GO:0005039 name: death receptor-associated factor activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the molecular function terms 'protein binding ; GO:0005515' and 'death receptor binding ; GO:0005123'. is_obsolete: true [Term] id: GO:0005040 name: decoy death receptor activity namespace: molecular_function is_a: GO:0005035 ! death receptor activity [Term] id: GO:0005041 name: low-density lipoprotein receptor activity namespace: molecular_function alt_id: GO:0008032 def: "Combining with a low-density lipoprotein to initiate a change in cell activity." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "LDL receptor" [] is_a: GO:0030169 ! low-density lipoprotein binding is_a: GO:0030228 ! lipoprotein receptor activity [Term] id: GO:0005042 name: netrin receptor activity namespace: molecular_function is_a: GO:0008046 ! axon guidance receptor activity [Term] id: GO:0005043 name: repulsive netrin receptor activity namespace: molecular_function is_a: GO:0008046 ! axon guidance receptor activity [Term] id: GO:0005044 name: scavenger receptor activity namespace: molecular_function def: "Combining with acetylated low-density lipoproteins, advanced glycation end products, or other polyanionic ligands to initiate a change in cell activity." [PMID:11790542, PMID:12379907, PMID:12621157] comment: Note that many gene products that are called scavenger receptors have a broad range of potential ligands and also can be annotated to 'pattern recognition receptor activity ; GO:0008329' or its child terms, or to 'lipoprotein receptor activity ; GO:0030228' or its child terms. subset: gosubset_prok exact_synonym: "macrophage receptor activity" [] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005045 name: endoplasmic reticulum receptor activity namespace: molecular_function def: "OBSOLETE. A receptor in the endoplasmic reticulum." [GOC:ai] comment: This term was made obsolete because it represents cellular component and molecular function information. To update annotations, use the cellular component term 'endoplasmic reticulum ; GO:0005783' and the molecular function term 'receptor activity ; GO:0004872'. is_obsolete: true [Term] id: GO:0005046 name: KDEL sequence binding namespace: molecular_function def: "Interacting selectively with a KDEL sequence, the C terminus tetrapeptide sequence Lys-Asp-Glu-Leu found in proteins that are to be retained in the endoplasmic reticulum." [GOC:ai] narrow_synonym: "KDEL receptor activity" [] is_a: GO:0046923 ! ER retention sequence binding [Term] id: GO:0005047 name: signal recognition particle binding namespace: molecular_function def: "Interacting selectively with the signal recognition particle." [ISBN:0198506732] comment: See also the cellular component term 'signal recognition particle (sensu Eukaryota) ; GO:0005786'. subset: gosubset_prok narrow_synonym: "signal recognition particle receptor" [] broad_synonym: "docking protein" [] is_a: GO:0043021 ! ribonucleoprotein binding [Term] id: GO:0005048 name: signal sequence binding namespace: molecular_function alt_id: GO:0008249 def: "Interacting selectively with a signal sequence, a specific peptide sequence found on protein precursors or mature proteins that dictates where the mature protein is localized." [GOC:ai] subset: gosubset_prok narrow_synonym: "leader sequence binding" [] narrow_synonym: "protein signal sequence binding" [] narrow_synonym: "signal sequence receptor" [] is_a: GO:0042277 ! peptide binding [Term] id: GO:0005049 name: nuclear export signal receptor activity namespace: molecular_function def: "Combining with a nuclear export signal to initiate a change in cell activity." [GOC:ai] exact_synonym: "NES receptor" [] is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005050 name: peroxisome receptor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes a cellular component. To update annotations, consider the molecular function term 'receptor activity ; GO:0004872' and the cellular component term 'peroxisome ; GO:0005777'. is_obsolete: true [Term] id: GO:0005052 name: peroxisome targeting signal-1 binding namespace: molecular_function def: "Interacting selectively with a type 1 peroxisome targeting signal, a tripeptide with the consensus (S/A/C)-(K/R/H)-L." [GOC:mah, PMID:11687502] narrow_synonym: "peroxisome targeting signal-1 receptor" [] narrow_synonym: "PEX5" [] narrow_synonym: "PTS1 receptor" [] is_a: GO:0000268 ! peroxisome targeting sequence binding [Term] id: GO:0005053 name: peroxisome targeting signal-2 binding namespace: molecular_function def: "Interacting selectively with a type 2 peroxisome targeting signal, a nonapeptide with a broad consensus sequence of (R/K)-(L/V/I)-(XXXXX)-(H/Q)-(L/A/F)." [GOC:mah, PMID:11687502] exact_synonym: "PTS2 receptor" [] narrow_synonym: "peroxisome targeting signal-2 receptor" [] narrow_synonym: "PEX7" [] is_a: GO:0000268 ! peroxisome targeting sequence binding [Term] id: GO:0005054 name: peroxisome integral membrane receptor namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes a cellular component. To update annotations, consider the molecular function term 'receptor activity ; GO:0004872' and the cellular component term 'peroxisomal membrane ; GO:0005778'. related_synonym: "Pas20p" [] is_obsolete: true [Term] id: GO:0005055 name: laminin receptor activity namespace: molecular_function def: "Combining with a laminin, a glycoprotein that constitutes the majority of proteins in the basement membrane, to initiate a change in cell activity." [GOC:ai] comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function terms 'cell adhesion molecule binding ; GO:0050839' and 'receptor binding ; GO:0005102' and the biological process term 'cell adhesion ; GO:0007155'. subset: gosubset_prok is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005056 name: tiggrin receptor activity namespace: molecular_function is_a: GO:0004888 ! transmembrane receptor activity [Term] id: GO:0005057 name: receptor signaling protein activity namespace: molecular_function exact_synonym: "receptor signalling protein activity" [] is_a: GO:0004871 ! signal transducer activity [Term] id: GO:0005061 name: aryl hydrocarbon receptor nuclear translocator activity namespace: molecular_function is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005062 name: hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity namespace: molecular_function narrow_synonym: "gp130" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005065 name: heterotrimeric G-protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a cellular component and not a molecular function. To update annotations, use the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'. is_obsolete: true [Term] id: GO:0005066 name: transmembrane receptor protein tyrosine kinase signaling protein activity namespace: molecular_function exact_synonym: "transmembrane receptor protein tyrosine kinase signalling protein activity" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005068 name: transmembrane receptor protein tyrosine kinase adaptor protein activity namespace: molecular_function is_a: GO:0005066 ! transmembrane receptor protein tyrosine kinase signaling protein activity [Term] id: GO:0005069 name: transmembrane receptor protein tyrosine kinase docking protein activity namespace: molecular_function is_a: GO:0005066 ! transmembrane receptor protein tyrosine kinase signaling protein activity [Term] id: GO:0005070 name: SH3/SH2 adaptor activity namespace: molecular_function def: "Interacting selectively and simultaneously with one or more signal transduction molecules, usually acting as a scaffold to bring these molecules into close proximity either using their own SH2/SH3 domains (e.g.Grb2) or those of their target molecules (e.g. SAM68)." [GOC:mah, UniProtKB:so] narrow_synonym: "SH3/SH2 adaptor protein activity" [] is_a: GO:0004871 ! signal transducer activity is_a: GO:0030674 ! protein binding, bridging [Term] id: GO:0005071 name: transmembrane receptor protein serine/threonine kinase signaling protein activity namespace: molecular_function exact_synonym: "transmembrane receptor protein serine/threonine kinase signalling protein activity" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005072 name: transforming growth factor beta receptor, cytoplasmic mediator activity namespace: molecular_function def: "Activity of any of the molecules that transmit the signal from a TGFbeta receptor through the cytoplasm to the nucleus." [GOC:hjd] comment: Note that this term and its children are useful for annotating proteins of the SMAD family. exact_synonym: "TGF-beta receptor, cytoplasmic mediator activity" [] exact_synonym: "TGFbeta receptor, cytoplasmic mediator activity" [] is_a: GO:0005071 ! transmembrane receptor protein serine/threonine kinase signaling protein activity [Term] id: GO:0005073 name: common-partner SMAD protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it names a family of gene products. To update annotations, use the molecular function term 'transforming growth factor beta receptor, common-partner cytoplasmic mediator activity ; GO:0030616'. is_obsolete: true [Term] id: GO:0005074 name: inhibitory SMAD protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it names a family of gene products. To update annotations, use the molecular function term 'transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity ; GO:0030617'. is_obsolete: true [Term] id: GO:0005075 name: pathway-specific SMAD protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a family of gene products. To update annotations, use the molecular function term 'transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity ; GO:0030618'. is_obsolete: true [Term] id: GO:0005076 name: receptor signaling protein serine/threonine kinase signaling protein activity namespace: molecular_function exact_synonym: "receptor signalling protein serine/threonine kinase signalling protein activity" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005077 name: MAP-kinase anchoring activity namespace: molecular_function def: "OBSOLETE. Binds to MAP kinase and anchors it to a particular subcellular location." [GOC:ai] comment: This term was made obsolete because it represents a combination of process and function information. To update annotations, use the molecular function term 'mitogen-activated protein kinase binding ; GO:0051019' and the biological process term 'protein localization ; GO:0008104'. exact_synonym: "MAP-kinase anchor protein activity" [] is_obsolete: true [Term] id: GO:0005078 name: MAP-kinase scaffold activity namespace: molecular_function def: "Functions as a scaffold for the assembly of a multiprotein mitogen-activated protein kinase (MAPK) complex. MAPK scaffold proteins have binding sites for MAPK pathway kinases as well as for upstream signaling proteins." [PMID:12511654] exact_synonym: "MAP-kinase scaffold protein activity" [] is_a: GO:0005076 ! receptor signaling protein serine/threonine kinase signaling protein activity is_a: GO:0030159 ! receptor signaling complex scaffold activity [Term] id: GO:0005079 name: protein kinase A anchoring activity namespace: molecular_function def: "OBSOLETE. Binds to protein kinase A and anchors it to a particular subcellular location." [PMID:10354567] comment: This term was made obsolete because it represents a combination of process and function information. To update annotations, use the molecular function term 'protein kinase A binding ; GO:0051018' and the biological process term 'protein localization ; GO:0008104'. exact_synonym: "A-kinase anchor protein activity" [] exact_synonym: "AKAP activity" [] is_obsolete: true [Term] id: GO:0005080 name: protein kinase C binding namespace: molecular_function def: "Interacting selectively with protein kinase C." [GOC:jl] exact_synonym: "PKC binding" [] is_a: GO:0019901 ! protein kinase binding [Term] id: GO:0005081 name: receptor signaling protein serine/threonine phosphatase signaling protein activity namespace: molecular_function exact_synonym: "receptor signalling protein serine/threonine phosphatase signalling protein activity" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005082 name: receptor signaling protein tyrosine phosphatase signaling protein activity namespace: molecular_function exact_synonym: "receptor signalling protein tyrosine phosphatase signalling protein activity" [] is_a: GO:0005057 ! receptor signaling protein activity [Term] id: GO:0005083 name: small GTPase regulator activity namespace: molecular_function def: "Modulates the rate of GTP hydrolysis by a small monomeric GTPase." [GOC:mah] subset: gosubset_prok related_synonym: "small GTPase regulatory/interacting protein activity" [] is_a: GO:0030695 ! GTPase regulator activity [Term] id: GO:0005084 name: Rab escort protein activity namespace: molecular_function exact_synonym: "REP" [] is_a: GO:0005083 ! small GTPase regulator activity [Term] id: GO:0005085 name: guanyl-nucleotide exchange factor activity namespace: molecular_function alt_id: GO:0008433 alt_id: GO:0019839 def: "Stimulates the exchange of guanyl nucleotides by a GTPase. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:kd, GOC:mah] subset: gosubset_prok exact_synonym: "GEF" [] exact_synonym: "guanyl-nucleotide release factor activity" [] exact_synonym: "guanyl-nucleotide releasing factor" [] narrow_synonym: "GNRP" [] xref_analog: Reactome:11431 is_a: GO:0030695 ! GTPase regulator activity [Term] id: GO:0005086 name: ARF guanyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the exchange of guanyl nucleotides by the GTPase ARF. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005085 ! guanyl-nucleotide exchange factor activity [Term] id: GO:0005087 name: Ran guanyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the exchange of guanyl nucleotides by the GTPase Ran. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:mah] exact_synonym: "RCC1" [] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005085 ! guanyl-nucleotide exchange factor activity [Term] id: GO:0005088 name: Ras guanyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the exchange of guanyl nucleotides by the GTPase Ras. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:mah] xref_analog: Reactome:11436 is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005085 ! guanyl-nucleotide exchange factor activity [Term] id: GO:0005089 name: Rho guanyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the exchange of guanyl nucleotides by the GTPase Rho. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:mah] exact_synonym: "Rho guanine nucleotide exchange factor" [] exact_synonym: "RhoGEF" [] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005085 ! guanyl-nucleotide exchange factor activity [Term] id: GO:0005090 name: Sar guanyl-nucleotide exchange factor activity namespace: molecular_function def: "Stimulates the exchange of guanyl nucleotides by the GTPase Sar. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005085 ! guanyl-nucleotide exchange factor activity [Term] id: GO:0005091 name: guanyl-nucleotide exchange factor adaptor activity namespace: molecular_function is_a: GO:0005083 ! small GTPase regulator activity [Term] id: GO:0005092 name: GDP-dissociation inhibitor activity namespace: molecular_function exact_synonym: "GDI" [] is_a: GO:0005083 ! small GTPase regulator activity [Term] id: GO:0005093 name: Rab GDP-dissociation inhibitor activity namespace: molecular_function is_a: GO:0005092 ! GDP-dissociation inhibitor activity [Term] id: GO:0005094 name: Rho GDP-dissociation inhibitor activity namespace: molecular_function is_a: GO:0005092 ! GDP-dissociation inhibitor activity [Term] id: GO:0005095 name: GTPase inhibitor activity namespace: molecular_function def: "Stops, prevents or reduces the activity of any enzyme that catalyzes the hydrolysis of GTP to GDP and orthophosphate." [GOC:ai] broad_synonym: "GIP" [] is_a: GO:0004857 ! enzyme inhibitor activity is_a: GO:0030695 ! GTPase regulator activity [Term] id: GO:0005096 name: GTPase activator activity namespace: molecular_function def: "Increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP." [GOC:mah] subset: gosubset_prok broad_synonym: "GAP" [] is_a: GO:0008047 ! enzyme activator activity is_a: GO:0030695 ! GTPase regulator activity [Term] id: GO:0005097 name: Rab GTPase activator activity namespace: molecular_function def: "Increases the rate of GTP hydrolysis by the GTPase Rab." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005096 ! GTPase activator activity [Term] id: GO:0005098 name: Ran GTPase activator activity namespace: molecular_function def: "Increases the rate of GTP hydrolysis by the GTPase Ran." [GOC:mah] related_synonym: "RanGAP" [] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005096 ! GTPase activator activity [Term] id: GO:0005099 name: Ras GTPase activator activity namespace: molecular_function def: "Increases the rate of GTP hydrolysis by the GTPase Ras." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005096 ! GTPase activator activity [Term] id: GO:0005100 name: Rho GTPase activator activity namespace: molecular_function def: "Increases the rate of GTP hydrolysis by the GTPase Rho." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005096 ! GTPase activator activity [Term] id: GO:0005101 name: Sar GTPase activator activity namespace: molecular_function def: "Increases the rate of GTP hydrolysis by the GTPase Sar." [GOC:mah] is_a: GO:0005083 ! small GTPase regulator activity is_a: GO:0005096 ! GTPase activator activity [Term] id: GO:0005102 name: receptor binding namespace: molecular_function def: "Interacting selectively with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:bf, GOC:ceb, ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: gosubset_prok related_synonym: "adrenocorticotropin" [] related_synonym: "allatostatin" [] related_synonym: "alpha-2 macroglobulin receptor-associated protein activity" [] related_synonym: "bacteriocin activity" [] related_synonym: "cell adhesion molecule activity" [] related_synonym: "cell adhesion receptor inhibitor activity" [] related_synonym: "cell adhesion receptor regulator activity" [] related_synonym: "colicin" [] related_synonym: "insulin" [] related_synonym: "membrane-associated guanylate kinase" [] related_synonym: "N-methyl-D-aspartate receptor-associated protein activity" [] related_synonym: "nicotinic acetylcholine receptor-associated protein activity" [] related_synonym: "receptor-associated protein activity" [] related_synonym: "selectin" [] related_synonym: "tachykinin" [] related_synonym: "transmembrane receptor protein serine/threonine kinase related_receptor-associated protein activity" [] narrow_synonym: "receptor ligand" [] is_a: GO:0005515 ! protein binding [Term] id: GO:0005103 name: baboon binding namespace: molecular_function def: "Interacting selectively with the baboon (babo) protein, a type I transforming growth factor beta receptor." [GOC:ceb] exact_synonym: "babo binding" [] narrow_synonym: "babo ligand" [] narrow_synonym: "baboon ligand" [] narrow_synonym: "baboon receptor ligand" [] is_a: GO:0005160 ! transforming growth factor beta receptor binding [Term] id: GO:0005104 name: fibroblast growth factor receptor binding namespace: molecular_function alt_id: GO:0001521 alt_id: GO:0005162 def: "Interacting selectively with the fibroblast growth factor receptor (FGFR)." [GOC:ceb] comment: Note that branchless is the Drosophila gene encoding fibroblast growth factor. exact_synonym: "FGF receptor binding" [] exact_synonym: "FGFR binding" [] narrow_synonym: "FGFR ligand" [] narrow_synonym: "fibroblast growth factor receptor ligand" [] broad_synonym: "fibroblast growth factor" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005105 name: type 1 fibroblast growth factor receptor binding namespace: molecular_function def: "Interacting selectively with the type 1 fibroblast growth factor receptor (FGFR1)." [GOC:ceb, GOC:fb_curators] comment: Note that breathless is the Drosophila gene encoding the type 1 fibroblast growth factor receptor (FGFR1). narrow_synonym: "breathless binding" [] narrow_synonym: "breathless ligand" [] narrow_synonym: "FGFR1 ligand" [] narrow_synonym: "type 1 fibroblast growth factor receptor ligand" [] broad_synonym: "FGFR1 binding" [] is_a: GO:0005104 ! fibroblast growth factor receptor binding [Term] id: GO:0005106 name: ephrin namespace: molecular_function def: "OBSOLETE. A class of proteins that interact with the ephrin receptors." [GOC:ai, ISBN:0198506732] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'ephrin receptor binding ; GO:0046875'. is_obsolete: true [Term] id: GO:0005107 name: GPI-linked ephrin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'ephrin receptor binding ; GO:0046875' and the cellular component term 'anchored to plasma membrane ; GO:0046658'. is_obsolete: true [Term] id: GO:0005108 name: transmembrane ephrin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'ephrin receptor binding ; GO:0046875' and the cellular component term 'integral to plasma membrane ; GO:0005887'. is_obsolete: true [Term] id: GO:0005109 name: frizzled binding namespace: molecular_function def: "Interacting selectively with the frizzled (fz) receptor." [GOC:ceb] exact_synonym: "fz binding" [] narrow_synonym: "frizzled ligand" [] narrow_synonym: "fz ligand" [] is_a: GO:0001664 ! G-protein-coupled receptor binding [Term] id: GO:0005110 name: frizzled-2 binding namespace: molecular_function def: "Interacting selectively with frizzled-2 (fz2)." [GOC:ceb] exact_synonym: "fz2 binding" [] narrow_synonym: "frizzled-2 ligand" [] narrow_synonym: "fz2 ligand" [] is_a: GO:0001664 ! G-protein-coupled receptor binding [Term] id: GO:0005111 name: type 2 fibroblast growth factor receptor binding namespace: molecular_function def: "Interacting selectively with the type 2 fibroblast growth factor receptor (FGFR2)." [GOC:fb_curators] comment: Note that heartless is the Drosophila gene encoding the type 2 fibroblast growth factor receptor (FGFR2). exact_synonym: "FGFR2 binding" [] exact_synonym: "heartless binding" [] narrow_synonym: "FGFR2 ligand" [] narrow_synonym: "heartless ligand" [] narrow_synonym: "type 2 fibroblast growth factor receptor ligand" [] is_a: GO:0005104 ! fibroblast growth factor receptor binding [Term] id: GO:0005112 name: Notch binding namespace: molecular_function def: "Interacting selectively with the Notch (N) protein, a surface receptor." [GOC:ceb] exact_synonym: "N binding" [] exact_synonym: "Notch receptor binding" [] narrow_synonym: "N ligand" [] narrow_synonym: "Notch ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005113 name: patched binding namespace: molecular_function def: "Interacting selectively with the patched (ptc) protein, a receptor for hedgehog proteins." [GOC:ceb, PMID:11731473] exact_synonym: "ptc binding" [] narrow_synonym: "patched ligand" [] narrow_synonym: "ptc ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005114 name: punt binding namespace: molecular_function def: "Interacting selectively with the punt protein, a type II transforming growth factor beta receptor." [GOC:bf] exact_synonym: "put binding" [] narrow_synonym: "punt ligand" [] narrow_synonym: "put ligand" [] is_a: GO:0005160 ! transforming growth factor beta receptor binding [Term] id: GO:0005115 name: receptor tyrosine kinase-like orphan receptor binding namespace: molecular_function def: "Interaction with the receptor tyrosine kinase-like orphan receptor (Ror)." [GOC:ceb] related_synonym: "Ror ligand" [] narrow_synonym: "receptor tyrosine kinase-like orphan receptor ligand" [] broad_synonym: "Ror binding" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005116 name: saxophone binding namespace: molecular_function def: "Interacting selectively with the saxophone (sax) protein, a type I transforming growth factor beta receptor." [GOC:ceb, PMID:11252892] exact_synonym: "sax binding" [] narrow_synonym: "sax ligand" [] narrow_synonym: "saxophone ligand" [] is_a: GO:0005160 ! transforming growth factor beta receptor binding [Term] id: GO:0005117 name: wishful thinking binding namespace: molecular_function def: "Interacting selectively with wishful thinking (Wit), a type II bone morphogenic protein receptor." [GOC:ceb, PMID:11856529] exact_synonym: "Wit binding" [] narrow_synonym: "SE20 receptor binding" [] narrow_synonym: "wishful thinking ligand" [] narrow_synonym: "Wit ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005118 name: sevenless binding namespace: molecular_function def: "Interacting selectively with the sevenless (sev) protein, a receptor tyrosine kinase." [FB:gn0003366, GOC:ceb] exact_synonym: "sev binding" [] narrow_synonym: "sev ligand" [] narrow_synonym: "sevenless ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005119 name: smoothened binding namespace: molecular_function def: "Interacting selectively with the smoothened (smo) protein, which interacts with patched to transmit hedgehog signals." [GOC:ceb, PMID:11731473] exact_synonym: "smo binding" [] narrow_synonym: "smo ligand" [] narrow_synonym: "smoothened ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005120 name: thickveins binding namespace: molecular_function def: "Interacting selectively with the thickveins (tkv) protein, a type I transforming growth factor beta receptor." [GOC:ceb, PMID:11252892] exact_synonym: "tkv binding" [] narrow_synonym: "thickveins ligand" [] narrow_synonym: "tkv ligand" [] is_a: GO:0005160 ! transforming growth factor beta receptor binding [Term] id: GO:0005121 name: Toll binding namespace: molecular_function def: "Interacting selectively with the Toll protein, a transmembrane receptor." [GOC:ceb] exact_synonym: "Tl binding" [] exact_synonym: "Toll receptor binding" [] narrow_synonym: "Toll ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005122 name: torso binding namespace: molecular_function def: "Interacting selectively with the torso (tor) protein, a receptor tyrosine kinase." [FB:gn0003733, GOC:ceb] exact_synonym: "tor binding" [] narrow_synonym: "tor ligand" [] narrow_synonym: "torso ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005123 name: death receptor binding namespace: molecular_function def: "Interacting selectively with a death receptor." [GOC:ceb] related_synonym: "death receptor adaptor protein activity" [] related_synonym: "death receptor interacting protein activity" [] related_synonym: "death receptor-associated factor activity" [] narrow_synonym: "death receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005124 name: scavenger receptor binding namespace: molecular_function def: "Interacting selectively with scavenger receptors, a family of proteins that are expressed on myeloid cells and are involved in the uptake of effete cellular components and foreign particles." [GOC:ceb] narrow_synonym: "scavenger receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005125 name: cytokine activity namespace: molecular_function def: "Functions to control the survival, growth, differentiation and effector function of tissues and cells." [ISBN:0198599471] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005126 name: hematopoietin/interferon-class (D200-domain) cytokine receptor binding namespace: molecular_function narrow_synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005127 name: ciliary neurotrophic factor receptor binding namespace: molecular_function def: "Interacting selectively with the ciliary neurotrophic factor receptor." [GOC:ai] narrow_synonym: "ciliary neurotrophic factor" [] narrow_synonym: "ciliary neurotrophic factor receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005128 name: erythropoietin receptor binding namespace: molecular_function def: "Interacting selectively with the erythropoietin receptor." [GOC:ai] narrow_synonym: "erythropoietin" [] narrow_synonym: "erythropoietin receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005129 name: granulocyte macrophage colony-stimulating factor receptor binding namespace: molecular_function def: "Interacting selectively with the granulocyte macrophage colony-stimulating factor receptor." [GOC:ai] narrow_synonym: "GM-CSF receptor ligand" [] narrow_synonym: "GMC-SF receptor ligand" [] narrow_synonym: "granulocyte macrophage colony-stimulating factor receptor ligand" [] narrow_synonym: "granulocyte-macrophage colony stimulating factor" [] is_a: GO:0005128 ! erythropoietin receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005130 name: granulocyte colony-stimulating factor receptor binding namespace: molecular_function def: "Interacting selectively with the granulocyte colony-stimulating factor receptor." [GOC:ai] exact_synonym: "G-CSF receptor ligand" [] exact_synonym: "GC-SF receptor ligand" [] narrow_synonym: "granulocyte colony-stimulating factor" [] narrow_synonym: "granulocyte colony-stimulating factor receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005131 name: growth hormone receptor binding namespace: molecular_function def: "Interacting selectively with the growth hormone receptor." [GOC:ai] narrow_synonym: "growth hormone" [] narrow_synonym: "growth hormone receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005132 name: interferon-alpha/beta receptor binding namespace: molecular_function def: "Interacting selectively with the interferon-alpha/beta receptor." [GOC:ai] narrow_synonym: "interferon-alpha/beta" [] narrow_synonym: "interferon-alpha/beta receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005133 name: interferon-gamma receptor binding namespace: molecular_function def: "Interacting selectively with the interferon-gamma receptor." [GOC:ai] narrow_synonym: "interferon-gamma" [] narrow_synonym: "interferon-gamma receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005134 name: interleukin-2 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-2 receptor." [GOC:ai] narrow_synonym: "IL-2" [] narrow_synonym: "interleukin-2 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005135 name: interleukin-3 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-3 receptor." [GOC:ai] narrow_synonym: "IL-3" [] narrow_synonym: "interleukin-3 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005136 name: interleukin-4 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-4 receptor." [GOC:ai] narrow_synonym: "IL-4" [] narrow_synonym: "interleukin-4 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005137 name: interleukin-5 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-5 receptor." [GOC:ai] narrow_synonym: "IL-5" [] narrow_synonym: "interleukin-5 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005138 name: interleukin-6 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-6 receptor." [GOC:ai] narrow_synonym: "IL-6" [] narrow_synonym: "interleukin-6 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005139 name: interleukin-7 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-7 receptor." [GOC:ai] narrow_synonym: "IL-7" [] narrow_synonym: "interleukin-7 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005140 name: interleukin-9 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-9 receptor." [GOC:ai] narrow_synonym: "IL-9" [] narrow_synonym: "interleukin-9 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005141 name: interleukin-10 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-10 receptor." [GOC:ai] narrow_synonym: "IL-10" [] narrow_synonym: "interleukin-10 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005142 name: interleukin-11 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-11 receptor." [GOC:ai] narrow_synonym: "IL-11" [] narrow_synonym: "interleukin-11 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005143 name: interleukin-12 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-12 receptor." [GOC:ai] narrow_synonym: "IL-12" [] narrow_synonym: "interleukin-12 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005144 name: interleukin-13 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-13 receptor." [GOC:ai] narrow_synonym: "IL-13" [] narrow_synonym: "interleukin-13 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005145 name: interleukin-14 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-14 receptor." [GOC:ai] narrow_synonym: "IL-14" [] narrow_synonym: "interleukin-14 receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005146 name: leukemia inhibitory factor receptor binding namespace: molecular_function def: "Interacting selectively with the leukemia inhibitory factor receptor." [GOC:ai] narrow_synonym: "leukemia inhibitory factor" [] narrow_synonym: "leukemia inhibitory factor receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005147 name: oncostatin-M receptor binding namespace: molecular_function def: "Interacting selectively with the oncostatin-M receptor." [GOC:ai] narrow_synonym: "oncostatin-M" [] narrow_synonym: "oncostatin-M receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005148 name: prolactin receptor binding namespace: molecular_function def: "Interacting selectively with the prolactin receptor." [GOC:ai] narrow_synonym: "prolactin" [] narrow_synonym: "prolactin receptor ligand" [] is_a: GO:0005126 ! hematopoietin/interferon-class (D200-domain) cytokine receptor binding [Term] id: GO:0005149 name: interleukin-1 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-1 receptor." [GOC:go_curators] narrow_synonym: "IL-1" [] narrow_synonym: "interleukin-1 receptor ligand" [] is_a: GO:0005125 ! cytokine activity is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005150 name: interleukin-1, Type I receptor binding namespace: molecular_function def: "Interacting selectively with a Type I interleukin-1 receptor." [GOC:ai] narrow_synonym: "IL-1 type I" [] narrow_synonym: "interleukin-1, Type I receptor ligand" [] is_a: GO:0005149 ! interleukin-1 receptor binding [Term] id: GO:0005151 name: interleukin-1, Type II receptor binding namespace: molecular_function def: "Interacting selectively with a Type II interleukin-1 receptor." [GOC:ai] narrow_synonym: "IL-1 type II" [] narrow_synonym: "interleukin-1, Type II receptor ligand" [] is_a: GO:0005149 ! interleukin-1 receptor binding [Term] id: GO:0005152 name: interleukin-1 receptor antagonist activity namespace: molecular_function def: "Blocks the binding of interleukin-1 to the interleukin-1 receptor complex." [GOC:ebc] exact_synonym: "IL-1ra" [] is_a: GO:0005149 ! interleukin-1 receptor binding is_a: GO:0030353 ! fibroblast growth factor receptor antagonist activity [Term] id: GO:0005153 name: interleukin-8 receptor binding namespace: molecular_function def: "Interacting selectively with the interleukin-8 receptor." [GOC:go_curators] narrow_synonym: "IL-8" [] narrow_synonym: "interleukin-8 receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005154 name: epidermal growth factor receptor binding namespace: molecular_function alt_id: GO:0008185 def: "Interacting selectively with the epidermal growth factor receptor." [GOC:ai] exact_synonym: "EGF receptor binding" [] exact_synonym: "EGFR binding" [] exact_synonym: "TGF-alpha receptor binding" [] exact_synonym: "TGFalpha receptor binding" [] exact_synonym: "transforming growth factor alpha receptor binding" [] narrow_synonym: "EGF" [] narrow_synonym: "EGF receptor ligand" [] narrow_synonym: "epidermal growth factor" [] narrow_synonym: "epidermal growth factor receptor ligand" [] narrow_synonym: "transforming growth factor alpha" [] narrow_synonym: "transforming growth factor alpha receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005155 name: epidermal growth factor receptor activating ligand activity namespace: molecular_function exact_synonym: "EGF receptor activating ligand activity" [] exact_synonym: "EGFR activating ligand activity" [] is_a: GO:0005154 ! epidermal growth factor receptor binding [Term] id: GO:0005156 name: epidermal growth factor receptor inhibiting ligand activity namespace: molecular_function exact_synonym: "EGF receptor inhibiting ligand activity" [] exact_synonym: "EGFR inhibiting ligand activity" [] is_a: GO:0005154 ! epidermal growth factor receptor binding [Term] id: GO:0005157 name: macrophage colony stimulating factor receptor binding namespace: molecular_function def: "Interacting selectively with the macrophage colony stimulating factor receptor." [GOC:ai] narrow_synonym: "macrophage colony stimulating factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity is_a: GO:0008083 ! growth factor activity [Term] id: GO:0005158 name: insulin receptor binding namespace: molecular_function def: "Interacting selectively with the insulin receptor." [GOC:ai] narrow_synonym: "insulin receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005159 name: insulin-like growth factor receptor binding namespace: molecular_function alt_id: GO:0005067 def: "Interacting selectively with the insulin-like growth factor receptor." [GOC:jl] exact_synonym: "IGF receptor binding" [] narrow_synonym: "insulin-like growth factor" [] narrow_synonym: "insulin-like growth factor receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005160 name: transforming growth factor beta receptor binding namespace: molecular_function def: "Interacting selectively with the transforming growth factor beta receptor." [GOC:ai] related_synonym: "activin" [] related_synonym: "inhibin" [] related_synonym: "transforming growth factor beta ligand binding to type I receptor" [] related_synonym: "transforming growth factor beta ligand binding to type II receptor" [] related_synonym: "transforming growth factor beta receptor anchoring activity" [] exact_synonym: "TGF-beta receptor binding" [] exact_synonym: "TGFbeta receptor binding" [] narrow_synonym: "transforming growth factor beta" [] narrow_synonym: "transforming growth factor beta receptor ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005161 name: platelet-derived growth factor receptor binding namespace: molecular_function def: "Interacting selectively with the platelet-derived growth factor receptor." [GOC:ai] exact_synonym: "PDGF receptor binding" [] exact_synonym: "PDGFR binding" [] narrow_synonym: "PDGF" [] narrow_synonym: "platelet-derived growth factor" [] narrow_synonym: "platelet-derived growth factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005163 name: nerve growth factor receptor binding namespace: molecular_function def: "Interacting selectively with the nerve growth factor receptor." [GOC:ai] exact_synonym: "NGF receptor binding" [] narrow_synonym: "nerve growth factor receptor ligand" [] narrow_synonym: "neurotrophin" [] is_a: GO:0005165 ! neurotrophin receptor binding [Term] id: GO:0005164 name: tumor necrosis factor receptor binding namespace: molecular_function def: "Interacting selectively with the tumor necrosis factor receptor." [GOC:ai] exact_synonym: "TNF receptor binding" [] narrow_synonym: "tumor necrosis factor" [] narrow_synonym: "tumor necrosis factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005165 name: neurotrophin receptor binding namespace: molecular_function def: "Interacting selectively with a neurotrophin receptor." [GOC:ai] narrow_synonym: "neurotrophin" [] narrow_synonym: "neurotrophin receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005166 name: neurotrophin p75 receptor binding namespace: molecular_function def: "Interacting selectively with the neurotrophin p75 receptor." [GOC:ai] narrow_synonym: "neurotrophin p75 receptor ligand" [] is_a: GO:0005165 ! neurotrophin receptor binding [Term] id: GO:0005167 name: neurotrophin TRK receptor binding namespace: molecular_function def: "Interacting selectively with a neurotrophin TRK receptor." [GOC:ai] narrow_synonym: "neurotrophin TRK receptor ligand" [] is_a: GO:0005165 ! neurotrophin receptor binding [Term] id: GO:0005168 name: neurotrophin TRKA receptor binding namespace: molecular_function def: "Interacting selectively with the neurotrophin TRKA receptor." [GOC:ai] narrow_synonym: "neurotrophin TRKA receptor ligand" [] is_a: GO:0005167 ! neurotrophin TRK receptor binding [Term] id: GO:0005169 name: neurotrophin TRKB receptor binding namespace: molecular_function def: "Interacting selectively with the neurotrophin TRKB receptor." [GOC:ai] narrow_synonym: "neurotrophin TRKB receptor ligand" [] is_a: GO:0005167 ! neurotrophin TRK receptor binding [Term] id: GO:0005170 name: neurotrophin TRKC receptor binding namespace: molecular_function def: "Interacting selectively with the neurotrophin TRKC receptor." [GOC:ai] narrow_synonym: "neurotrophin TRKC receptor ligand" [] is_a: GO:0005167 ! neurotrophin TRK receptor binding [Term] id: GO:0005171 name: hepatocyte growth factor receptor binding namespace: molecular_function def: "Interacting selectively with the hepatocyte growth factor receptor." [GOC:ai] exact_synonym: "HGF receptor binding" [] narrow_synonym: "hepatocyte growth factor" [] narrow_synonym: "hepatocyte growth factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005172 name: vascular endothelial growth factor receptor binding namespace: molecular_function def: "Interacting selectively with any vascular endothelial growth factor receptor." [GOC:ai] narrow_synonym: "vascular endothelial growth factor" [] narrow_synonym: "vascular endothelial growth factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005173 name: stem cell factor receptor binding namespace: molecular_function def: "Interacting selectively with the stem cell factor receptor (SCFR), a type III transmembrane kinase receptor." [GOC:jl, PMID:10698217] exact_synonym: "SCFR binding" [] narrow_synonym: "KIT binding" [] narrow_synonym: "SCF" [] narrow_synonym: "stem cell factor" [] narrow_synonym: "stem cell factor receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005174 name: CD40 receptor binding namespace: molecular_function def: "Interacting selectively with CD40, a receptor found on the surface of all B-lymphocytes." [GOC:jl, ISBN:0120781859] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005175 name: CD27 receptor binding namespace: molecular_function def: "Interacting selectively with a CD27, a receptor found on the surface of T cells and some B cells and NK cells." [GOC:jl, ISBN:0120781859] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005176 name: ErbB-2 class receptor binding namespace: molecular_function def: "Interacting selectively with the protein-tyrosine kinase receptor Neu/ErbB-2/HER2." [GOC:jl] exact_synonym: "HER2 receptor binding" [] exact_synonym: "Neu receptor binding" [] narrow_synonym: "ErbB-2 class receptor ligand" [] narrow_synonym: "HER2 receptor ligand" [] narrow_synonym: "Neu receptor ligand" [] is_a: GO:0005125 ! cytokine activity [Term] id: GO:0005177 name: neuroligin namespace: molecular_function def: "OBSOLETE. A class of ligands for neurexins." [GOC:ai] comment: To update annotations, consider the molecular function term 'neurexin binding ; GO:0042043'. is_obsolete: true [Term] id: GO:0005178 name: integrin binding namespace: molecular_function def: "Interacting selectively with an integrin." [GOC:ceb] narrow_synonym: "integrin ligand" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005179 name: hormone activity namespace: molecular_function def: "The action characteristic of a hormone, any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action. The term was originally applied to agents with a stimulatory physiological action in vertebrate animals (as opposed to a chalone, which has a depressant action). Usage is now extended to regulatory compounds in lower animals and plants, and to synthetic substances having comparable effects." [GOC:mah, ISBN:0198506732] narrow_synonym: "cAMP generating peptide activity" [] narrow_synonym: "glycopeptide hormone" [] narrow_synonym: "lipopeptide hormone" [] narrow_synonym: "peptide hormone" [] is_a: GO:0005102 ! receptor binding [Term] id: GO:0005180 name: peptide hormone namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a type of hormone rather than a molecular function. To update annotations, consider the molecular function term 'hormone activity ; GO:0005179'. is_obsolete: true [Term] id: GO:0005181 name: glycopeptide hormone namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a type of hormone rather than a molecular function. To update annotations, consider the molecular function term 'hormone activity ; GO:0005179'. is_obsolete: true [Term] id: GO:0005182 name: lipopeptide hormone namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it describes a type of hormone rather than a molecular function. To update annotations, consider the molecular function term 'hormone activity ; GO:0005179'. is_obsolete: true [Term] id: GO:0005183 name: luteinizing hormone-releasing factor activity namespace: molecular_function is_a: GO:0005179 ! hormone activity [Term] id: GO:0005184 name: neuropeptide hormone activity namespace: molecular_function def: "The action characteristic of a neuropeptide hormone, any peptide hormone that acts in the central nervous system. A neuropeptide is any of several types of molecules found in brain tissue, composed of short chains of amino acids; they include endorphins, enkephalins, vasopressin, and others. They are often localized in axon terminals at synapses and are classified as putative neurotransmitters, although some are also hormones." [GOC:mah] exact_synonym: "neurohormone" [] is_a: GO:0005179 ! hormone activity [Term] id: GO:0005185 name: neurohypophyseal hormone activity namespace: molecular_function is_a: GO:0005184 ! neuropeptide hormone activity [Term] id: GO:0005186 name: pheromone activity namespace: molecular_function def: "The activity of binding to and activating specific cell surface receptors, thereby inducing behavioral, developmental, or physiological response(s) from a responding organism or cell. The substance may be released or retained on the cell surface. Pheromones may serve as a specific attractant, social communicator, or sexual stimulant." [GOC:sgd_curators, ISBN:0198506732] subset: gosubset_prok is_a: GO:0005102 ! receptor binding [Term] id: GO:0005187 name: storage protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes a cellular location rather than a function. To update annotations, use the molecular function term 'nutrient reservoir activity ; GO:0045735'. is_obsolete: true [Term] id: GO:0005188 name: larval serum protein (sensu Insecta) namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. narrow_synonym: "arylphorin" [] is_obsolete: true [Term] id: GO:0005189 name: milk protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005190 name: seminal fluid protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005191 name: acidic epididymal glycoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes modification and presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005192 name: urinary protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005193 name: major urinary protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005194 name: cell adhesion molecule activity namespace: molecular_function def: "OBSOLETE. Mediates the adhesion of the cell to other cells or to the extracellular matrix." [ISBN:0198506732] comment: This term was made obsolete because it represents gene products involved in the biological process of cell adhesion. To update annotations, consider the molecular function terms 'carbohydrate binding ; GO:0030246' or 'cell adhesion molecule binding ; GO:0050839', 'protein binding ; GO:0005515' and 'receptor binding ; GO:0005102', the biological process term 'cell adhesion ; GO:0007155', and the cellular component term 'integral to membrane ; GO:0016021'. is_obsolete: true [Term] id: GO:0005198 name: structural molecule activity namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a complex or assembly within or outside a cell." [GOC:mah] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "colicin" [] related_synonym: "pore-forming toxin activity" [] related_synonym: "puparial glue (sensu Diptera)" [] related_synonym: "yolk protein" [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0005199 name: structural constituent of cell wall namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a cell wall." [GOC:mah] subset: gosubset_prok is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0005200 name: structural constituent of cytoskeleton namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a cytoskeletal structure." [GOC:mah] subset: gosubset_prok is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0005201 name: extracellular matrix structural constituent namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of the extracellular matrix." [GOC:mah] subset: gosubset_prok narrow_synonym: "extracellular matrix glycoprotein" [] is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0005202 name: collagen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the cellular component term 'collagen ; GO:0005581'. is_obsolete: true [Term] id: GO:0005203 name: proteoglycan namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes the composition (i.e. proteoglycan) of a gene product, not a molecular function. is_obsolete: true [Term] id: GO:0005204 name: chondroitin sulfate proteoglycan namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes the composition (i.e. proteoglycan) of a gene product, not a molecular function. exact_synonym: "chondroitin sulphate proteoglycan" [] is_obsolete: true [Term] id: GO:0005205 name: chondroitin sulfate/dermatan sulfate proteoglycan namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it describes the composition (i.e. proteoglycan) of a gene product, not a molecular function. exact_synonym: "chondroitin sulphate/dermatan sulphate proteoglycan" [] is_obsolete: true [Term] id: GO:0005206 name: heparin sulfate proteoglycan namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. exact_synonym: "heparin sulphate proteoglycan" [] is_obsolete: true [Term] id: GO:0005207 name: extracellular matrix glycoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes localization and modification rather than activity. To update annotations, consider the molecular function term 'extracellular matrix structural constituent ; GO:0005201'. is_obsolete: true [Term] id: GO:0005208 name: amyloid protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. is_obsolete: true [Term] id: GO:0005209 name: plasma protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005211 name: plasma glycoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it describes modification and presence in body fluids rather than an activity. is_obsolete: true [Term] id: GO:0005212 name: structural constituent of eye lens namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of the lens of an eye." [GOC:mah] is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0005213 name: structural constituent of chorion (sensu Insecta) namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a chorion. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." [GOC:mah] narrow_synonym: "structural protein of chorion (sensu Drosophila)" [] is_a: GO:0005198 ! structural molecule activity [Term] id: GO:0005214 name: structural constituent of cuticle (sensu Insecta) namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a cuticle. As in, but not restricted to, the true insects (Insecta, ncbi_taxonomy_id:50557)." [GOC:mah] is_a: GO:0042302 ! structural constituent of cuticle [Term] id: GO:0005215 name: transporter activity namespace: molecular_function def: "Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of, within or between cells." [GOC:ai, GOC:df] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "small-molecule carrier or transporter" [] narrow_synonym: "peroxisomal membrane transporter" [] xref_analog: Reactome:1391 is_a: GO:0003674 ! molecular_function [Term] id: GO:0005216 name: ion channel activity namespace: molecular_function def: "Allows the regulatable energy-independent passage of ions across a lipid bilayer down a concentration gradient." [GOC:cy] subset: goslim_generic subset: gosubset_prok is_a: GO:0015075 ! ion transporter activity is_a: GO:0015268 ! alpha-type channel activity [Term] id: GO:0005217 name: intracellular ligand-gated ion channel activity namespace: molecular_function is_a: GO:0015276 ! ligand-gated ion channel activity [Term] id: GO:0005218 name: intracellular ligand-gated calcium channel activity namespace: molecular_function is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0015278 ! calcium-release channel activity [Term] id: GO:0005219 name: ryanodine-sensitive calcium-release channel activity namespace: molecular_function related_synonym: "caffeine-sensitive calcium-release channel" [] narrow_synonym: "ryanodine receptor" [] xref_analog: TC:1.A.3.1.1 is_a: GO:0005218 ! intracellular ligand-gated calcium channel activity [Term] id: GO:0005220 name: inositol 1,4,5-triphosphate-sensitive calcium-release channel activity namespace: molecular_function xref_analog: TC:1.A.3.2.1 is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0015278 ! calcium-release channel activity [Term] id: GO:0005221 name: intracellular cyclic nucleotide activated cation channel activity namespace: molecular_function is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0005261 ! cation channel activity [Term] id: GO:0005222 name: intracellular cAMP activated cation channel activity namespace: molecular_function exact_synonym: "intracellular 3',5' cAMP activated cation channel activity" [] exact_synonym: "intracellular 3',5'-cAMP activated cation channel activity" [] exact_synonym: "intracellular adenosine 3',5'-cyclophosphate activated cation channel activity" [] exact_synonym: "intracellular cyclic AMP activated cation channel activity" [] is_a: GO:0005221 ! intracellular cyclic nucleotide activated cation channel activity [Term] id: GO:0005223 name: intracellular cGMP activated cation channel activity namespace: molecular_function is_a: GO:0005221 ! intracellular cyclic nucleotide activated cation channel activity [Term] id: GO:0005224 name: ATP-binding and phosphorylation-dependent chloride channel activity namespace: molecular_function is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0005254 ! chloride channel activity [Term] id: GO:0005225 name: volume-sensitive anion channel activity namespace: molecular_function broad_synonym: "volume-regulated channel" [] xref_analog: TC:9.C.2.-.- is_a: GO:0005253 ! anion channel activity [Term] id: GO:0005227 name: calcium activated cation channel activity namespace: molecular_function narrow_synonym: "intracellular calcium-activated potassium channel" [] narrow_synonym: "polycystin" [] xref_analog: TC:1.A.5.-.- is_a: GO:0005261 ! cation channel activity is_a: GO:0015276 ! ligand-gated ion channel activity [Term] id: GO:0005228 name: intracellular sodium activated potassium channel activity namespace: molecular_function is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0005267 ! potassium channel activity [Term] id: GO:0005229 name: intracellular calcium activated chloride channel activity namespace: molecular_function is_a: GO:0005217 ! intracellular ligand-gated ion channel activity is_a: GO:0005254 ! chloride channel activity [Term] id: GO:0005230 name: extracellular ligand-gated ion channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0015276 ! ligand-gated ion channel activity [Term] id: GO:0005231 name: excitatory extracellular ligand-gated ion channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005230 ! extracellular ligand-gated ion channel activity [Term] id: GO:0005232 name: serotonin-activated cation-selective channel activity namespace: molecular_function comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function term 'serotonin receptor activity ; GO:0004993'. exact_synonym: "5-hydroxytryptamine-gated receptor-channel" [] xref_analog: TC:1.A.9.2.- is_a: GO:0005231 ! excitatory extracellular ligand-gated ion channel activity is_a: GO:0005261 ! cation channel activity [Term] id: GO:0005234 name: glutamate-gated ion channel activity namespace: molecular_function comment: Note that this term represents an activity and not a gene product. Consider also annotating to the molecular function term 'glutamate receptor activity ; GO:0008066'. subset: gosubset_prok xref_analog: TC:1.A.10.-.- is_a: GO:0005231 ! excitatory extracellular ligand-gated ion channel activity [Term] id: GO:0005237 name: inhibitory extracellular ligand-gated ion channel activity namespace: molecular_function is_a: GO:0005230 ! extracellular ligand-gated ion channel activity [Term] id: GO:0005240 name: glycine receptor-associated protein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not describe a molecular function. To update annotations, consider the molecular function term 'protein binding ; GO:0005515'. is_obsolete: true [Term] id: GO:0005241 name: inward rectifier channel namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more specific terms were created. To update annotations, consider the molecular function term 'inward rectifier potassium channel activity ; GO:0005242'. is_obsolete: true [Term] id: GO:0005242 name: inward rectifier potassium channel activity namespace: molecular_function subset: gosubset_prok broad_synonym: "inward rectifier channel" [] xref_analog: TC:1.A.1.8.1 is_a: GO:0005249 ! voltage-gated potassium channel activity [Term] id: GO:0005243 name: gap-junction forming channel activity namespace: molecular_function broad_synonym: "intercellular channel" [] xref_analog: TC:1.A.-.-.- is_a: GO:0015268 ! alpha-type channel activity [Term] id: GO:0005244 name: voltage-gated ion channel activity namespace: molecular_function def: "A channel in a cell membrane whose opening is governed by the membrane potential." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "voltage gated ion channel activity" [] exact_synonym: "voltage-dependent ion channel activity" [] xref_analog: TC:1.A.1.-.- is_a: GO:0005216 ! ion channel activity [Term] id: GO:0005245 name: voltage-gated calcium channel activity namespace: molecular_function alt_id: GO:0010173 def: "Allows movement of calcium across a cell membrane through a transmembrane channel whose opening and closing is responsive to changes in membrane potential." [GOC:tb] exact_synonym: "depolarisation-activated voltage-gated calcium channel" [] exact_synonym: "depolarization-activated voltage gated calcium channel activity" [] exact_synonym: "depolarization-activated voltage-gated calcium channel activity" [] exact_synonym: "voltage gated calcium channel activity" [] exact_synonym: "voltage-dependent calcium channel activity" [] exact_synonym: "voltage-sensitive calcium channel" [] broad_synonym: "depolarisation-activated calcium channel" [] broad_synonym: "depolarization-activated calcium channel" [] xref_analog: TC:1.A.1.11.1 is_a: GO:0005244 ! voltage-gated ion channel activity is_a: GO:0005262 ! calcium channel activity [Term] id: GO:0005246 name: calcium channel regulator activity namespace: molecular_function is_a: GO:0016247 ! channel regulator activity [Term] id: GO:0005247 name: voltage-gated chloride channel activity namespace: molecular_function subset: gosubset_prok exact_synonym: "voltage gated chloride channel activity" [] exact_synonym: "voltage-dependent chloride channel activity" [] xref_analog: TC:1.A.11.-.- is_a: GO:0005244 ! voltage-gated ion channel activity is_a: GO:0005254 ! chloride channel activity [Term] id: GO:0005248 name: voltage-gated sodium channel activity namespace: molecular_function exact_synonym: "voltage gated sodium channel activity" [] exact_synonym: "voltage-dependent sodium channel activity" [] exact_synonym: "voltage-sensitive sodium channel" [] xref_analog: TC:1.A.1.10.1 is_a: GO:0005244 ! voltage-gated ion channel activity is_a: GO:0005272 ! sodium channel activity [Term] id: GO:0005249 name: voltage-gated potassium channel activity namespace: molecular_function subset: gosubset_prok exact_synonym: "voltage gated potassium channel activity" [] exact_synonym: "voltage-dependent potassium channel activity" [] exact_synonym: "voltage-sensitive potassium channel" [] xref_analog: TC:1.A.1.2.- is_a: GO:0005244 ! voltage-gated ion channel activity is_a: GO:0005267 ! potassium channel activity [Term] id: GO:0005250 name: A-type (transient outward) potassium channel activity namespace: molecular_function is_a: GO:0015271 ! outward rectifier potassium channel activity [Term] id: GO:0005251 name: delayed rectifier potassium channel activity namespace: molecular_function is_a: GO:0005249 ! voltage-gated potassium channel activity [Term] id: GO:0005252 name: open rectifier potassium channel activity namespace: molecular_function is_a: GO:0005249 ! voltage-gated potassium channel activity [Term] id: GO:0005253 name: anion channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005216 ! ion channel activity is_a: GO:0008509 ! anion transporter activity [Term] id: GO:0005254 name: chloride channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005253 ! anion channel activity [Term] id: GO:0005260 name: channel-conductance-controlling ATPase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O = ADP + phosphate. An animal enzyme that is active in forming a chloride channel, the absence of which brings about cystic fibrosis. It is also involved in the functioning of other transmembrane channels." [EC:3.6.3.49] narrow_synonym: "cystic fibrosis transmembrane conductance regulator" [] xref_analog: EC:3.6.3.49 xref_analog: MetaCyc:3.6.3.49-RXN xref_analog: TC:3.A.1.202.1 is_a: GO:0005254 ! chloride channel activity is_a: GO:0042626 ! ATPase activity, coupled to transmembrane movement of substances [Term] id: GO:0005261 name: cation channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005216 ! ion channel activity is_a: GO:0008324 ! cation transporter activity [Term] id: GO:0005262 name: calcium channel activity namespace: molecular_function xref_analog: Reactome:13088 is_a: GO:0005261 ! cation channel activity [Term] id: GO:0005267 name: potassium channel activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005261 ! cation channel activity [Term] id: GO:0005272 name: sodium channel activity namespace: molecular_function is_a: GO:0005261 ! cation channel activity [Term] id: GO:0005274 name: allantoin permease activity namespace: molecular_function def: "Catalysis of the reaction: allantoin(out) + H+(out) = allantoin(in) + H+(in)." [TC:2.A.39.3.1] broad_synonym: "allantoin/allantoate transporter" [] xref_analog: TC:2.A.39.3.1 is_a: GO:0015206 ! allantoin transporter activity is_a: GO:0015391 ! nucleobase:cation symporter activity [Term] id: GO:0005275 name: amine transporter activity namespace: molecular_function def: "Enables the directed movement of amines, including polyamines, into, out of, within or between cells. Amines are organic compounds that are weakly basic in character and contain an amino (-NH2) or substituted amino group." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "amine/polyamine transporter activity" [] narrow_synonym: "polyamine transporter activity" [] broad_synonym: "amine/amide/polyamine channel activity" [] is_a: GO:0005215 ! transporter activity [Term] id: GO:0005276 name: hydrogen:vesicular amine antiporter activity namespace: molecular_function is_a: GO:0005275 ! amine transporter activity is_a: GO:0015299 ! solute:hydrogen antiporter activity [Term] id: GO:0005277 name: acetylcholine transporter activity namespace: molecular_function def: "Enables the directed movement of acetylcholine into, out of, within or between cells. Acetylcholine is an acetic acid ester of the organic base choline and functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions." [GOC:ai] is_a: GO:0005275 ! amine transporter activity is_a: GO:0005326 ! neurotransmitter transporter activity [Term] id: GO:0005278 name: acetylcholine:hydrogen antiporter activity namespace: molecular_function def: "Catalysis of the reaction: H+(out) + acetylcholine(in) = H+(in) + acetylcholine(out)." [TC:2.A.1.2.13] exact_synonym: "acetylcholine:proton antiporter" [] xref_analog: TC:2.A.1.2.13 is_a: GO:0005277 ! acetylcholine transporter activity is_a: GO:0015299 ! solute:hydrogen antiporter activity [Term] id: GO:0005279 name: amino acid-polyamine transporter activity namespace: molecular_function subset: gosubset_prok xref_analog: TC:2.A.3.-.- is_a: GO:0015171 ! amino acid transporter activity is_a: GO:0015203 ! polyamine transporter activity is_a: GO:0015291 ! porter activity [Term] id: GO:0005280 name: hydrogen:amino acid symporter activity namespace: molecular_function def: "Catalysis of the reaction: amino acid(out) + H+(out) = amino acid(in) + H+(in)." [GOC:ai] subset: gosubset_prok broad_synonym: "cation/amino acid symporter" [] is_a: GO:0005416 ! cation:amino acid symporter activity is_a: GO:0015295 ! solute:hydrogen symporter activity [Term] id: GO:0005281 name: general amino acid permease activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'amino acid permease activity ; GO:0015359'. broad_synonym: "general amino acid transporter" [] is_obsolete: true [Term] id: GO:0005283 name: sodium:amino acid symporter activity namespace: molecular_function alt_id: GO:0005285 def: "Catalysis of the reaction: amino acid(out) + Na+(out) = amino acid(in) + Na+(in)." [GOC:ai] subset: gosubset_prok exact_synonym: "sodium/amino acid transporter" [] exact_synonym: "sodium/excitatory amino acid cotransporter activity" [] exact_synonym: "sodium/excitatory amino acid symporter activity" [] exact_synonym: "sodium:amino acid transporter activity" [] narrow_synonym: "glutamate/aspartate:sodium symporter activity" [] narrow_synonym: "isoleucine/valine:sodium symporter activity" [] narrow_synonym: "threonine/serine:sodium symporter activity" [] is_a: GO:0005343 ! organic acid:sodium symporter activity is_a: GO:0005416 ! cation:amino acid symporter activity [Term] id: GO:0005284 name: insulin-activated sodium:amino acid symporter activity namespace: molecular_function exact_synonym: "insulin-activated sodium/amino acid transporter activity" [] exact_synonym: "insulin-activated sodium:amino acid transporter activity" [] is_a: GO:0005283 ! sodium:amino acid symporter activity [Term] id: GO:0005286 name: basic amino acid permease activity namespace: molecular_function def: "Catalysis of the stereospecific transfer of basic amino acids, amino acids with a pH greater than 7, across a biological membrane." [GOC:ai] subset: gosubset_prok xref_analog: TC:2.A.3.10.11 is_a: GO:0015174 ! basic amino acid transporter activity is_a: GO:0015359 ! amino acid permease activity [Term] id: GO:0005287 name: high-affinity basic amino acid transporter activity namespace: molecular_function is_a: GO:0005286 ! basic amino acid permease activity [Term] id: GO:0005288 name: arginine permease activity namespace: molecular_function def: "Catalysis of the stereospecific transfer of arginine, 2-amino-5-guanidinopentanoic acid, across a biological membrane." [ISBN:0198506732] xref_analog: TC:2.A.3.10.4 is_a: GO:0005286 ! basic amino acid permease activity is_a: GO:0015181 ! L-arginine transporter activity [Term] id: GO:0005289 name: high-affinity arginine transporter activity namespace: molecular_function is_a: GO:0005287 ! high-affinity basic amino acid transporter activity is_a: GO:0015181 ! L-arginine transporter activity [Term] id: GO:0005290 name: L-histidine transporter activity namespace: molecular_function def: "Enables the directed movement of L-histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid, into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "histidine/arginine/lysine/ornithine porter activity" [] is_a: GO:0015174 ! basic amino acid transporter activity is_a: GO:0015179 ! L-amino acid transporter activity [Term] id: GO:0005291 name: high affinity histidine permease activity namespace: molecular_function xref_analog: TC:2.A.3.10.1 is_a: GO:0005287 ! high-affinity basic amino acid transporter activity is_a: GO:0005290 ! L-histidine transporter activity [Term] id: GO:0005292 name: high-affinity lysine transporter activity namespace: molecular_function is_a: GO:0005287 ! high-affinity basic amino acid transporter activity is_a: GO:0015189 ! L-lysine transporter activity [Term] id: GO:0005293 name: lysine permease activity namespace: molecular_function def: "Catalysis of the stereospecific transfer of lysine, 2,6-diaminohexanoic acid, across a biological membrane." [GOC:ai] subset: gosubset_prok xref_analog: TC:2.A.3.10.10 is_a: GO:0005286 ! basic amino acid permease activity is_a: GO:0015189 ! L-lysine transporter activity [Term] id: GO:0005294 name: neutral L-amino acid porter activity namespace: molecular_function subset: gosubset_prok xref_analog: TC:2.A.3.8.- is_a: GO:0005279 ! amino acid-polyamine transporter activity is_a: GO:0015175 ! neutral amino acid transporter activity [Term] id: GO:0005295 name: neutral amino acid:sodium symporter activity namespace: molecular_function alt_id: GO:0005282 def: "Catalysis of the reaction: neutral amino acid(out) + Na+(out) = neutral amino acid(in) + Na+(in)." [TC:2.A.23.3.1] broad_synonym: "neutral amino acid-sodium cotransporter" [] broad_synonym: "sodium/neutral amino acid transporter" [] xref_analog: TC:2.A.23.3.1 is_a: GO:0005283 ! sodium:amino acid symporter activity is_a: GO:0015175 ! neutral amino acid transporter activity [Term] id: GO:0005296 name: L-proline permease activity namespace: molecular_function xref_analog: TC:2.A.3.10.3 is_a: GO:0005279 ! amino acid-polyamine transporter activity is_a: GO:0015193 ! L-proline transporter activity [Term] id: GO:0005297 name: hydrogen:proline symporter activity namespace: molecular_function def: "Catalysis of the reaction: proline(out) + H+(out) = proline(in) + H+(in)." [GOC:ai] broad_synonym: "hydrogen/proline transporter" [] is_a: GO:0005280 ! hydrogen:amino acid symporter activity is_a: GO:0015193 ! L-proline transporter activity [Term] id: GO:0005298 name: proline:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: proline(out) + Na+(out) = proline(in) + Na+(in)." [TC:2.A.22.2.1] subset: gosubset_prok exact_synonym: "sodium/proline symporter" [] xref_analog: TC:2.A.22.2.1 is_a: GO:0005283 ! sodium:amino acid symporter activity is_a: GO:0015193 ! L-proline transporter activity [Term] id: GO:0005299 name: L-tryptophan permease activity namespace: molecular_function xref_analog: TC:2.A.3.10.8 xref_analog: TC:2.A.42.1.2 is_a: GO:0015196 ! L-tryptophan transporter activity [Term] id: GO:0005300 name: high-affinity tryptophan transporter activity namespace: molecular_function is_a: GO:0005299 ! L-tryptophan permease activity [Term] id: GO:0005301 name: valine/tyrosine/tryptophan permease activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a multifunctional gene product. To update annotations, consider the molecular function terms 'L-tryptophan transporter activity ; GO:0015196', 'L-tyrosine transporter activity ; GO:0005302', 'L-valine transporter activity ; GO:0005304', and 'permease activity ; GO:0015646'. exact_synonym: "hydrogen/valine-tyrosine-tryptophan transporter" [] is_obsolete: true [Term] id: GO:0005302 name: L-tyrosine transporter activity namespace: molecular_function def: "Enables the directed movement of L-tyrosine, 2-amino-3-(4-hydroxyphenyl)propanoic acid, into, out of, within or between cells." [GOC:ai] subset: gosubset_prok related_synonym: "valine/tyrosine/tryptophan permease activity" [] is_a: GO:0015173 ! aromatic amino acid transporter activity is_a: GO:0015179 ! L-amino acid transporter activity [Term] id: GO:0005304 name: L-valine transporter activity namespace: molecular_function def: "Enables the directed movement of L-valine, 2-amino-3-methylbutanoic acid, into, out of, within or between cells." [GOC:ai] narrow_synonym: "isoleucine/valine:sodium symporter activity" [] narrow_synonym: "leucine/isoleucine/valine porter activity" [] narrow_synonym: "leucine/valine/isoleucine permease activity" [] narrow_synonym: "valine/tyrosine/tryptophan permease activity" [] is_a: GO:0015175 ! neutral amino acid transporter activity is_a: GO:0015179 ! L-amino acid transporter activity [Term] id: GO:0005306 name: choline permease activity namespace: molecular_function xref_analog: TC:2.A.3.4.1 is_a: GO:0015220 ! choline transporter activity [Term] id: GO:0005307 name: choline:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: choline(out) + Na+(out) = choline(in) + Na+(in)." [TC:2.A.22.3.5] exact_synonym: "sodium/choline symporter" [] xref_analog: TC:2.A.22.3.5 is_a: GO:0015220 ! choline transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005308 name: creatine transporter activity namespace: molecular_function def: "Enables the directed movement of creatine into, out of, within or between cells. Creatine is a compound synthesized from the amino acids arginine, glycine, and methionine that occurs in muscle." [GOC:ai] is_a: GO:0051184 ! cofactor transporter activity [Term] id: GO:0005309 name: creatine:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: creatine(out) + Na+(out) = creatine(in) + Na+(in)." [TC:2.A.22.3.4] broad_synonym: "sodium/chloride-dependent creatine transporter" [] xref_analog: TC:2.A.22.3.4 is_a: GO:0005308 ! creatine transporter activity is_a: GO:0005328 ! neurotransmitter:sodium symporter activity [Term] id: GO:0005310 name: dicarboxylic acid transporter activity namespace: molecular_function alt_id: GO:0005312 def: "Enables the directed movement of dicarboxylic acids into, out of, within or between cells. A dicarboxylic acid is an organic acid with two COOH groups." [GOC:ai] subset: gosubset_prok narrow_synonym: "dicarboxylate (succinate/fumarate/malate) antiporter activity" [] narrow_synonym: "dicarboxylate carrier" [] narrow_synonym: "sodium:dicarboxylate/tricarboxylate symporter activity" [] is_a: GO:0046943 ! carboxylic acid transporter activity [Term] id: GO:0005311 name: sodium:dicarboxylate/tricarboxylate symporter activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: (dicarboxylate or tricarboxylate)(out) + Na+(out) = (dicarboxylate or tricarboxylate)(in) + Na+(in)." [TC:2.A.47.1.5] comment: This term was made obsolete because it represents a multifunctional gene product. To update annotations, consider the molecular function terms 'dicarboxylic acid transporter activity ; GO:0005310', 'tricarboxylic acid transporter activity ; GO:0015142', and 'organic acid:sodium symporter activity ; GO:0005343'. exact_synonym: "sodium:dicarboxylate/tricarboxylate cotransporter activity" [] is_obsolete: true [Term] id: GO:0005313 name: L-glutamate transporter activity namespace: molecular_function def: "Enables the directed movement of L-glutamate, the anion of 2-aminopentanedioic acid, into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "glutamate/aspartate porter activity" [] narrow_synonym: "glutamate/aspartate:sodium symporter activity" [] is_a: GO:0015172 ! acidic amino acid transporter activity is_a: GO:0015179 ! L-amino acid transporter activity [Term] id: GO:0005314 name: high-affinity glutamate transporter activity namespace: molecular_function def: "Catalysis of the reaction: glutamate(out) + H+(out) = glutamate(in) + H+(in)." [TC:2.A.3.10.5] xref_analog: TC:2.A.3.10.5 is_a: GO:0005279 ! amino acid-polyamine transporter activity is_a: GO:0005313 ! L-glutamate transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005315 name: inorganic phosphate transporter activity namespace: molecular_function alt_id: GO:0005317 subset: gosubset_prok xref_analog: TC:2.A.20.-.- xref_analog: TC:2.A.47.2.1 is_a: GO:0015114 ! phosphate transporter activity is_a: GO:0015291 ! porter activity [Term] id: GO:0005316 name: high affinity inorganic phosphate:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: HPO42-(out) + Na+(out) = HPO42-(in) + Na+(in)." [TC:2.A.20.2.2] broad_synonym: "sodium/phosphate cotransporter" [] xref_analog: TC:2.A.20.2.2 is_a: GO:0005436 ! sodium:phosphate symporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005318 name: phosphate:hydrogen symporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: To update annotations, consider the molecular function term 'phosphate:hydrogen symporter activity ; GO:0015317'. exact_synonym: "phosphate:proton symporter" [] is_obsolete: true [Term] id: GO:0005319 name: lipid transporter activity namespace: molecular_function def: "Enables the directed movement of lipids into, out of, within or between cells." [GOC:ai] subset: gosubset_prok related_synonym: "apolipoprotein" [] related_synonym: "high-density lipoprotein" [] related_synonym: "low-density lipoprotein" [] related_synonym: "very-low-density lipoprotein" [] narrow_synonym: "lipophorin" [] is_a: GO:0005215 ! transporter activity [Term] id: GO:0005320 name: apolipoprotein namespace: molecular_function alt_id: GO:0015907 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, consider the molecular function term 'lipid transporter activity ; GO:0005319'. is_obsolete: true [Term] id: GO:0005321 name: high-density lipoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, use the molecular function term 'lipid transporter activity ; GO:0005319'. exact_synonym: "HDL" [] is_obsolete: true [Term] id: GO:0005322 name: low-density lipoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, use the molecular function term 'lipid transporter activity ; GO:0005319'. exact_synonym: "LDL" [] is_obsolete: true [Term] id: GO:0005323 name: very-low-density lipoprotein namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it does not represent a molecular function. To update annotations, use the molecular function term 'lipid transporter activity ; GO:0005319'. exact_synonym: "VLDL" [] is_obsolete: true [Term] id: GO:0005324 name: long-chain fatty acid transporter activity namespace: molecular_function def: "Enables the directed movement of long-chain fatty acids into, out of, within or between cells. Long-chain fatty acids have a chain length of greater than 12 carbons." [ISBN:0198506732] subset: gosubset_prok narrow_synonym: "plasma membrane long-chain fatty acid transporter" [] is_a: GO:0015245 ! fatty acid transporter activity [Term] id: GO:0005325 name: peroxisomal fatty acyl CoA transporter activity namespace: molecular_function alt_id: GO:0008562 def: "Catalysis of the reaction: ATP + H2O + fatty acyl CoA(cis) = ADP + phosphate + fatty acyl CoA(trans). The transport of fatty acyl CoA into and out of peroxisomes." [EC:3.6.3.47] broad_synonym: "fatty-acyl-CoA-transporting ATPase" [] xref_analog: EC:3.6.3.47 xref_analog: TC:3.A.1.203.2 is_a: GO:0005324 ! long-chain fatty acid transporter activity is_a: GO:0015607 ! fatty acyl CoA transporter activity [Term] id: GO:0005326 name: neurotransmitter transporter activity namespace: molecular_function def: "Enables the directed movement of a neurotransmitter into, out of, within or between cells. Neurotransmitters are any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell." [GOC:ai, ISBN:0198506732] subset: goslim_generic subset: gosubset_prok is_a: GO:0005215 ! transporter activity [Term] id: GO:0005328 name: neurotransmitter:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: neurotransmitter(out) + Na+(out) = neurotransmitter(in) + Na+(in)." [TC:2.A.22.-.-] subset: gosubset_prok exact_synonym: "sodium/neurotransmitter symporter" [] xref_analog: TC:2.A.22.-.- is_a: GO:0005326 ! neurotransmitter transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005329 name: dopamine transporter activity namespace: molecular_function def: "Enables the directed movement of dopamine into, out of, within or between cells. Dopamine is a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline." [GOC:ai] is_a: GO:0005275 ! amine transporter activity is_a: GO:0015238 ! drug transporter activity [Term] id: GO:0005330 name: dopamine:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: dopamine(out) + Na+(out) = dopamine(in) + Na+(in)." [TC:2.A.22.1.3] exact_synonym: "sodium/dopamine symporter" [] xref_analog: TC:2.A.22.1.3 is_a: GO:0005328 ! neurotransmitter:sodium symporter activity is_a: GO:0005329 ! dopamine transporter activity [Term] id: GO:0005332 name: gamma-aminobutyric acid:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: gamma-aminobutyric acid(out) + Na+(out) = gamma-aminobutyric acid(in) + Na+(in)." [TC:2.A.22.3.2] comment: See also the molecular function term 'neurotransmitter:sodium symporter activity ; GO:0005328'. related_synonym: "sodium/chloride-dependent GABA transporter" [] exact_synonym: "4-aminobutanoate:sodium symporter activity" [] exact_synonym: "4-aminobutyrate:sodium symporter activity" [] exact_synonym: "betaine/GABA:sodium symporter activity" [] exact_synonym: "GABA:sodium symporter activity" [] xref_analog: TC:2.A.22.3.2 is_a: GO:0005283 ! sodium:amino acid symporter activity is_a: GO:0015185 ! L-gamma-aminobutyric acid transporter activity [Term] id: GO:0005333 name: norepinephrine transporter activity namespace: molecular_function def: "Enables the directed movement of norepinephrine into, out of, within or between cells. Norepinephrine (3,4-dihydroxyphenyl-2-aminoethanol) is a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [ISBN:0198506732] exact_synonym: "levarterenol transporter" [] exact_synonym: "noradrenaline transporter" [] is_a: GO:0005275 ! amine transporter activity is_a: GO:0005326 ! neurotransmitter transporter activity [Term] id: GO:0005334 name: norephinephrine:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: norepinephrine(out) + Na+(out) = norepinephrine(in) + Na+(in)." [TC:2.A.22.1.2] exact_synonym: "noradrenaline:sodium symporter activity" [] exact_synonym: "sodium/norepinephrine symporter" [] xref_analog: TC:2.A.22.1.2 is_a: GO:0005328 ! neurotransmitter:sodium symporter activity is_a: GO:0005333 ! norepinephrine transporter activity [Term] id: GO:0005335 name: serotonin:sodium symporter activity namespace: molecular_function alt_id: GO:0005336 def: "Catalysis of the reaction: serotonin(out) + Na+(out) = serotonin(in) + Na+(in)." [TC:2.A.22.1.1] exact_synonym: "sodium/serotonin symporter" [] xref_analog: TC:2.A.22.1.1 is_a: GO:0005328 ! neurotransmitter:sodium symporter activity [Term] id: GO:0005337 name: nucleoside transporter activity namespace: molecular_function def: "Enables the directed movement of a nucleoside, a nucleobase linked to either beta-D-ribofuranose (ribonucleoside) or 2-deoxy-beta-D-ribofuranose, (a deoxyribonucleotide), into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "intracellular nucleoside transporter activity" [] xref_analog: Reactome:114657 xref_analog: Reactome:117115 xref_analog: Reactome:117189 xref_analog: Reactome:119835 xref_analog: Reactome:122273 xref_analog: Reactome:122357 xref_analog: Reactome:124299 xref_analog: Reactome:124394 xref_analog: Reactome:14083 xref_analog: Reactome:83932 xref_analog: Reactome:83934 is_a: GO:0015932 ! nucleobase, nucleoside, nucleotide and nucleic acid transporter activity [Term] id: GO:0005338 name: nucleotide-sugar transporter activity namespace: molecular_function alt_id: GO:0005339 def: "Enables the directed movement of nucleotide-sugars into, out of, within or between cells. A nucleotide-sugars is any nucleotide in which the distal phosphoric residue of a nucleoside 5'-diphosphate is in glycosidic linkage with a monosaccharide or monosaccharide derivative." [GOC:ai] is_a: GO:0015144 ! carbohydrate transporter activity [Term] id: GO:0005340 name: nucleotide-sulfate transporter activity namespace: molecular_function alt_id: GO:0005341 exact_synonym: "nucleotide-sulphate transporter activity" [] is_a: GO:0015116 ! sulfate transporter activity [Term] id: GO:0005342 name: organic acid transporter activity namespace: molecular_function def: "Enables the directed movement of organic acids, any acidic compound containing carbon in covalent linkage, into, out of, within or between cells." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0005215 ! transporter activity [Term] id: GO:0005343 name: organic acid:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: organic acid(out) + Na+(out) = organic acid(in) + Na+(in)." [TC:2.A.28.1.1] subset: gosubset_prok narrow_synonym: "sodium/chloride-dependent organic acid cotransporter" [] narrow_synonym: "sodium:dicarboxylate/tricarboxylate symporter activity" [] xref_analog: TC:2.A.28.-.- is_a: GO:0005342 ! organic acid transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005344 name: oxygen transporter activity namespace: molecular_function alt_id: GO:0015033 def: "Enables the directed movement of oxygen into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "globin" [] narrow_synonym: "hemerythrin" [] narrow_synonym: "hemocyanin" [] narrow_synonym: "oxygen-carrying" [] is_a: GO:0005215 ! transporter activity [Term] id: GO:0005345 name: purine transporter activity namespace: molecular_function def: "Enables the directed movement of purines, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, into, out of, within or between cells." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0015205 ! nucleobase transporter activity [Term] id: GO:0005346 name: purine ribonucleotide transporter activity namespace: molecular_function def: "Enables the directed movement of a purine ribonucleotide, any compound consisting of a purine ribonucleoside (a purine organic base attached to a ribose sugar) esterified with (ortho)phosphate, into, out of or within a cell." [GOC:ai] is_a: GO:0015216 ! purine nucleotide transporter activity [Term] id: GO:0005347 name: ATP transporter activity namespace: molecular_function alt_id: GO:0005348 def: "Enables the directed movement of ATP, adenosine triphosphate, into, out of, within or between cells." [GOC:ai] is_a: GO:0000295 ! adenine nucleotide transporter activity [Term] id: GO:0005350 name: pyrimidine transporter activity namespace: molecular_function def: "Enables the directed movement of pyrimidines, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, into, out of, within or between cells." [GOC:ai] subset: gosubset_prok is_a: GO:0015205 ! nucleobase transporter activity [Term] id: GO:0005351 name: sugar porter activity namespace: molecular_function def: "Catalysis of the reaction: sugar(out) + H+(out) = sugar(in) + H+(in)." [TC:2.A.1.1.-] subset: gosubset_prok broad_synonym: "sugar transporter" [] xref_analog: TC:2.A.1.1.- is_a: GO:0015291 ! porter activity is_a: GO:0051119 ! sugar transporter activity [Term] id: GO:0005352 name: alpha-glucoside:hydrogen symporter activity namespace: molecular_function def: "Catalysis of the reaction: alpha-glucoside(out) + H+(out) = alpha-glucoside(in) + H+(in). Alpha-glucosides include trehalose, maltose, turanose, isomaltose, alpha-methylglucoside, maltotriose, palatinose, trehalose and melezitose." [TC:2.A.1.1.11] exact_synonym: "general alpha-glucoside:hydrogen symporter activity" [] exact_synonym: "general alpha-glucoside:proton symporter activity" [] broad_synonym: "general alpha-glucoside transporter activity" [] xref_analog: TC:2.A.1.1.11 is_a: GO:0005402 ! cation:sugar symporter activity is_a: GO:0015151 ! alpha-glucoside transporter activity is_a: GO:0015295 ! solute:hydrogen symporter activity [Term] id: GO:0005353 name: fructose transporter activity namespace: molecular_function def: "Enables the directed movement of fructose into, out of, within or between cells. Fructose exists in a open chain form or as a ring compound. D-fructose is the sweetest of the sugars and is found free in a large number of fruits and honey." [GOC:ai] subset: gosubset_prok is_a: GO:0015149 ! hexose transporter activity [Term] id: GO:0005354 name: galactose transporter activity namespace: molecular_function def: "Enables the directed movement of galactose into, out of, within or between cells. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose." [GOC:ai] subset: gosubset_prok narrow_synonym: "galactose/glucose (methylgalactoside) porter activity" [] is_a: GO:0015149 ! hexose transporter activity [Term] id: GO:0005355 name: glucose transporter activity namespace: molecular_function def: "Enables the directed movement of the hexose monosaccharide glucose into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "galactose/glucose (methylgalactoside) porter activity" [] narrow_synonym: "lactose/glucose efflux transporter activity" [] xref_analog: Reactome:114802 xref_analog: Reactome:114806 xref_analog: Reactome:114811 xref_analog: Reactome:114816 xref_analog: Reactome:117235 xref_analog: Reactome:117239 xref_analog: Reactome:117244 xref_analog: Reactome:117249 xref_analog: Reactome:119957 xref_analog: Reactome:119961 xref_analog: Reactome:119966 xref_analog: Reactome:122390 xref_analog: Reactome:122394 xref_analog: Reactome:124441 xref_analog: Reactome:124445 xref_analog: Reactome:124450 xref_analog: Reactome:14118 xref_analog: Reactome:70385 xref_analog: Reactome:70401 xref_analog: Reactome:70409 xref_analog: Reactome:70423 is_a: GO:0015149 ! hexose transporter activity [Term] id: GO:0005356 name: hydrogen:glucose transporter activity namespace: molecular_function is_a: GO:0005403 ! hydrogen:sugar symporter activity [Term] id: GO:0005357 name: constitutive hydrogen:glucose transporter activity namespace: molecular_function exact_synonym: "constitutive hydrogen/glucose transporter" [] is_a: GO:0005356 ! hydrogen:glucose transporter activity [Term] id: GO:0005358 name: high-affinity hydrogen:glucose transporter activity namespace: molecular_function exact_synonym: "high-affinity hydrogen/glucose transporter" [] is_a: GO:0005356 ! hydrogen:glucose transporter activity [Term] id: GO:0005359 name: low-affinity hydrogen:glucose transporter activity namespace: molecular_function exact_synonym: "low-affinity hydrogen/glucose transporter" [] is_a: GO:0005356 ! hydrogen:glucose transporter activity [Term] id: GO:0005360 name: insulin-responsive hydrogen:glucose transporter activity namespace: molecular_function related_synonym: "transepithelial hydrogen/glucose transporter" [] is_a: GO:0005356 ! hydrogen:glucose transporter activity [Term] id: GO:0005361 name: transepithelial hydrogen:glucose transporter activity namespace: molecular_function exact_synonym: "transepithelial hydrogen/glucose transporter" [] is_a: GO:0005356 ! hydrogen:glucose transporter activity [Term] id: GO:0005362 name: low-affinity glucose:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: glucose(out) + Na+(out) = glucose(in) + Na+(in)." [TC:2.A.21.3.-] broad_synonym: "low-affinity glucose-sodium cotransporter" [] is_a: GO:0005412 ! glucose:sodium symporter activity [Term] id: GO:0005363 name: maltose transporter activity namespace: molecular_function def: "Enables the directed movement of maltose into, out of, within or between cells. Maltose is the disaccharide 4-O-alpha-D-glucopyranosyl-D-glucopyranose, an intermediate in the enzymatic breakdown of glycogen and starch." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0015154 ! disaccharide transporter activity [Term] id: GO:0005364 name: maltose:hydrogen symporter activity namespace: molecular_function def: "Catalysis of the reaction: maltose(out) + H+(out) = maltose(in) + H+(in)." [TC:2.A.1.1.10] exact_synonym: "maltose:proton symporter" [] narrow_synonym: "hydrogen/maltose transporter" [] broad_synonym: "maltose permease" [] xref_analog: TC:2.A.1.1.10 is_a: GO:0005363 ! maltose transporter activity is_a: GO:0005403 ! hydrogen:sugar symporter activity [Term] id: GO:0005365 name: myo-inositol transporter activity namespace: molecular_function def: "Enables the directed movement of myo-inositol into, out of, within or between cells. Myo-inositol is 1,2,3,4,5/4,6-cyclohexanehexol, a growth factor for animals and microorganisms." [GOC:ai] subset: gosubset_prok exact_synonym: "vitamin Bh transporter activity" [] is_a: GO:0015166 ! polyol transporter activity [Term] id: GO:0005366 name: myo-inositol:hydrogen symporter activity namespace: molecular_function def: "Catalysis of the reaction: myo-inositol(out) + H+(out) = myo-inositol(in) + H+(in)." [TC:2.A.1.1.8] exact_synonym: "myo-inositol:proton symporter" [] broad_synonym: "hydrogen/myo-inositol transporter" [] xref_analog: TC:2.A.1.1.8 is_a: GO:0005365 ! myo-inositol transporter activity is_a: GO:0005402 ! cation:sugar symporter activity is_a: GO:0015295 ! solute:hydrogen symporter activity [Term] id: GO:0005367 name: myo-inositol:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: myo-inositol(out) + Na+(out) = myo-inositol(in) + Na+(in)." [TC:2.A.21.4.-] broad_synonym: "myo-inositol-sodium cotransporter" [] xref_analog: TC:2.A.21.4.- is_a: GO:0005365 ! myo-inositol transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005368 name: taurine transporter activity namespace: molecular_function def: "Enables the directed movement of taurine into, out of, within or between cells. Taurine (2-aminoethanesulfonic acid) is a sulphur-containing amino acid derivative which is important in the metabolism of fats." [GOC:ai] subset: gosubset_prok is_a: GO:0005275 ! amine transporter activity is_a: GO:0008028 ! monocarboxylic acid transporter activity [Term] id: GO:0005369 name: taurine:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: taurine(out) + Na+(out) = taurine(in) + Na+(in)." [TC:2.A.22.3.3] broad_synonym: "sodium/chloride-dependent taurine transporter" [] xref_analog: TC:2.A.22.3.3 is_a: GO:0005328 ! neurotransmitter:sodium symporter activity is_a: GO:0005343 ! organic acid:sodium symporter activity is_a: GO:0005368 ! taurine transporter activity [Term] id: GO:0005371 name: tricarboxylate carrier activity namespace: molecular_function alt_id: GO:0005370 subset: gosubset_prok exact_synonym: "citrate carrier" [] xref_analog: TC:2.A.29.7.1 xref_analog: TC:2.A.54.1.1 is_a: GO:0015291 ! porter activity [Term] id: GO:0005372 name: water transporter activity namespace: molecular_function def: "Enables the directed movement of water (H2O) into, out of, within or between cells." [GOC:ai] subset: gosubset_prok is_a: GO:0005215 ! transporter activity [Term] id: GO:0005373 name: heavy metal ion porter activity namespace: molecular_function def: "OBSOLETE. A transporter of heavy metal ions that utilizes a carrier-mediated process to catalyze uniport, symport or antiport between aqueous phases on either side of a lipid membrane." [GOC:ai] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the molecular function term 'porter activity ; GO:0015291' and 'metal ion transporter activity ; GO:0046873' and its children. broad_synonym: "metal ion transporter" [] is_obsolete: true [Term] id: GO:0005375 name: copper ion transporter activity namespace: molecular_function alt_id: GO:0005378 alt_id: GO:0005379 alt_id: GO:0005380 def: "Enables the directed movement of copper (Cu) ions into, out of, within or between cells." [GOC:ai] subset: gosubset_prok narrow_synonym: "intracellular copper ion transporter" [] narrow_synonym: "plasma membrane copper transporter" [] is_a: GO:0015082 ! di-, tri-valent inorganic cation transporter activity is_a: GO:0046915 ! transition metal ion transporter activity [Term] id: GO:0005376 name: plasma membrane copper transporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'plasma membrane ; GO:0005886' and the molecular function term 'copper ion transporter activity ; GO:0005375'. is_obsolete: true [Term] id: GO:0005377 name: intracellular copper ion transporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, use the cellular component term 'intracellular ; GO:0005622' and the molecular function term 'copper ion transporter activity ; GO:0005375'. exact_synonym: "intracellular copper transporter" [] is_obsolete: true [Term] id: GO:0005381 name: iron ion transporter activity namespace: molecular_function alt_id: GO:0016033 def: "Enables the directed movement of iron (Fe) ions into, out of, within or between cells." [GOC:ai] subset: gosubset_prok related_synonym: "multicopper ferroxidase iron transport mediator activity" [] related_synonym: "zinc, iron permease activity" [] exact_synonym: "iron transporter" [] is_a: GO:0015082 ! di-, tri-valent inorganic cation transporter activity is_a: GO:0046915 ! transition metal ion transporter activity [Term] id: GO:0005382 name: transmembrane iron ion permease activity namespace: molecular_function exact_synonym: "transmembrane iron permease" [] is_a: GO:0005381 ! iron ion transporter activity [Term] id: GO:0005384 name: manganese ion transporter activity namespace: molecular_function def: "Enables the directed movement of manganese (Mn) ions into, out of, within or between cells." [GOC:df] subset: gosubset_prok is_a: GO:0015082 ! di-, tri-valent inorganic cation transporter activity is_a: GO:0046915 ! transition metal ion transporter activity [Term] id: GO:0005385 name: zinc ion transporter activity namespace: molecular_function def: "Enables the directed movement of zinc (Zn) ions into, out of, within or between cells." [GOC:df] subset: gosubset_prok narrow_synonym: "cobalt, zinc uptake permease activity" [] narrow_synonym: "zinc, cadmium uptake permease activity" [] narrow_synonym: "zinc, cadmium, cobalt, nickel, lead-efflux ATPase activity" [] narrow_synonym: "zinc, iron permease activity" [] is_a: GO:0015082 ! di-, tri-valent inorganic cation transporter activity is_a: GO:0046915 ! transition metal ion transporter activity [Term] id: GO:0005386 name: carrier activity namespace: molecular_function def: "Catalysis of the transfer of a specific substance or related group of substances from one side of the membrane to the other." [ISBN:0198506732] subset: goslim_goa subset: gosubset_prok exact_synonym: "carrier type transporter" [] is_a: GO:0005215 ! transporter activity [Term] id: GO:0005388 name: calcium-transporting ATPase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O + Ca2+(cis) = ADP + phosphate + Ca2+(trans)." [EC:3.6.3.8] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok exact_synonym: "calcium transporting ATPase activity" [] narrow_synonym: "calcium ABC transporter" [] narrow_synonym: "calcium efflux ATPase" [] narrow_synonym: "sarcoplasmic reticulum ATPase" [] broad_synonym: "calcium pump" [] xref_analog: EC:3.6.3.8 xref_analog: MetaCyc:3.6.3.8-RXN xref_analog: TC:3.A.3.2.1 xref_analog: TC:3.A.3.2.3 is_a: GO:0015085 ! calcium ion transporter activity is_a: GO:0015662 ! ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism is_a: GO:0019829 ! cation-transporting ATPase activity [Term] id: GO:0005391 name: sodium:potassium-exchanging ATPase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O + Na+(in) + K+(out) = ADP + phosphate + Na+(out) + K+(in)." [EC:3.6.3.9] comment: Consider also annotating to the molecular function term 'ATP binding ; GO:0005524'. subset: gosubset_prok exact_synonym: "sodium/potassium-exchanging ATPase activity" [] exact_synonym: "sodium:potassium exchanging ATPase activity" [] broad_synonym: "sodium pump" [] xref_analog: EC:3.6.3.9 xref_analog: MetaCyc:3.6.3.9-RXN xref_analog: TC:3.A.3.1.1 xref_analog: TC:3.A.3.1.2 is_a: GO:0015662 ! ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism [Term] id: GO:0005395 name: eye pigment precursor transporter activity namespace: molecular_function def: "Catalysis of the reaction: ATP + H2O + eye pigment precursor(in) = ADP + phosphate + eye pigment precursor(out)." [TC:3.A.1.204.1] xref_analog: TC:3.A.1.204.1 is_a: GO:0042626 ! ATPase activity, coupled to transmembrane movement of substances [Term] id: GO:0005396 name: transmembrane conductance regulator activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because its meaning was ambiguous, it was undefined and its position in the tree wrong. To update annotations, consider the biological process term 'negative regulation of potassium ion transport ; GO:0043267'. is_obsolete: true [Term] id: GO:0005400 name: peroxisomal membrane transporter namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it contains both component and function information. To update annotations, consider the cellular component term 'peroxisome ; GO:0005777' and the molecular function term 'transporter activity ; GO:0005215'. is_obsolete: true [Term] id: GO:0005402 name: cation:sugar symporter activity namespace: molecular_function def: "Catalysis of the reaction: sugar(out) + cation(out) = sugar(in) + cation(in)." [GOC:ai] subset: gosubset_prok exact_synonym: "cation/sugar symporter" [] is_a: GO:0005351 ! sugar porter activity is_a: GO:0015294 ! solute:cation symporter activity [Term] id: GO:0005403 name: hydrogen:sugar symporter activity namespace: molecular_function def: "Catalysis of the reaction: sugar(out) + H+(out) = sugar(in) + H+(in)." [GOC:ai] subset: gosubset_prok exact_synonym: "proton:sugar symporter activity" [] broad_synonym: "cation/sugar symporter activity" [] broad_synonym: "hydrogen:sugar transporter activity" [] is_a: GO:0005402 ! cation:sugar symporter activity is_a: GO:0015295 ! solute:hydrogen symporter activity [Term] id: GO:0005412 name: glucose:sodium symporter activity namespace: molecular_function def: "Catalysis of the reaction: glucose(out) + Na+(out) = glucose(in) + Na+(in)." [TC:2.A.21.3.-] exact_synonym: "sodium/glucose symporter" [] xref_analog: TC:2.A.21.3.- is_a: GO:0005355 ! glucose transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005415 name: nucleoside:sodium symporter activity namespace: molecular_function alt_id: GO:0008522 def: "Catalysis of the reaction: nucleoside(out) + Na+(out) = nucleoside(in) + Na+(in)." [GOC:ai] subset: gosubset_prok broad_synonym: "nucleoside-sodium cotransporter" [] broad_synonym: "sodium-dependent nucleoside transporter" [] xref_analog: Reactome:114385 xref_analog: Reactome:114765 xref_analog: Reactome:116742 xref_analog: Reactome:117194 xref_analog: Reactome:117198 xref_analog: Reactome:119472 xref_analog: Reactome:121989 xref_analog: Reactome:124011 xref_analog: Reactome:124399 xref_analog: Reactome:14944 xref_analog: Reactome:83907 xref_analog: Reactome:83913 xref_analog: Reactome:83917 is_a: GO:0005337 ! nucleoside transporter activity is_a: GO:0015370 ! solute:sodium symporter activity [Term] id: GO:0005416 name: cation:amino acid symporter activity namespace: molecular_function def: "Catalysis of the reaction: amino acid(out) + cation(out) = amino acid(in) + cation(in)." [GOC:ai] subset: gosubset_prok exact_synonym: "cation/amino acid symporter" [] is_a: GO:0005279 ! amino acid-polyamine transporter activity is_a: GO:0015294 ! solute:cation symporter activity [Term] id: GO:0005427 name: proton-dependent oligopeptide transporter activity namespace: molecular_function subset: gosubset_prok related_synonym: "hydrogen/oligopeptide symporter" [] xref_analog: TC:2.A.17.-.- is_a: GO:0015198 ! oligopeptide transporter activity is_a: GO:0015291 ! porter activity [Term] id: GO:0005429 name: chromaffin granule amine transporter activity namespace: molecular_function is_a: GO:0005275 ! amine transporter activity [Term] id: GO:0005430 name: synaptic vesicle amine transporter activity namespace: molecular_function def: "Enables the directed movement of amines into, out of or within synaptic vesicles." [GOC:ai] is_a: GO:0005275 ! amine transporter activity [Term] id: GO:0005432 name: calcium:sodium antiporter activity namespace: molecular_function def: "Catalysis of the reaction: Ca2+(in) + Na+(out) = Ca2+(out) + Na+(in)." [UniProtKB:P70414] subset: gosubset_prok related_synonym: "mitochondrial sodium/calcium ion exchange" [] related_synonym: "sodium:calcium exchange" [] exact_synonym: "sodium/calcium exchanger" [] xref_analog: TC:2.A.19.3.1 is_a: GO:0015368 ! calcium:cation antiporter activity [Term] id: GO:0005436 name: sodium:phosphate symporter activity namespace: molecular_function def: "Catalysis of the reaction: Na+(out) + phosphate(out) = Na+(in) + phosphate(in)." [GOC:ai] subset: gosubset_prok exact_synonym: "sodium/phosphate symporter" [] is_a: GO:0015114 ! phosphate transporter activity is_a: GO:0015296 ! anion:cation symporter activity [Term] id: GO:0005451 name: monovalent cation:proton antiporter activity namespace: molecular_function def: "Catalysis of the reaction: monovalent cation(out) + H+(in) = monovalent cation(in) + H+(out)." [GOC:ai] subset: gosubset_prok xref_analog: TC:2.A.36.-.- xref_analog: TC:2.A.37.-.- is_a: GO:0015078 ! hydrogen ion transporter activity is_a: GO:0015491 ! cation:cation antiporter activity [Term] id: GO:0005452 name: inorganic anion exchanger activity namespace: molecular_function is_a: GO:0015380 ! anion exchanger activity [Term] id: GO:0005456 name: CMP-sialic acid transporter activity namespace: molecular_function def: "Enables the directed movement of CMP-sialic acid into, out of, within or between cells. CMP-sialic acid is a substance composed of sialic acid in glycosidic linkage with cytidine monophosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005457 name: GDP-fucose transporter activity namespace: molecular_function def: "Enables the directed movement of GDP-fucose into, out of, within or between cells. GDP-fucose is a substance composed of fucose in glycosidic linkage with guanosine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005458 name: GDP-mannose transporter activity namespace: molecular_function def: "Enables the directed movement of GDP-mannose into, out of, within or between cells. GDP-mannose is a substance composed of mannose in glycosidic linkage with guanosine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005459 name: UDP-galactose transporter activity namespace: molecular_function def: "Enables the directed movement of UDP-galactose into, out of, within or between cells. UDP-galactose is a substance composed of galactose in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005460 name: UDP-glucose transporter activity namespace: molecular_function def: "Enables the directed movement of UDP-glucose into, out of, within or between cells. UDP-glucose is a substance composed of glucose in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005461 name: UDP-glucuronic acid transporter activity namespace: molecular_function def: "Enables the directed movement of UDP-glucuronic acid into, out of, within or between cells. UDP-glucuronic acid is a substance composed of glucuronic acid in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005462 name: UDP-N-acetylglucosamine transporter activity namespace: molecular_function def: "Enables the directed movement of UDP-N-acetylglucosamine into, out of, within or between cells. N-acetylglucosamine is a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005463 name: UDP-N-acetylgalactosamine transporter activity namespace: molecular_function def: "Enables the directed movement of N-acetylgalactosamine into, out of, within or between cells. N-acetylgalactosamine is a substance composed of N-acetylgalactosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005464 name: UDP-xylose transporter activity namespace: molecular_function def: "Enables the directed movement of UDP-xylose into, out of, within or between cells. UDP-xylose is a substance composed of xylose in glycosidic linkage with uridine diphosphate." [GOC:ai] is_a: GO:0015165 ! pyrimidine nucleotide sugar transporter activity [Term] id: GO:0005468 name: small-molecule carrier or transporter namespace: molecular_function alt_id: GO:0005453 alt_id: GO:0005454 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it does not provide a useful functional classification. To update annotations, consider the molecular function term 'transporter activity ; GO:0005215' and its children. is_obsolete: true [Term] id: GO:0005469 name: succinate:fumarate antiporter activity namespace: molecular_function def: "Catalysis of the reaction: succinate(out) + fumarate(in) = succinate(in) + fumarate(out)." [TC:2.A.29.13.1] xref_analog: TC:2.A.29.13.1 is_a: GO:0015138 ! fumarate transporter activity is_a: GO:0015141 ! succinate transporter activity is_a: GO:0015297 ! antiporter activity [Term] id: GO:0005471 name: ATP:ADP antiporter activity namespace: molecular_function alt_id: GO:0005349 def: "Catalysis of the reaction: ATP(out) + ADP(in) = ATP(in) + ADP(out)." [TC:2.A.29.1.1] subset: gosubset_prok exact_synonym: "adenine nucleotide translocase" [] exact_synonym: "ADP/ATP translocase" [] exact_synonym: "ATP/ADP exchange" [] exact_synonym: "ATP/ADP exchanger" [] xref_analog: Reactome:114787 xref_analog: Reactome:114792 xref_analog: Reactome:117221 xref_analog: Reactome:117226 xref_analog: Reactome:119938 xref_analog: Reactome:119943 xref_analog: Reactome:119948 xref_analog: Reactome:122376 xref_analog: Reactome:122381 xref_analog: Reactome:124422 xref_analog: Reactome:124427 xref_analog: Reactome:124432 xref_analog: Reactome:15080 xref_analog: Reactome:77446 xref_analog: Reactome:77448 xref_analog: Reactome:77450 xref_analog: TC:2.A.29.1.1 is_a: GO:0015300 ! solute:solute antiporter activity [Term] id: GO:0005472 name: FAD carrier activity namespace: molecular_function exact_synonym: "flavin adenine dinucleotide carrier activity" [] exact_synonym: "flavin-adenine dinucleotide carrier activity" [] xref_analog: TC:2.A.29.10.1 is_a: GO:0015291 ! porter activity [Term] id: GO:0005476 name: carnitine:acyl carnitine antiporter activity namespace: molecular_function def: "Catalysis of the reaction: carnitine (mitochondrial) + acyl carnitine (cytoplasm) = carnitine (cytoplasm) + acyl carnitine (mitochondrial)." [PMID:9032458] exact_synonym: "carnitine/acyl carnitine carrier activity" [] exact_synonym: "carnitine:acyl carnitine carrier activity" [] exact_synonym: "fatty acyl carnitine carrier" [] xref_analog: TC:2.A.29.8.1 is_a: GO:0015300 ! solute:solute antiporter activity [Term] id: GO:0005477 name: pyruvate carrier activity namespace: molecular_function is_a: GO:0050833 ! pyruvate transporter activity [Term] id: GO:0005478 name: intracellular transporter activity namespace: molecular_function def: "Enables the directed movement of substances within a cell." [GOC:ai] subset: gosubset_prok is_a: GO:0005215 ! transporter activity [Term] id: GO:0005479 name: vacuolar assembly namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a biological process and not a molecular function. To update annotations, use the biological process term 'vacuole organization and biogenesis ; GO:0007033'. is_obsolete: true [Term] id: GO:0005480 name: vesicle transport namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a biological process and not a molecular function. To update annotations, use the biological process term 'vesicle-mediated transport ; GO:0016192'. is_obsolete: true [Term] id: GO:0005481 name: vesicle fusion namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a biological process and not a molecular function. To update annotations, consider the biological process terms 'vesicle fusion ; GO:0006906', 'vesicle fusion with nuclear membrane ; GO:0007086', 'synaptic vesicle to endosome fusion ; GO:0016189' or 'vesicle fusion with peroxisome ; GO:0019817' and the children of the biological process term 'vesicle-mediated transport ; GO:0016192'. is_obsolete: true [Term] id: GO:0005482 name: vesicle targeting namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a biological process and not a molecular function. To update annotations, consider the biological process terms 'synaptic vesicle targeting ; GO:GO:0016080' or 'vesicle targeting ; GO:0006903'. is_obsolete: true [Term] id: GO:0005483 name: soluble NSF attachment protein activity namespace: molecular_function def: "Interacting selectively with both N-ethylmaleimide-sensitive fusion protein (NSF) and a cis-SNARE complex (i.e. a SNARE complex in which all proteins are associated with the same membrane) and increasing the ATPase activity of NSF, thereby allowing ATP hydrolysis by NSF to disassemble the cis-SNARE complex." [GOC:mah, PMID:14570579, PMID:15556857] exact_synonym: "SNAP" [] is_a: GO:0005478 ! intracellular transporter activity [Term] id: GO:0005484 name: SNAP receptor activity namespace: molecular_function def: "Acting as a marker to identify a membrane and interacting selectively with one or more SNAREs on another membrane to mediate membrane fusion." [GOC:mah, PMID:14570579] exact_synonym: "SNARE" [] narrow_synonym: "SNAP-25" [] is_a: GO:0005478 ! intracellular transporter activity [Term] id: GO:0005485 name: v-SNARE activity namespace: molecular_function is_a: GO:0005484 ! SNAP receptor activity [Term] id: GO:0005486 name: t-SNARE activity namespace: molecular_function is_a: GO:0005484 ! SNAP receptor activity [Term] id: GO:0005487 name: nucleocytoplasmic transporter activity namespace: molecular_function def: "Enables the directed movement of substances between the nucleus and the cytoplasm of a cell." [GOC:ai] xref_analog: TC:9.A.14.-.- is_a: GO:0005478 ! intracellular transporter activity [Term] id: GO:0005488 name: binding namespace: molecular_function def: "The selective, often stoichiometric interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732] comment: Note that ligand is being used in its broadest biological sense. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok narrow_synonym: "ligand" [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0005489 name: electron transporter activity namespace: molecular_function def: "OBSOLETE. Enables the directed movement of electrons into, out of, within or between cells." [GOC:ai] comment: This term was made obsolete because the activity described by the definition does not exist. To update annotations, use the molecular function term 'electron carrier activity ; GO:0009055'. related_synonym: "class I cytochrome c" [] related_synonym: "class II cytochrome c" [] related_synonym: "class IIa cytochrome c" [] related_synonym: "class IIb cytochrome c" [] related_synonym: "class III cytochrome c" [] related_synonym: "class IV cytochrome c" [] related_synonym: "cytochrome b" [] related_synonym: "cytochrome b5" [] related_synonym: "cytochrome c3 (tetraheme)" [] related_synonym: "cytochrome c554" [] related_synonym: "cytochrome c7 (triheme)" [] related_synonym: "cytochrome d" [] related_synonym: "diheme class I cytochrome c" [] related_synonym: "electron transfer carrier" [] related_synonym: "flavin-containing electron transporter" [] related_synonym: "flavodoxin" [] related_synonym: "high-molecular-weight cytochrome c (hexadecaheme)" [] related_synonym: "monoheme class I cytochrome c" [] related_synonym: "nonaheme cytochrome c" [] related_synonym: "respiratory chain cytochrome b6" [] related_synonym: "Rieske iron-sulfur protein" [] is_obsolete: true [Term] id: GO:0005490 name: cytochrome P450 namespace: molecular_function def: "OBSOLETE. A cytochrome b that has a sulfur atom ligated to the iron of the prosthetic group (heme-thiolate); enzymes:typically monooxygenases acting on lipophilic substrates." [ISBN:0198547684] comment: This term was made obsolete because its definition was changed and because it represents a gene product. is_obsolete: true [Term] id: GO:0005496 name: steroid binding namespace: molecular_function def: "Interacting selectively with a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0005488 ! binding [Term] id: GO:0005497 name: androgen binding namespace: molecular_function def: "Interacting selectively with any androgen, male sex hormones." [GOC:jl, http://cancerweb.ncl.ac.uk/] is_a: GO:0005496 ! steroid binding is_a: GO:0042562 ! hormone binding [Term] id: GO:0005498 name: sterol carrier activity namespace: molecular_function subset: gosubset_prok is_a: GO:0005496 ! steroid binding [Term] id: GO:0005499 name: vitamin D binding namespace: molecular_function def: "Interacting selectively with vitamin D, a fat soluble vitamin that contributes to the maintenance of normal levels of calcium and phosphorus in the human bloodstream. Vitamin D is also known as calciferol and five different forms are known, including ergocalciferol and cholecalciferol." [GOC:ai] exact_synonym: "calciferol binding" [] narrow_synonym: "cholecalciferol binding" [] narrow_synonym: "ergocalciferol binding" [] is_a: GO:0005496 ! steroid binding is_a: GO:0019842 ! vitamin binding [Term] id: GO:0005500 name: juvenile hormone binding namespace: molecular_function def: "Interacting selectively with juvenile hormone, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:jl, ISBN:0198506732] is_a: GO:0042562 ! hormone binding [Term] id: GO:0005501 name: retinoid binding namespace: molecular_function def: "Interacting selectively with retinoids, any member of a class of isoprenoids that contain or are derived from four prenyl groups linked head-to-tail. Retinoids include retinol and retinal and structurally similar natural derivatives or synthetic compounds, but need not have vitamin A activity." [GOC:jl, ISBN:0198506732] is_a: GO:0019840 ! isoprenoid binding [Term] id: GO:0005502 name: 11-cis retinal binding namespace: molecular_function def: "Interacting selectively with 11-cis retinal, an isomer of retinal that plays an important role in the visual process in most vertebrates. 11-cis retinal combines with opsin in the rods (scotopsin) to form rhodopsin or visual purple. Retinal is one of the three compounds that makes up vitamin A." [http://cancerweb.ncl.ac.uk/] exact_synonym: "11-cis retinaldehyde binding" [] broad_synonym: "vitamin A binding" [] is_a: GO:0016918 ! retinal binding [Term] id: GO:0005503 name: all-trans retinal binding namespace: molecular_function def: "Interacting selectively with all-trans retinal, a compound that plays an important role in the visual process in most vertebrates. All-trans retinal (trans r., visual yellow) results from the bleaching of rhodopsin by light, in which the 11-cis form is converted to the all-trans form. Retinal is one of the forms of vitamin A." [http://cancerweb.ncl.ac.uk/] related_synonym: "xanthopsin" [] exact_synonym: "all-trans retinaldehyde binding" [] exact_synonym: "trans retinal binding" [] exact_synonym: "visual yellow binding" [] broad_synonym: "vitamin A binding" [] is_a: GO:0016918 ! retinal binding [Term] id: GO:0005504 name: fatty acid binding namespace: molecular_function def: "Interacting selectively with fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0008289 ! lipid binding [Term] id: GO:0005505 name: heavy metal binding namespace: molecular_function def: "OBSOLETE. Interacting selectively with a heavy metal, a metal that can form a coordination bond with a protein, as opposed to an alkali or alkaline-earth metal that can only form an ionic bond; this definition includes the following biologically relevant heavy metals: Cd, Co, Cu, Fe, Hg, Mn, Mo, Ni, V, W, Zn." [GOC:mah, UniProtKB:kd] comment: This term was made obsolete because 'heavy metal' is an ambiguous grouping term which has no set meaning (see Pure Appl. Chem. Vol. 74, No. 5, pp. 793-807, 2002, for more information). To update annotations, consider the biological process term 'metal ion binding ; GO:0046872' and its children. is_obsolete: true [Term] id: GO:0005506 name: iron ion binding namespace: molecular_function def: "Interacting selectively with iron (Fe) ions." [GOC:ai] subset: gosubset_prok exact_synonym: "iron binding" [] is_a: GO:0046914 ! transition metal ion binding [Term] id: GO:0005507 name: copper ion binding namespace: molecular_function def: "Interacting selectively with copper (Cu) ions." [GOC:ai] subset: gosubset_prok exact_synonym: "copper binding" [] broad_synonym: "copper/cadmium binding" [] is_a: GO:0046914 ! transition metal ion binding [Term] id: GO:0005508 name: copper/cadmium binding namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a composite function. To update annotations, consider the molecular function terms 'copper ion binding ; GO:0005507' and 'cadmium ion binding ; GO:0046870'. is_obsolete: true [Term] id: GO:0005509 name: calcium ion binding namespace: molecular_function def: "Interacting selectively with calcium ions (Ca2+)." [GOC:ai] subset: goslim_generic subset: gosubset_prok related_synonym: "calcium ion storage activity" [] related_synonym: "fibrillin" [] is_a: GO:0043169 ! cation binding is_a: GO:0046872 ! metal ion binding [Term] id: GO:0005513 name: detection of calcium ion namespace: biological_process def: "The series of events in which a calcium ion stimulus is received by a cell and converted into a molecular signal." [GOC:pg] exact_synonym: "Ca2+ ion detection" [] exact_synonym: "calcium ion sensing" [] exact_synonym: "detection of Ca2+ ion" [] exact_synonym: "detection of calcium ion" [] is_a: GO:0009593 ! detection of chemical stimulus [Term] id: GO:0005514 name: calcium ion storage activity namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a biological process. To update annotations, use the biological process term 'sequestering of calcium ion ; GO:0051208' and the molecular function term 'calcium ion binding ; GO:0005509'. is_obsolete: true [Term] id: GO:0005515 name: protein binding namespace: molecular_function alt_id: GO:0045308 def: "Interacting selectively with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules)." [GOC:go_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "alpha-2 macroglobulin receptor-associated protein activity" [] related_synonym: "calcium-dependent cell adhesion molecule activity" [] related_synonym: "calcium-independent cell adhesion molecule activity" [] related_synonym: "cell adhesion molecule activity" [] related_synonym: "death receptor adaptor protein activity" [] related_synonym: "death receptor interacting protein activity" [] related_synonym: "death receptor-associated factor activity" [] related_synonym: "glycine receptor-associated protein" [] related_synonym: "N-methyl-D-aspartate receptor-associated protein activity" [] related_synonym: "nicotinic acetylcholine receptor-associated protein activity" [] related_synonym: "protein degradation tagging activity" [] related_synonym: "protein tagging activity" [] related_synonym: "receptor-associated protein activity" [] exact_synonym: "protein amino acid binding" [] is_a: GO:0005488 ! binding [Term] id: GO:0005516 name: calmodulin binding namespace: molecular_function def: "Interacting selectively with calmodulin, a calcium-binding protein with many roles, both in the calcium-bound and calcium-free states." [GOC:krc] subset: gosubset_prok is_a: GO:0005515 ! protein binding [Term] id: GO:0005517 name: calmodulin inhibitor activity namespace: molecular_function is_a: GO:0005516 ! calmodulin binding [Term] id: GO:0005518 name: collagen binding namespace: molecular_function def: "Interacting selectively with collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:ai, ISBN:0198506732] is_a: GO:0005515 ! protein binding [Term] id: GO:0005519 name: cytoskeletal regulatory protein binding namespace: molecular_function def: "Interacting selectively with any protein involved in modulating the reorganization of the cytoskeleton." [GOC:go_curators, PMID:15163540] is_a: GO:0008092 ! cytoskeletal protein binding [Term] id: GO:0005520 name: insulin-like growth factor binding namespace: molecular_function def: "Interacting selectively with an insulin-like growth factor, any member of a group of polypeptides that are structurally homologous to insulin and share many of its biological activities, but are immunologically distinct from it." [ISBN:0198506732] exact_synonym: "IGF binding" [] is_a: GO:0019838 ! growth factor binding [Term] id: GO:0005521 name: lamin binding namespace: molecular_function def: "Interacting selectively with lamin; any of a group of intermediate-filament proteins that form the fibrous matrix on the inner surface of the nuclear envelope." [GOC:jl, ISBN:0198506732] broad_synonym: "lamin/chromatin binding" [] is_a: GO:0005515 ! protein binding [Term] id: GO:0005522 name: profilin binding namespace: molecular_function def: "Interacting selectively with profilin, an actin-binding protein that forms a complex with G-actin and prevents it from polymerizing to form F-actin." [ISBN:0721662544] is_a: GO:0005515 ! protein binding [Term] id: GO:0005523 name: tropomyosin binding namespace: molecular_function def: "Interacting selectively with tropomyosin, a protein associated with actin filaments both in cytoplasm and, in association with troponin, in the thin filament of striated muscle." [http://cancerweb.ncl.ac.uk/] is_a: GO:0008092 ! cytoskeletal protein binding [Term] id: GO:0005524 name: ATP binding namespace: molecular_function def: "Interacting selectively with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0030554 ! adenyl nucleotide binding [Term] id: GO:0005525 name: GTP binding namespace: molecular_function def: "Interacting selectively with GTP, guanosine triphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0019001 ! guanyl nucleotide binding [Term] id: GO:0005527 name: macrolide binding namespace: molecular_function def: "Interacting selectively with a macrolide, any of a large group of structurally related antibiotics produced by Streptomyces species." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0008144 ! drug binding [Term] id: GO:0005528 name: FK506 binding namespace: molecular_function def: "Interacting selectively with the immunosuppressant FK506." [GOC:jl] related_synonym: "FK506-sensitive peptidyl-prolyl cis-trans isomerase" [] is_a: GO:0005527 ! macrolide binding [Term] id: GO:0005529 name: sugar binding namespace: molecular_function def: "Interacting selectively with any mono-, di- or trisaccharide carbohydrate." [GOC:jl, ISBN:0198506732] subset: gosubset_prok related_synonym: "lectin" [] is_a: GO:0030246 ! carbohydrate binding [Term] id: GO:0005530 name: lectin namespace: molecular_function def: "OBSOLETE. Lectins are proteins obtained particularly from the seeds of leguminous plants, but also from many other plant and animal sources, that have binding sites for specific mono or oligosaccharides in cell walls or membranes. They thereby change the physiology of the membrane to cause agglutination, mitosis, or other biochemical changes in the cell." [http://cancerweb.ncl.ac.uk/] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'sugar binding ; GO:0005529' and the biological process term 'heterophilic cell adhesion ; GO:0007157'. is_obsolete: true [Term] id: GO:0005531 name: galactose binding lectin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'galactose binding ; GO:0005534' and the biological process term 'heterophilic cell adhesion ; GO:0007157'. is_obsolete: true [Term] id: GO:0005532 name: mannose binding lectin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'mannose binding ; GO:0005537' and the biological process term 'heterophilic cell adhesion ; GO:0007157'. related_synonym: "mannose receptor" [] is_obsolete: true [Term] id: GO:0005533 name: N-acetylgalactosamine lectin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it refers to a class of gene products. To update annotations, consider the molecular function term 'N-acetylgalactosamine binding ; GO:0046871' and the biological process term 'heterophilic cell adhesion ; GO:0007157'. is_obsolete: true [Term] id: GO:0005534 name: galactose binding namespace: molecular_function def: "Interacting selectively with galactose (galacto-hexose), a common constituent of many oligo- and polysaccharides." [GOC:jl, ISBN:0198506732] subset: gosubset_prok related_synonym: "galactose binding lectin" [] is_a: GO:0048029 ! monosaccharide binding [Term] id: GO:0005536 name: glucose binding namespace: molecular_function def: "Interacting selectively with the D- and L-enantiomers of glucose." [GOC:jl] subset: gosubset_prok is_a: GO:0048029 ! monosaccharide binding [Term] id: GO:0005537 name: mannose binding namespace: molecular_function def: "Interacting selectively with mannose, a monosaccharide hexose, stereoisomeric with glucose, that occurs naturally only in polymerized forms called mannans." [GOC:jl, ISBN:0192800981] subset: gosubset_prok related_synonym: "mannose binding lectin" [] is_a: GO:0048029 ! monosaccharide binding [Term] id: GO:0005539 name: glycosaminoglycan binding namespace: molecular_function def: "Interacting selectively with any glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0030247 ! polysaccharide binding [Term] id: GO:0005540 name: hyaluronic acid binding namespace: molecular_function def: "Interacting selectively with hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine." [GOC:jl, http://cancerweb.ncl.ac.uk/] exact_synonym: "hyaluronan binding" [] is_a: GO:0005539 ! glycosaminoglycan binding [Term] id: GO:0005541 name: acyl-CoA or acyl binding namespace: molecular_function def: "OBSOLETE. Interacting selectively with acyl-CoA or acyl, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty acyl group, or any group formally derived by removal of a hydroxyl group from the acid function of an organic acid." [GOC:jl, ISBN:0198506732] comment: This term was made obsolete because it was replaced by more appropriate terms. To update annotations, consider the molecular function terms 'acyl binding ; GO:0000035' and 'acyl-CoA binding ; GO:0000062'. is_obsolete: true [Term] id: GO:0005542 name: folic acid binding namespace: molecular_function def: "Interacting selectively with folic acid, pteroylglutamic acid. Folic acid is widely distributed as a member of the vitamin B complex and is essential for the synthesis of purine and pyrimidines." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "folate binding" [] exact_synonym: "vitamin B9 binding" [] exact_synonym: "vitamin M binding" [] is_a: GO:0019842 ! vitamin binding [Term] id: GO:0005543 name: phospholipid binding namespace: molecular_function def: "Interacting selectively with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0008289 ! lipid binding [Term] id: GO:0005544 name: calcium-dependent phospholipid binding namespace: molecular_function def: "Interacting selectively with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester, in the presence of calcium." [GOC:jl] subset: gosubset_prok is_a: GO:0005543 ! phospholipid binding [Term] id: GO:0005545 name: phosphatidylinositol binding namespace: molecular_function def: "Interacting selectively with phosphatidylinositol, any glycophospholipid with its sn-glycerol 3-phosphate residue is esterified to the 1-hydroxyl group of 1D-myo-inositol." [ISBN:0198506732] is_a: GO:0035091 ! phosphoinositide binding [Term] id: GO:0005546 name: phosphatidylinositol-4,5-bisphosphate binding namespace: molecular_function def: "Interacting selectively with phosphatidylinositol-4,5-bisphosphate, a diphosphorylated derivative of phosphatidylinositol." [GOC:bf, GOC:jl] is_a: GO:0035091 ! phosphoinositide binding [Term] id: GO:0005547 name: phosphatidylinositol-3,4,5-triphosphate binding namespace: molecular_function def: "Interacting selectively with phosphatidylinositol-3,4,5-triphosphate, the triphosphorylated derivative of phosphatidylinositol." [GOC:bf, GOC:jl] is_a: GO:0035091 ! phosphoinositide binding [Term] id: GO:0005548 name: phospholipid transporter activity namespace: molecular_function alt_id: GO:0008497 def: "Enables the directed movement of phospholipids into, out of, within or between cells. Phospholipids are a class of lipids containing phosphoric acid as a mono- or diester." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0005319 ! lipid transporter activity [Term] id: GO:0005549 name: odorant binding namespace: molecular_function def: "Interacting selectively with an odorant, any substance capable of stimulating the sense of smell." [GOC:jl, ISBN:0721662544] is_a: GO:0005488 ! binding [Term] id: GO:0005550 name: pheromone binding namespace: molecular_function def: "Interacting selectively with a pheromone, a substance, or characteristic mixture of substances, that is secreted and released by an organism and detected by a second organism of the same or a closely related species, in which it causes a specific reaction, such as a definite behavioral reaction or a developmental process." [GOC:ai] is_a: GO:0005549 ! odorant binding [Term] id: GO:0005551 name: ubiquitin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the biological process term 'protein ubiquitination ; GO:0016567' and the molecular function term 'protein tag ; GO:0031386'. is_obsolete: true [Term] id: GO:0005552 name: polyubiquitin namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a gene product and not a molecular function. To update annotations, consider the biological process term 'protein polyubiquitination ; GO:0000209'. is_obsolete: true [Term] id: GO:0005553 name: ubiquitin-ribosomal protein fusion protein namespace: molecular_function def: "OBSOLETE. A protein encoded by some ubiquitin genes which consists of a single copy of ubiquitin fused to a ribosomal protein." [ISBN:0198506732] comment: This term was made obsolete because it describes a gene product. is_obsolete: true [Term] id: GO:0005554 name: molecular function unknown namespace: molecular_function def: "Used for the annotation of gene products whose function is not known or cannot be inferred." [GOC:sgd_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0003674 ! molecular_function [Term] id: GO:0005555 name: blood group antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. is_obsolete: true [Term] id: GO:0005557 name: lymphocyte antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. is_obsolete: true [Term] id: GO:0005558 name: minor histocompatibility antigen namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product, and because describing something as an 'antigen' means that an organism can produce antibodies to it, which says nothing about the gene product activity. is_obsolete: true [Term] id: GO:0005559 name: ribozyme namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005561 name: nucleic acid namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005562 name: RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005563 name: transfer RNA namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'triplet codon-amino acid adaptor activity ; GO:0030533'. is_obsolete: true [Term] id: GO:0005564 name: cytosolic tRNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005565 name: mitochondrial tRNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO rather than being made obsolete and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005566 name: ribosomal RNA namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. To update annotations, consider the cellular component term 'ribosome ; GO:0005840' and its children, and the molecular function term 'structural constituent of ribosome ; GO:0003735'. is_obsolete: true [Term] id: GO:0005567 name: cytosolic ribosomal RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005568 name: mitochondrial rRNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO rather than being made obsolete and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005569 name: small nucleolar RNA namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents gene products. To update annotations, consider the molecular function term 'RNA modification guide activity ; GO:0030555' and its children. is_obsolete: true [Term] id: GO:0005570 name: small nuclear RNA namespace: molecular_function def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents gene products. To update annotations, consider the molecular function nodes 'RNA splicing factor activity, transesterification mechanism ; GO:0031202', 'snRNA binding ; GO:0017069'. is_obsolete: true [Term] id: GO:0005571 name: untranslated RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005572 name: RNA polymerase II transcribed untranslated RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005573 name: telomerase RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it represents a gene product. To update annotations, use the molecular function term 'template for synthesis of G-rich strand of telomere DNA activity ; GO:0000332'. is_obsolete: true [Term] id: GO:0005574 name: DNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: Note that this term was deleted from GO and was restored to the ontology in Feb 2003 to ensure that the ID is not reused. is_obsolete: true [Term] id: GO:0005575 name: cellular_component namespace: cellular_component def: "The part of a cell of which a gene product is a component; for purpose of GO includes the extracellular environment of cells; a gene product may be a component of one or more parts of a cell; this term includes gene products that are parts of macromolecular complexes, by the definition that all members of a complex normally copurify under all except extreme conditions." [GOC:go_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok [Term] id: GO:0005576 name: extracellular region namespace: cellular_component def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators] comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok exact_synonym: "extracellular" [] is_a: GO:0005575 ! cellular_component [Term] id: GO:0005577 name: fibrinogen complex namespace: cellular_component def: "A highly soluble, elongated protein complex found in blood plasma and involved in clot formation. It is converted into fibrin monomer by the action of thrombin. In the mouse, fibrinogen is a hexamer, 46 nm long and 9 nm maximal diameter, containing two sets of nonidentical chains (alpha, beta, and gamma) linked together by disulfide bonds." [ISBN:0198547684] exact_synonym: "fibrinogen" [] narrow_synonym: "fibrinogen alpha chain" [] narrow_synonym: "fibrinogen beta chain" [] narrow_synonym: "fibrinogen gamma chain" [] is_a: GO:0043234 ! protein complex is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005578 name: extracellular matrix (sensu Metazoa) namespace: cellular_component def: "A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. As in, but not restricted to, the multicellular animals (Metazoa, ncbi_taxonomy_id:33208)." [ISBN:0198547684] subset: goslim_generic subset: goslim_goa subset: goslim_plant narrow_synonym: "adhesive extracellular matrix constituent" [] is_a: GO:0031012 ! extracellular matrix is_a: GO:0044421 ! extracellular region part [Term] id: GO:0005579 name: membrane attack complex namespace: cellular_component def: "A complex produced by sequentially activated components of the complement cascade inserted into a target cell membrane and forming a pore leading to cell lysis via ion and water flow." [ISBN:0198547684, ISBN:068340007X, ISBN:0781735149] exact_synonym: "MAC" [] exact_synonym: "TCC" [] exact_synonym: "terminal complement complex" [] narrow_synonym: "membrane attack complex protein alphaM chain" [] narrow_synonym: "membrane attack complex protein beta2 chain" [] is_a: GO:0043234 ! protein complex is_a: GO:0044420 ! extracellular matrix part is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005578 ! extracellular matrix (sensu Metazoa) [Term] id: GO:0005580 name: membrane attack complex protein alphaM chain namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'membrane attack complex ; GO:0005579'. is_obsolete: true [Term] id: GO:0005581 name: collagen namespace: cellular_component def: "Any of the various assemblies in which collagen chains form a left-handed triple helix; may assemble into higher order structures." [GOC:mah, ISBN:0721639976] related_synonym: "other collagen" [] is_a: GO:0044420 ! extracellular matrix part is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005578 ! extracellular matrix (sensu Metazoa) [Term] id: GO:0005582 name: collagen type XV namespace: cellular_component def: "A collagen homotrimer of alpha1(XV) chains; a chondroitin sulfate proteoglycan often found in specialized basement membranes." [PMID:11158616, PMID:11937714] is_a: GO:0005581 ! collagen [Term] id: GO:0005583 name: fibrillar collagen namespace: cellular_component def: "Any collagen polymer in which collagen triple helices associate to form fibrils." [GOC:mah, ISBN:0721639976] is_a: GO:0005581 ! collagen [Term] id: GO:0005584 name: collagen type I namespace: cellular_component def: "A collagen heterotrimer containing two alpha1(I) chains and one alpha2(I) chain; type I collagen triple helices associate to form banded fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen [Term] id: GO:0005585 name: collagen type II namespace: cellular_component def: "A collagen homotrimer of alpha1(II) chains; type II collagen triple helices associate to form fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen [Term] id: GO:0005586 name: collagen type III namespace: cellular_component def: "A collagen homotrimer of alpha1(III) chains; type III collagen triple helices associate to form fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen [Term] id: GO:0005587 name: collagen type IV namespace: cellular_component def: "A collagen heterotrimer containing type IV alpha chains; [alpha1(IV)]2alpha2(IV) trimers are commonly observed, although more type IV alpha chains exist and may be present in type IV trimers; type IV collagen triple helices associate to form nets within basement membranes." [ISBN:0721639976] is_a: GO:0030935 ! sheet-forming collagen relationship: part_of GO:0005604 ! basement membrane [Term] id: GO:0005588 name: collagen type V namespace: cellular_component def: "A collagen heterotrimer containing type V alpha chains; [alpha1(V)]2alpha2(V) and alpha1(V)alpha2(V)alpha3(V) trimers have been observed; type V collagen triple helices associate to form fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen [Term] id: GO:0005589 name: collagen type VI namespace: cellular_component def: "A collagen heterotrimer containing type VI alpha chains in alpha1(VI)alpha2(VI)alpha3(VI) trimers; type VI collagen triple helices associate to form beaded fibrils." [ISBN:0721639976] is_a: GO:0030934 ! anchoring collagen [Term] id: GO:0005590 name: collagen type VII namespace: cellular_component def: "A collagen homotrimer of alpha1(VII) chains; type VII collagen triple helices form antiparallel dimer, which in turn associate laterally to form anchoring fibrils that connect type IV collagen in the basal lamina to plaques in the underlying connective tissue." [ISBN:0721639976] is_a: GO:0030934 ! anchoring collagen [Term] id: GO:0005591 name: collagen type VIII namespace: cellular_component def: "A collagen heterotrimer containing type VIII alpha chains; [alpha1(VIII)2]alpha2(VIII) and alpha1(VIII)[alpha2(VIII)]2 trimers have been observed; type VIII collagen triple helices associate to form regular hexagonal nets." [ISBN:0721639976] is_a: GO:0005598 ! short-chain collagen [Term] id: GO:0005592 name: collagen type XI namespace: cellular_component def: "A collagen heterotrimer containing type XI alpha chains in alpha1(XI)alpha2(XI)alpha3(XI) trimers; type XI collagen triple helices associate to form fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen [Term] id: GO:0005593 name: FACIT collagen namespace: cellular_component def: "Any collagen polymer associated with collagen fibrils and in which the collagen monomers contain two or more relatively short triple-helical domains connected by non-triple-helical sequences; the acronym FACIT stands for fibril-associated collagen with interrupted triple helix." [ISBN:0198599587] is_a: GO:0030934 ! anchoring collagen [Term] id: GO:0005594 name: collagen type IX namespace: cellular_component def: "A collagen heterotrimer containing type IX alpha chains in alpha1(IX)alpha2(IX)alpha3(IX) trimers; type IX collagen triple helices associate to form a structure that links glycosaminoglycans to type II collagen fibrils." [ISBN:0721639976] is_a: GO:0005593 ! FACIT collagen [Term] id: GO:0005595 name: collagen type XII namespace: cellular_component def: "A collagen homotrimer of alpha1(XII) chains; type XII collagen triple helices may link sheet-forming or fibrillar collagens to other structures." [ISBN:0721639976] is_a: GO:0005593 ! FACIT collagen [Term] id: GO:0005596 name: collagen type XIV namespace: cellular_component def: "A collagen homotrimer of alpha1(XIV) chains; type XIV collagen triple helices may link sheet-forming or fibrillar collagens to other structures." [ISBN:0721639976] is_a: GO:0005593 ! FACIT collagen [Term] id: GO:0005597 name: collagen type XVI namespace: cellular_component def: "A collagen trimer containing alpha(XVI) chains; type XVI trimers can associate with microfibrils." [GOC:mah, PMID:12782140] is_a: GO:0005593 ! FACIT collagen [Term] id: GO:0005598 name: short-chain collagen namespace: cellular_component def: "Any assembly of collagen in which the collagen chains are relatively short compared to the fibrillar collagens." [ISBN:0198599587] is_a: GO:0030935 ! sheet-forming collagen [Term] id: GO:0005599 name: collagen type X namespace: cellular_component def: "A collagen homotrimer of alpha1(X) chains; type X collagen triple helices may form nets." [ISBN:0721639976] is_a: GO:0005598 ! short-chain collagen [Term] id: GO:0005600 name: collagen type XIII namespace: cellular_component def: "A collagen homotrimer of alpha1(XIII) chains; type X collagen triple helices span lipid bilayer membranes." [ISBN:0721639976] is_a: GO:0030936 ! transmembrane collagen [Term] id: GO:0005601 name: classical-complement-pathway C3/C5 convertase complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005602 name: complement component C1q complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005603 name: complement component C2 complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005604 name: basement membrane namespace: cellular_component def: "A thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers." [ISBN:0198547684] is_a: GO:0044420 ! extracellular matrix part is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005578 ! extracellular matrix (sensu Metazoa) [Term] id: GO:0005605 name: basal lamina namespace: cellular_component def: "A thin sheet of proteoglycans and glycoproteins, especially laminin, secreted by cells as an extracellular matrix." [ISBN:0198547684] exact_synonym: "basement lamina" [] is_a: GO:0044420 ! extracellular matrix part is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005604 ! basement membrane [Term] id: GO:0005606 name: laminin-1 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha1, beta1 and gamma1." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005607 name: laminin-2 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha2, beta1 and gamma1." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex is_a: GO:0044444 ! cytoplasmic part is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0016011 ! dystroglycan complex [Term] id: GO:0005608 name: laminin-3 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha1, beta2 and gamma1." [MEDLINE:95005761] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005609 name: laminin-4 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha2, beta2 and gamma1." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005610 name: laminin-5 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha3, beta3 and gamma2." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005611 name: laminin-6 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha3, beta1 and gamma1." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005612 name: laminin-7 namespace: cellular_component def: "A large, extracellular glycoprotein complex composed of three different polypeptide chains, alpha3, beta2 and gamma1." [GOC:jl, PMID:10842354] is_a: GO:0043256 ! laminin complex [Term] id: GO:0005613 name: laminin receptor protein namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it is out of date. It seems to be referring to the non-integrin 34/67kDa laminin receptor, which new research has shown to actually be a ribosomal protein of the SP2 family. To update annotations, consider the cellular component term 'integrin complex ; GO:0008305'. is_obsolete: true [Term] id: GO:0005614 name: interstitial matrix namespace: cellular_component is_a: GO:0044421 ! extracellular region part [Term] id: GO:0005615 name: extracellular space namespace: cellular_component def: "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid." [ISBN:0198547684] subset: goslim_generic subset: goslim_goa subset: goslim_plant related_synonym: "intercellular space" [] is_a: GO:0044421 ! extracellular region part [Term] id: GO:0005616 name: larval serum protein complex namespace: cellular_component def: "A multisubunit protein complex which, in Drosophila, is a heterohexamer of three subunits, alpha, beta and gamma. The complex is thought to store amino acids for synthesis of adult proteins." [GOC:jl, UniProtKB:P11995] is_a: GO:0043234 ! protein complex is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005617 name: larval serum protein-1 namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a gene product. exact_synonym: "LSP1" [] is_obsolete: true [Term] id: GO:0005618 name: cell wall namespace: cellular_component def: "The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan." [ISBN:0198547684] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0030312 ! external encapsulating structure [Term] id: GO:0005619 name: spore wall (sensu Fungi) namespace: cellular_component def: "The specialized cell wall of the ascospore (spore). As in, but not restricted to, the fungi (Fungi, ncbi_taxonomy_id:4751)." [ISBN:0879693568] is_a: GO:0009277 ! cell wall (sensu Fungi) is_a: GO:0031160 ! spore wall [Term] id: GO:0005620 name: periplasmic space namespace: cellular_component def: "OBSOLETE. The region in a bacterial or yeast cell between the cell membrane and the cell wall." [ISBN:0198547684] comment: This term was made obsolete because it was defined inaccurately. To update annotations, consider the cellular component terms 'periplasmic space (sensu Proteobacteria) ; GO:0030288' or 'periplasmic space (sensu Fungi) ; GO:0030287'. is_obsolete: true [Term] id: GO:0005621 name: bud scar namespace: cellular_component def: "Crater-like ring of chitinous scar tissue located on the surface of the mother cell. It is formed after the newly emerged daughter cell separates thereby marking the site of cytokinesis and septation. The number of bud scars that accumulate on the surface of a cell is a useful determinant of replicative age." [GOC:rn, PMID:14600225, PMID:2005820] is_a: GO:0044426 ! cell wall part relationship: part_of GO:0009277 ! cell wall (sensu Fungi) [Term] id: GO:0005622 name: intracellular namespace: cellular_component def: "The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok exact_synonym: "protoplasm" [] is_a: GO:0044464 ! cell part [Term] id: GO:0005623 name: cell namespace: cellular_component def: "The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:go_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok is_a: GO:0005575 ! cellular_component [Term] id: GO:0005624 name: membrane fraction namespace: cellular_component def: "That fraction of cells, prepared by disruptive biochemical methods, that includes the plasma and other membranes." [GOC:ma] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. subset: goslim_yeast subset: gosubset_prok is_a: GO:0000267 ! cell fraction [Term] id: GO:0005625 name: soluble fraction namespace: cellular_component def: "That fraction of cells, prepared by disruptive biochemical methods, that is soluble in water." [GOC:ma] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. broad_synonym: "soluble" [] is_a: GO:0000267 ! cell fraction [Term] id: GO:0005626 name: insoluble fraction namespace: cellular_component def: "That fraction of cells, prepared by disruptive biochemical methods, that is not soluble in water." [GOC:ma] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. related_synonym: "particle-bound" [] is_a: GO:0000267 ! cell fraction [Term] id: GO:0005627 name: ascus namespace: cellular_component def: "OBSOLETE. A sac-like fruiting body (ascomycete fungi); contains ascospores (typically eight in number)." [ISBN:0198547684] comment: This term was made obsolete because it is a type of cell rather than a cellular component. To update annotations, consider the term 'ascus ; FAO:0000014' in the Fungal Gross Anatomy ontology. is_obsolete: true [Term] id: GO:0005628 name: prospore membrane namespace: cellular_component def: "The prospore membrane is a double-membraned structure that extends from the cytoplasmic face of the spindle pole bodies to encompass the spindle pole bodies and the four nuclear lobes that are formed during meiosis. It helps isolate the meiotic nuclei from the cytoplasm during spore formation and serves as a foundation for the formation of the spore walls." [ISBN:0879693649] exact_synonym: "forespore membrane (sensu Fungi)" [] exact_synonym: "FSM" [] is_a: GO:0016020 ! membrane relationship: part_of GO:0042764 ! prospore [Term] id: GO:0005630 name: dityrosine layer of spore wall namespace: cellular_component def: "The outermost layer of the spore wall, as described in Saccharomyces." [ISBN:0879693568] is_a: GO:0044426 ! cell wall part relationship: part_of GO:0005619 ! spore wall (sensu Fungi) [Term] id: GO:0005631 name: chitosan layer of spore wall namespace: cellular_component def: "The second outermost layer of the spore wall, as described in Saccharomyces." [ISBN:0879693568] is_a: GO:0044426 ! cell wall part relationship: part_of GO:0005619 ! spore wall (sensu Fungi) [Term] id: GO:0005632 name: inner layer of spore wall namespace: cellular_component def: "Either of the two innermost layers of the spore wall, as described in Saccharomyces." [ISBN:0879693568] is_a: GO:0044426 ! cell wall part relationship: part_of GO:0005619 ! spore wall (sensu Fungi) [Term] id: GO:0005633 name: ascus lipid droplet namespace: cellular_component is_a: GO:0005811 ! lipid particle [Term] id: GO:0005634 name: nucleus namespace: cellular_component def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast is_a: GO:0043231 ! intracellular membrane-bound organelle [Term] id: GO:0005635 name: nuclear envelope namespace: cellular_component alt_id: GO:0005636 def: "The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space)." [ISBN:0198547684] subset: goslim_generic subset: goslim_plant is_a: GO:0031967 ! organelle envelope is_a: GO:0044428 ! nuclear part relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005637 name: nuclear inner membrane namespace: cellular_component def: "The inner, i.e. lumen-facing, lipid bilayer of the nuclear envelope." [GOC:ma] broad_synonym: "inner envelope" [] is_a: GO:0019866 ! organelle inner membrane is_a: GO:0031965 ! nuclear membrane is_a: GO:0044453 ! nuclear membrane part [Term] id: GO:0005638 name: lamin filament namespace: cellular_component def: "Any of a group of intermediate-filament proteins that form the fibrous matrix on the inner surface of the nuclear envelope. They are classified as lamins A, B and C." [ISBN:0198547684] exact_synonym: "type V intermediate filament" [] is_a: GO:0005882 ! intermediate filament is_a: GO:0044453 ! nuclear membrane part relationship: part_of GO:0005637 ! nuclear inner membrane relationship: part_of GO:0005652 ! nuclear lamina [Term] id: GO:0005639 name: integral to nuclear inner membrane namespace: cellular_component def: "Penetrating at least one phospholipid bilayer of the nuclear inner membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer." [GOC:go_curators] is_a: GO:0031229 ! intrinsic to nuclear inner membrane is_a: GO:0031301 ! integral to organelle membrane [Term] id: GO:0005640 name: nuclear outer membrane namespace: cellular_component def: "The outer, i.e. cytoplasm-facing, lipid bilayer of the nuclear envelope; continuous with the endoplasmic reticulum of the cell and sometimes studded with ribosomes." [ISBN:0198547684] exact_synonym: "perinuclear membrane" [] broad_synonym: "outer envelope" [] is_a: GO:0031965 ! nuclear membrane is_a: GO:0031968 ! organelle outer membrane is_a: GO:0044453 ! nuclear membrane part relationship: part_of GO:0042175 ! nuclear envelope-endoplasmic reticulum network [Term] id: GO:0005641 name: nuclear envelope lumen namespace: cellular_component alt_id: GO:0005653 def: "The region between the two lipid bilayers of the nuclear envelope; 20-40 nm wide." [GOC:ai] comment: Note that this term should not be confused with the cellular component term 'perinuclear region ; GO:0048471'. related_synonym: "nuclear membrane lumen" [] exact_synonym: "nuclear intermembrane space" [] exact_synonym: "perinuclear space" [] is_a: GO:0031970 ! organelle envelope lumen is_a: GO:0044453 ! nuclear membrane part [Term] id: GO:0005642 name: annulate lamellae namespace: cellular_component def: "Stacks of endoplasmic reticulum (ER) membranes containing a high density of nuclear pores, thought to form from excess nuclear membrane components, that have been described in a number of different cells. Annulate lamellar membranes are continuous with and embedded within the ER." [PMID:12631728] is_a: GO:0044425 ! membrane part relationship: part_of GO:0042175 ! nuclear envelope-endoplasmic reticulum network [Term] id: GO:0005643 name: nuclear pore namespace: cellular_component alt_id: GO:0005644 def: "Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined." [ISBN:0198547684] exact_synonym: "NPC" [] exact_synonym: "nuclear pore complex" [] narrow_synonym: "nuclear pore membrane protein" [] is_a: GO:0043234 ! protein complex is_a: GO:0044453 ! nuclear membrane part is_a: GO:0046930 ! pore complex [Term] id: GO:0005645 name: RAN-binding protein namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the molecular function term 'Ran GTPase binding ; GO:0008536' and consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. is_obsolete: true [Term] id: GO:0005646 name: importin namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. exact_synonym: "karyopherin" [] is_obsolete: true [Term] id: GO:0005647 name: importin, alpha-subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. exact_synonym: "karyopherin-alpha" [] is_obsolete: true [Term] id: GO:0005648 name: importin, beta-subunit namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. exact_synonym: "karyopherin-beta1" [] is_obsolete: true [Term] id: GO:0005649 name: transportin namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. exact_synonym: "karyopherin-beta2" [] is_obsolete: true [Term] id: GO:0005650 name: importin, alpha-subunit transport factor namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. related_synonym: "CAS" [] is_obsolete: true [Term] id: GO:0005651 name: exportin namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component terms 'nucleus ; GO:0005634', 'cytoplasm ; GO:0005737', and 'nuclear pore ; GO:0005643' and its children. is_obsolete: true [Term] id: GO:0005652 name: nuclear lamina namespace: cellular_component def: "The fibrous, electron-dense layer lying on the nucleoplasmic side of the inner membrane of a cell nucleus, composed of lamin filaments. The polypeptides of the lamina are thought to be concerned in the dissolution of the nuclear envelope and its re-formation during mitosis. The lamina is composed of lamin A and lamin C filaments cross-linked into an orthogonal lattice, which is attached via lamin B to the inner nuclear membrane through interactions with a lamin B receptor, an IFAP, in the membrane." [ISBN:0198506732, ISBN:0716731363] is_a: GO:0044428 ! nuclear part relationship: part_of GO:0005635 ! nuclear envelope [Term] id: GO:0005654 name: nucleoplasm namespace: cellular_component def: "That part of the nuclear content other than the chromosomes or the nucleolus." [GOC:ma, ISBN:0124325653] subset: goslim_generic subset: goslim_plant is_a: GO:0044428 ! nuclear part relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0005655 name: nucleolar ribonuclease P complex namespace: cellular_component def: "A ribonuclease P complex located in the nucleolus of a eukaryotic cell, where it catalyzes the 5' endonucleolytic cleavage of precursor tRNAs to yield mature tRNAs. Eukaryotic nucleolar ribonuclease P complexes generally contain a single RNA molecule that is necessary but not sufficient for catalysis, and several protein molecules." [GOC:mah, PMID:12045094] exact_synonym: "nucleolar RNase P complex" [] is_a: GO:0030677 ! ribonuclease P complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0005656 name: pre-replicative complex namespace: cellular_component def: "A multiprotein complex assembled at eukaryotic DNA replication origins during late mitosis and G1, allowing the origin to become competent, or 'licensed', for replication. The complex normally includes the origin recognition complex (ORC), Cdc6, Cdt1 and the MiniChromosome Maintenance (Mcm2-7) proteins." [PMID:15222894] exact_synonym: "pre-RC" [] is_a: GO:0043234 ! protein complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0005657 name: replication fork namespace: cellular_component def: "The Y-shaped region of a replicating DNA molecule, resulting from the separation of the DNA strands and in which the synthesis of new strands takes place. Also includes associated protein complexes." [GOC:mah, ISBN:0198547684] subset: gosubset_prok related_synonym: "replication focus" [] is_a: GO:0044427 ! chromosomal part [Term] id: GO:0005658 name: alpha DNA polymerase:primase complex namespace: cellular_component def: "A complex of four polypeptides, comprising large and small DNA polymerase alpha subunits and two primase subunits, which catalyzes the synthesis of an RNA primer on the lagging strand of replicating DNA; the smaller of the two primase subunits alone can catalyze oligoribonucleotide synthesis." [GOC:mah, PMID:11395402] related_synonym: "pol-prim" [] exact_synonym: "DNA polymerase alpha:primase complex" [] exact_synonym: "heterotetrameric polymerase alpha holoenzyme" [] broad_synonym: "primosome" [] is_a: GO:0043234 ! protein complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0043601 ! replisome (sensu Eukaryota) [Term] id: GO:0005659 name: delta DNA polymerase complex namespace: cellular_component def: "OBSOLETE. A multimeric enzyme complex, which in humans is a heterotetramer of four subunits of approximately 125, 50, 68 and 12kDa. Also includes the delta DNA polymerase cofactor. Functions in DNA replication, mismatch repair and excision repair." [ISBN:0198547684, PMID:11205330, PMID:12403614] comment: This term was made obsolete because it was erroneously defined as including the delta DNA polymerase cofactor (now also obsolete) which consisted of the complexes PCNA and Replication factor C (RFC), when in fact these are not bona fide subunits of the delta DNA polymerase complex. Several annotations of PNCA and RFC proteins had been made to this term, which is why it was necessary to obsolete it and create a new one. To update annotations, use the cellular component term 'delta DNA polymerase complex ; GO:0043625'. is_obsolete: true [Term] id: GO:0005660 name: delta-DNA polymerase cofactor complex namespace: cellular_component def: "OBSOLETE. A complex of proteins that interacts with delta-DNA polymerase, promoting elongation. In humans it is a heteropentamer of subunits of 140/145, 40, 38, 37 and 36.5 kDa, which form a complex with the proliferating cell nuclear antigen (PCNA) in the presence of ATP." [GOC:jl, UniProtKB:P35249] comment: This term was made obsolete because it refers to two distinct complexes, PCNA and Replication factor C (RFC), the latter of which is already represented as a separate, unrelated GO term (DNA replication factor C complex ; GO:0005663). In addition, the phrase 'delta-DNA polymerase cofactor' to represent both PCNA and RFC is not used in current literature. To update annotations, use the cellular component terms 'DNA replication factor C complex ; GO:0005663' and 'PCNA complex ; GO:0043626'. exact_synonym: "delta DNA polymerase cofactor complex" [] is_obsolete: true [Term] id: GO:0005662 name: DNA replication factor A complex namespace: cellular_component def: "A conserved heterotrimeric complex that binds nonspecifically to single-stranded DNA and is required for multiple processes in eukaryotic DNA metabolism, including DNA replication, DNA repair, and recombination. In all eukaryotic organisms examined the complex is composed of subunits of approximately 70, 30, and 14 kDa." [PMID:9242902] related_synonym: "single-stranded DNA-binding protein complex" [] related_synonym: "SSB" [] exact_synonym: "replication protein A" [] exact_synonym: "RPA" [] is_a: GO:0043234 ! protein complex is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0043601 ! replisome (sensu Eukaryota) [Term] id: GO:0005663 name: DNA replication factor C complex namespace: cellular_component def: "A complex of five polypeptides in eukaryotes, and two in prokaryotes, that loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA, thereby permitting processive DNA synthesis catalyzed by DNA polymerase." [PMID:14614842, PMID:14646196, PMID:16172520] subset: gosubset_prok exact_synonym: "activator 1 complex" [] exact_synonym: "RFC complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005657 ! replication fork [Term] id: GO:0005664 name: nuclear origin of replication recognition complex namespace: cellular_component def: "A multisubunit complex that is located at the replication origins of a chromosome in the nucleus." [GOC:elh] exact_synonym: "eukaryotic ORC" [] exact_synonym: "nuclear ORC" [] is_a: GO:0000808 ! origin recognition complex is_a: GO:0044454 ! nuclear chromosome part [Term] id: GO:0005665 name: DNA-directed RNA polymerase II, core complex namespace: cellular_component def: "RNA polymerase II, one of three eukaryotic nuclear RNA polymerases, is a multisubunit complex; it produces mRNAs, snoRNAs, and some of the snRNAs. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The largest subunit of RNA polymerase II contains an essential carboxyl-terminal domain (CTD) composed of a variable number of heptapeptide repeats (YSPTSPS). The remainder of the complex is composed of smaller subunits (generally ten or more), some of which are also found in RNA polymerases I and III. Although the core is competent to mediate ribonucleic acid synthesis, it requires additional factors to select the appropriate template." [GOC:krc] related_synonym: "DNA-directed RNA polymerase II activity" [] is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044451 ! nucleoplasm part relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005666 name: DNA-directed RNA polymerase III complex namespace: cellular_component def: "RNA polymerase III, one of three eukaryotic nuclear RNA polymerases, is a multisubunit complex; it produces tRNAs and some of the snRNAs. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The remainder of the complex is composed of smaller subunits (generally ten or more), some of which are also found in RNA polymerase I and others which are found in all three nuclear RNA polymerases. Although the core is competent to mediate ribonucleic acid synthesis, it requires additional factors to select the appropriate template." [GOC:krc] related_synonym: "DNA-directed RNA polymerase III activity" [] is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0005667 name: transcription factor complex namespace: cellular_component def: "Any complex, distinct from RNA polymerase, including one or more polypeptides capable of binding DNA at promoters or at cis-acting regulatory sequences, and regulating transcription." [GOC:mah] is_a: GO:0043234 ! protein complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0005668 name: selectivity factor SL1 complex namespace: cellular_component def: "A RNA polymerase I-specific protein complex which in humans has two subunits, tata-binding protein (TBP) and TBP-associated factor 1 (TAF1)." [GOC:jl, PMID:9857193] is_a: GO:0005667 ! transcription factor complex [Term] id: GO:0005669 name: transcription factor TFIID complex namespace: cellular_component def: "A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters." [GOC:krc, GOC:mah, ISBN:0471953393, ISBN:0879695501] related_synonym: "transcription-activating factor, 30kD" [] is_a: GO:0005667 ! transcription factor complex relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005670 name: transcription-activating factor, 30kD namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, use the cellular component term 'transcription factor TFIID complex ; GO:0005669'. is_obsolete: true [Term] id: GO:0005671 name: Ada2/Gcn5/Ada3 transcription activator complex namespace: cellular_component def: "A multiprotein complex that possesses histone acetyltransferase and is involved in regulation of transcription. The budding yeast complex includes Gcn5p, two proteins of the Ada family, and two TBP-associate proteins (TAFs); analogous complexes in other species have analogous compositions, and usually contain homologs of the yeast proteins." [PMID:10637607] is_a: GO:0000123 ! histone acetyltransferase complex [Term] id: GO:0005672 name: transcription factor TFIIA complex namespace: cellular_component def: "A component of the transcription machinery of RNA Polymerase II. In humans, TFIIA is a heterotrimer composed of an alpha (P35), beta (P19) and gamma subunits (P12)." [GOC:jl, UniProtKB:P52655] is_a: GO:0005667 ! transcription factor complex relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005673 name: transcription factor TFIIE complex namespace: cellular_component def: "A transcription factor which in humans consists of a complex of two alpha and two beta chains. Recruits TFIIH to the initiation complex and helps activate both RNA polymerase II and TFIIH." [GOC:jl, UniProtKB:P29083] is_a: GO:0005667 ! transcription factor complex relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005674 name: transcription factor TFIIF complex namespace: cellular_component def: "A general transcription initiation factor which in humans consists of a heterodimer of an alpha and a beta subunit. Helps recruit RNA polymerase II to the initiation complex and promotes translation elongation." [GOC:jl, UniProtKB:P13984] is_a: GO:0005667 ! transcription factor complex relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005675 name: transcription factor TFIIH complex namespace: cellular_component def: "A transcription factor which in humans consists of a complex of six protein subunits. Involved in transcription by RNA polymerase II and in nucleotide excision repair." [GOC:jl, UniProtKB:Q13889] is_a: GO:0005667 ! transcription factor complex relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme [Term] id: GO:0005676 name: condensin complex namespace: cellular_component alt_id: GO:0008620 def: "OBSOLETE. A five-subunit protein complex that plays a central role in mitotic chromosome condensation. The Xenopus condensin complex is composed of two subcomplexes, an 8S core subcomplex (8SC)1 consisting of two structural maintenance of chromosomes (SMC) subunits (XCAP-C and -E) and an 11S regulatory subcomplex (11SR) containing three non-SMC subunits (XCAP-D2, -G, and -H)." [GOC:jl, PMID:11136719] comment: This term was made obsolete because the definition is too specific; other organisms have condensin complexes. To update annotations, use the cellular component term 'condensin complex ; GO:0000796'. narrow_synonym: "13S condensin" [] is_obsolete: true [Term] id: GO:0005677 name: chromatin silencing complex namespace: cellular_component def: "Any protein complex that mediates changes in chromatin structure that result in transcriptional silencing." [GOC:mah] is_a: GO:0016585 ! chromatin remodeling complex [Term] id: GO:0005678 name: chromatin assembly complex namespace: cellular_component def: "Any protein complex that acts in the formation of nucleosomes or higher order chromatin structure." [GOC:mah] is_a: GO:0016585 ! chromatin remodeling complex [Term] id: GO:0005680 name: anaphase-promoting complex namespace: cellular_component def: "A ubiquitin ligase complex that degrades mitotic cyclins and anaphase inhibitory protein, thereby triggering sister chromatid separation and exit from mitosis. Substrate recognition by APC occurs through degradation signals, the most common of which is termed the Dbox degradation motif, originally discovered in cyclin B." [GOC:jh, PMID:10465783, PMID:10611969] exact_synonym: "anaphase promoting complex" [] exact_synonym: "APC" [] exact_synonym: "cyclosome" [] is_a: GO:0000152 ! nuclear ubiquitin ligase complex [Term] id: GO:0005681 name: spliceosome complex namespace: cellular_component def: "A ribonucleoprotein complex, containing RNA and small nuclear ribonucleoproteins (snRNPs) that is assembled during the splicing of messenger RNA primary transcript to excise an intron." [ISBN:0198547684] is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0005682 name: snRNP U5 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U5; a component of both the major and minor spliceosome complexes." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005684 ! major (U2-dependent) spliceosome relationship: part_of GO:0005689 ! minor (U12-dependent) spliceosome complex [Term] id: GO:0005683 name: snRNP U7 namespace: cellular_component def: "A ribonucleoprotein complex, that includes the U7 snRNA, required for the 3'-end processing of replication-dependent histone pre-mRNAs." [PMID:12872004] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex [Term] id: GO:0005684 name: major (U2-dependent) spliceosome namespace: cellular_component def: "The major (U2-dependent) spliceosome is composed of five snRNP complexes (U1, U2, U4, U5, and U6) as well as many non-snRNP proteins. It acts through many RNA-RNA, RNA-protein, and protein-protein interactions to precisely excise each intron and join the flanking exons." [PMID:11343900] exact_synonym: "GT-AG spliceosome" [] exact_synonym: "major spliceosome" [] is_a: GO:0005681 ! spliceosome complex [Term] id: GO:0005685 name: snRNP U1 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U1; a component of the major spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005684 ! major (U2-dependent) spliceosome [Term] id: GO:0005686 name: snRNP U2 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U2; a component of the major spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005684 ! major (U2-dependent) spliceosome [Term] id: GO:0005687 name: snRNP U4 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U4; a component of the major spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005684 ! major (U2-dependent) spliceosome [Term] id: GO:0005688 name: snRNP U6 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U6; a component of the major spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005684 ! major (U2-dependent) spliceosome [Term] id: GO:0005689 name: minor (U12-dependent) spliceosome complex namespace: cellular_component def: "The minor (U12-dependent) spliceosome is composed of the snRNPs, U11, U12, U4atac, U6atac, and U5 (which is also a component of the major spliceosome). This minor form of the spliceosome is responsible for the splicing of the majority of introns with atypical AT-AC terminal dinucleotides, as well as other non-canonical introns. The entire splice site signal, not just the terminal dinucleotides, is involved in determining which spliceosome utilizes the site." [PMID:11574683, PMID:11971955] exact_synonym: "AT-AC spliceosome" [] exact_synonym: "minor spliceosome" [] is_a: GO:0005681 ! spliceosome complex [Term] id: GO:0005690 name: snRNP U4atac namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U4atac; a component of the minor spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005689 ! minor (U12-dependent) spliceosome complex [Term] id: GO:0005691 name: snRNP U6atac namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U6atac; a component of the minor spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005689 ! minor (U12-dependent) spliceosome complex [Term] id: GO:0005692 name: snRNP U11 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U11; a component of the minor spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005689 ! minor (U12-dependent) spliceosome complex [Term] id: GO:0005693 name: snRNP U12 namespace: cellular_component def: "Ribonucleoprotein complex containing small nuclear RNA U12; a component of the minor spliceosome complex." [GOC:krc] is_a: GO:0030532 ! small nuclear ribonucleoprotein complex relationship: part_of GO:0005689 ! minor (U12-dependent) spliceosome complex [Term] id: GO:0005694 name: chromosome namespace: cellular_component def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684] subset: goslim_generic subset: goslim_goa subset: goslim_yeast subset: gosubset_prok related_synonym: "chromatid" [] narrow_synonym: "interphase chromosome" [] narrow_synonym: "prophase chromosome" [] is_a: GO:0043232 ! intracellular non-membrane-bound organelle [Term] id: GO:0005695 name: chromatid namespace: cellular_component def: "OBSOLETE. One of the two daughter strands of a duplicated chromosome that become apparent between early prophase and metaphase in mitosis and between diplotene and second metaphase in meiosis." [ISBN:0198506732] comment: This term was made obsolete because it is not a unique subcellular component, i.e. the difference between this term and 'chromosome' is based on temporal and process distinctions. To update annotations, consider the cellular component term 'chromosome ; GO:0005694' and the cellular component term 'condensed chromosome ; GO:0000793' and the cellular component term 'condensed nuclear chromosome ; GO:0000794'. is_obsolete: true [Term] id: GO:0005696 name: telomere namespace: cellular_component def: "OBSOLETE. A complex of DNA and protein that seals the end of a chromosome. The telomeric DNA consists of simple tandemly repeated sequences specific for each species. Typically one strand is G-rich and the other C-rich. The G-rich strand forms a 3'-terminal overhang, the length of which varies with species. The single strand overhang is bound by a variety of proteins, including telomere capping proteins that bind to the single-stranded DNA." [ISBN:0198506732, PMID:11352055] comment: This term was made obsolete because the definition was too sequence oriented and too restrictive. To update annotations, consider the cellular component term 'chromosome, telomeric region ; GO:0000781' and its children and the cellular component term 'telomere cap complex ; GO:0000782' and its children. is_obsolete: true [Term] id: GO:0005697 name: telomerase holoenzyme complex namespace: cellular_component def: "Telomerase is a ribonucleoprotein enzyme complex, with a minimal catalytic core composed of a catalytic reverse transcriptase subunit and an RNA subunit that provides the template for telomeric DNA addition. In vivo, the holoenzyme complex often contains additional subunits." [PMID:11884619] is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0044428 ! nuclear part [Term] id: GO:0005698 name: centromere namespace: cellular_component def: "OBSOLETE. The region of a eukaryotic chromosome that is attached to the spindle during nuclear division. It is defined genetically as the region of the chromosome that always segregates at the first division of meiosis; the region of the chromosome in which no crossing over occurs. At the start of M phase, each chromosome consists of two sister chromatids with a constriction at a point which forms the centromere. During late prophase two kinetochores assemble on each centromere, one kinetochore on each sister chromatid." [ISBN:0198506732] comment: This term was made obsolete because it is genetically defined region and not a specific subcellular localization. To update annotations, consider the cellular component term 'chromosome, pericentric region ; GO:0000775' and its children. is_obsolete: true [Term] id: GO:0005699 name: kinetochore namespace: cellular_component def: "OBSOLETE. A specialized assembly of proteins that bind to the centromere and also attach to microtubules growing out from centrosomes during mitosis. 'They are involved in the separation of chromosomes into the daughter cells. They are composed of centromere-binding proteins." [ISBN:0198506732] comment: This term was made obsolete because its definition was too specific. Kinetochores are also involved in meiosis. To update annotations, consider the cellular component term 'kinetochore ; GO:0000776' and its children. is_obsolete: true [Term] id: GO:0005700 name: polytene chromosome namespace: cellular_component def: "A type of chromosome in a polyploid cell, formed when multiple copies of homologous chromosomes are aligned side by side to give a giant chromosome in which distinct chromosome bands are readily visible." [ISBN:0198506732] is_a: GO:0005694 ! chromosome [Term] id: GO:0005701 name: polytene chromosome chromocenter namespace: cellular_component def: "A region at which the centric regions of polytene chromosomes are joined together." [GOC:bf, ISBN:0120649012] exact_synonym: "polytene chromosome chromocentre" [] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005702 name: polytene chromosome weak point namespace: cellular_component def: "A region of the polytene chromosome where the diameter is considerably decreased, probably resulting from local differences in chromosome organization." [GOC:bf, ISBN:0120649012] broad_synonym: "constriction" [] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005703 name: polytene chromosome puff namespace: cellular_component def: "A swelling at a site along the length of a polytene chromosome, thought to be the site of active transcription." [GOC:bf, ISBN:0120649012] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005704 name: polytene chromosome band namespace: cellular_component def: "A stretch of densely packed chromatin along the polytene chromosome, visible as a morphologically distinct band." [GOC:bf, PMID:11361342] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005705 name: polytene chromosome interband namespace: cellular_component def: "A stretch of less tightly packed chromatin along the polytene chromosome, found between bands." [GOC:bf, PMID:11361342] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005706 name: polytene chromosome ectopic fiber namespace: cellular_component def: "A thread-like connection joining two regions of ectopically paired polytene chromosomes." [GOC:bf, ISBN:0120649012] exact_synonym: "polytene chromosome ectopic fibre" [] is_a: GO:0044427 ! chromosomal part relationship: part_of GO:0005700 ! polytene chromosome [Term] id: GO:0005707 name: interphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cell during interphase of the cell cycle. Chromosomes are usually decondensed during interphase and each long DNA molecule in a chromosome is divided into a large number of discrete domains that are folded differently." [GOC:ai, ISBN:0815316194] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'chromosome ; GO:0005694'. is_obsolete: true [Term] id: GO:0005708 name: mitotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome involved in the process of mitosis." [GOC:ai] comment: This term was made obsolete because it is based on a process. To update annotations, consider the cellular component term 'condensed chromosome ; GO:0000793' and the cellular component term 'condensed nuclear chromosome ; GO:0000794'. is_obsolete: true [Term] id: GO:0005709 name: prophase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cell during prophase." [GOC:ai] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'chromosome ; GO:0005694'. is_obsolete: true [Term] id: GO:0005710 name: metaphase chromosome namespace: cellular_component def: "OBSOLETE. A chromosome found in the cell during metaphase. Typically, sister chromatids are held together at their centromeres and chromosomes are covered with a large number of molecules, including ribonucleoproteins." [GOC:ai] comment: This term was made obsolete because it is based on a temporal division of the cell cycle. To update annotations, consider the cellular component term 'condensed chromosome ; GO:0000793' and the cellular component term 'condensed nuclear chromosome ; GO:0000794'. is_obsolete: true [Term] id: GO:0005711 name: meiotic chromosome namespace: cellular_component def: "OBSOLETE. A chromosome involved in the process of meiosis." [GOC:ai] comment: This term was made obsolete because it is based on a process. To update annotations, consider the cellular component term 'condensed nuclear chromosome ; GO:0000794'. is_obsolete: true [Term] id: GO:0005712 name: chiasma namespace: cellular_component def: "A connection formed between chromatids, visible during meiosis, thought to be the point of the interchange involved in crossing-over." [ISBN:0198506732] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0005713 name: recombination nodule namespace: cellular_component def: "An electron dense structure that is associated with meiotic chromosomes." [GOC:elh] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000794 ! condensed nuclear chromosome [Term] id: GO:0005714 name: early recombination nodule namespace: cellular_component def: "An electron dense structure that is associated with meiotic chromosomes in leptotene or zygotene during meiosis I." [GOC:elh] is_a: GO:0005713 ! recombination nodule [Term] id: GO:0005715 name: late recombination nodule namespace: cellular_component def: "An electron dense structure that is associated with meiotic chromosomes in pachytene during meiosis I." [GOC:elh] is_a: GO:0005713 ! recombination nodule [Term] id: GO:0005716 name: synaptonemal complex namespace: cellular_component def: "OBSOLETE. A structure that holds paired chromosomes together during prophase I of meiosis and that promotes genetic recombination." [ISBN:0198506732] comment: This term was made obsolete because the definition is not true for every organism. To update annotations, use the cellular component term 'synaptonemal complex ; GO:0000795'. is_obsolete: true [Term] id: GO:0005717 name: chromatin namespace: cellular_component def: "OBSOLETE. The network of fibers of DNA and protein that make up the chromosomes of the eukaryotic nucleus during interphase. It stains strongly with basic dyes. Some parts of the chromosomes are highly dispersed (called euchromatin) and other parts are highly condensed (called heterochromatin). Chromatin is made up of repeating units, each unit consisting of some 200 DNA base pairs and two each of histones H2A, H2B, H3, and H4; most of the DNA is wound around the outside of a core of histories to form nucleosomes. The remainder of the DNA, linker DNA, joins adjacent nucleosomes, thereby contributing flexibility to the chromatin fiber, a flexibly jointed chain of nucleosomes." [ISBN:0198506732] comment: This term was made obsolete because the definition is too specific. To update annotations, consider the cellular component term 'chromatin ; GO:0000785' and its children. is_obsolete: true [Term] id: GO:0005718 name: nucleosome namespace: cellular_component def: "OBSOLETE. A particle that forms the primary packing unit of DNA in chromatin. Each consists of a segment of duplex DNA, 160-240 base pairs long, with associated histone proteins; about 146 base pairs of the DNA comprise a core particle and the remainder form the linker DNA. The core particle is a disk-like structure, 11 nm in diameter and 5.7 nm thick, consisting of two molecules each of histories H2A, H2B, H3, and H4 with approximately two superhelical turns of double-stranded DNA wound round it. In many species, an average of one molecule of histone H1 (or a variant) is on the exterior of each core particle and appears to mediate the packing together of adjacent nucleosomes in condensed chromatin." [GOC:krc, ISBN:0198547684] comment: This term was made obsolete because its definition is too specific; in addition to these common histones mentioned in the definition, there are histone variants. To update annotations, consider the cellular component term 'nucleosome ; GO:0000786' and its children. is_obsolete: true [Term] id: GO:0005719 name: nuclear euchromatin namespace: cellular_component def: "The dispersed less dense form of chromatin in the interphase nucleus. It exists in at least two forms, a some being in the form of transcriptionally active chromatin which is the least condensed, while the rest is inactive euchromatin which is more condensed than active chromatin but less condensed than heterochromatin." [ISBN:0198506732] is_a: GO:0000790 ! nuclear chromatin is_a: GO:0000791 ! euchromatin [Term] id: GO:0005720 name: nuclear heterochromatin namespace: cellular_component def: "A condensed form of chromatin, occurring in the nucleus during interphase, that stains strongly with basophilic dyes. The DNA of heterochromatin is typically replicated at a later stage in the cell-division cycle than euchromatin." [ISBN:0198506732] is_a: GO:0000790 ! nuclear chromatin is_a: GO:0000792 ! heterochromatin [Term] id: GO:0005721 name: centric heterochromatin namespace: cellular_component def: "Chromatin located near the centromere of a chromosome." [PMID:12019236] exact_synonym: "centromeric heterochromatin" [] is_a: GO:0000792 ! heterochromatin relationship: part_of GO:0000775 ! chromosome, pericentric region [Term] id: GO:0005722 name: beta-heterochromatin namespace: cellular_component def: "A diffusely banded region of heterochromatin located between euchromatin and alpha-heterochromatin in the polytene chromosome chromocenter; normally replicated during polytenization." [PMID:11404334, PMID:8878678] is_a: GO:0005721 ! centric heterochromatin relationship: part_of GO:0005701 ! polytene chromosome chromocenter [Term] id: GO:0005723 name: alpha-heterochromatin namespace: cellular_component def: "A small, compact region of heterochromatin located in the middle of the polytene chromosome chromocenter, which undergoes little or no replication during polytenization." [PMID:8878678] is_a: GO:0005721 ! centric heterochromatin relationship: part_of GO:0005701 ! polytene chromosome chromocenter [Term] id: GO:0005724 name: nuclear telomeric heterochromatin namespace: cellular_component def: "Heterochromatic regions of the chromosome found at the telomeres of a chromosome in the nucleus." [GOC:ai] is_a: GO:0005720 ! nuclear heterochromatin is_a: GO:0031933 ! telomeric heterochromatin relationship: part_of GO:0000784 ! nuclear chromosome, telomeric region [Term] id: GO:0005725 name: intercalary heterochromatin namespace: cellular_component def: "Any of the regions of heterochromatin that form a reproducible set of dense bands scattered along the euchromatic arms in polytene chromosomes." [PMID:14579245] is_a: GO:0005720 ! nuclear heterochromatin [Term] id: GO:0005726 name: perichromatin fibrils namespace: cellular_component def: "Structures of variable diameter visible in the nucleoplasm by electron microscopy, mainly observed near the border of condensed chromatin. The fibrils are enriched in RNA, and are believed to be sites of pre-mRNA splicing and polyadenylylation representing the in situ form of nascent transcripts." [PMID:14731598] is_a: GO:0044454 ! nuclear chromosome part relationship: part_of GO:0000790 ! nuclear chromatin [Term] id: GO:0005727 name: extrachromosomal circular DNA namespace: cellular_component def: "Circular DNA structures that are not part of a chromosome." [GOC:ai] subset: gosubset_prok related_synonym: "plasmid binding" [] is_a: GO:0044424 ! intracellular part relationship: part_of GO:0046821 ! extrachromosomal DNA [Term] id: GO:0005728 name: extrachromosomal rDNA circle namespace: cellular_component def: "Circular DNA molecules encoding ribosomal RNA that are replicated independently of chromosomal replication. These molecules originate in the chromosome but are excised and circularized, often by intramolecular homologous recombination between direct tandem repeats." [GOC:mah, PMID:12044934] exact_synonym: "extrachromosomal ribosomal DNA circle" [] is_a: GO:0005727 ! extrachromosomal circular DNA [Term] id: GO:0005729 name: 2-micrometer circle DNA namespace: cellular_component def: "A plasmid commonly found in Saccharomyces, inherited in a non-Mendelian manner and often present in 100-400 copies." [PMID:12073320] is_a: GO:0005727 ! extrachromosomal circular DNA [Term] id: GO:0005730 name: nucleolus namespace: cellular_component def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044428 ! nuclear part relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0005731 name: nucleolus organizer complex namespace: cellular_component exact_synonym: "nucleolus organiser complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0005732 name: small nucleolar ribonucleoprotein complex namespace: cellular_component def: "A complex composed of RNA of the small nucleolar RNA (snoRNA) and protein, found in the nucleolus of a eukaryotic cell. Most are involved in a step of processing of rRNA: cleavage, 2'-O-methylation, or pseudouridylation. The majority, though not all, fall into one of two classes, box C/D type or box H/ACA type." [GOC:krc, GOC:mah, ISBN:0879695897] exact_synonym: "small nucleolar ribonucleoprotein" [] exact_synonym: "snoRNP" [] is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0005733 name: small nucleolar RNA namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. exact_synonym: "snoRNA" [] is_obsolete: true [Term] id: GO:0005734 name: box C + D snoRNP protein namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. is_obsolete: true [Term] id: GO:0005735 name: box H + ACA snoRNP protein namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a gene product. is_obsolete: true [Term] id: GO:0005736 name: DNA-directed RNA polymerase I complex namespace: cellular_component def: "RNA polymerase I, one of three eukaryotic nuclear RNA polymerases, is a multisubunit complex; it produces rRNAs. Two large subunits comprise the most conserved portion including the catalytic site and share similarity with other eukaryotic and bacterial multisubunit RNA polymerases. The remainder of the complex is composed of smaller subunits (generally ten or more), some of which are also found in RNA polymerase III and others which are found in all three nuclear RNA polymerases. Although the core is competent to mediate ribonucleic acid synthesis, it requires additional factors to select the appropriate template." [GOC:krc] related_synonym: "DNA-directed RNA polymerase I activity" [] is_a: GO:0030880 ! RNA polymerase complex is_a: GO:0044452 ! nucleolar part [Term] id: GO:0005737 name: cytoplasm namespace: cellular_component def: "All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0044424 ! intracellular part [Term] id: GO:0005739 name: mitochondrion namespace: cellular_component def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast exact_synonym: "mitochondria" [] is_a: GO:0043231 ! intracellular membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005740 name: mitochondrial envelope namespace: cellular_component def: "The double lipid bilayer enclosing the mitochondrion and separating its contents from the cell cytoplasm; includes the intermembrane space." [GOC:ai, GOC:pz] subset: goslim_yeast is_a: GO:0031967 ! organelle envelope is_a: GO:0044429 ! mitochondrial part [Term] id: GO:0005741 name: mitochondrial outer membrane namespace: cellular_component def: "The outer, i.e. cytoplasm-facing, lipid bilayer of the mitochondrial envelope." [GOC:ai] related_synonym: "metaxin" [] is_a: GO:0031966 ! mitochondrial membrane is_a: GO:0031968 ! organelle outer membrane [Term] id: GO:0005742 name: mitochondrial outer membrane translocase complex namespace: cellular_component def: "A large complex of the mitochondrial outer membrane that mediates transport of proteins into all mitochondrial compartments." [PMID:12581629] narrow_synonym: "GIP complex" [] narrow_synonym: "TOM complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005741 ! mitochondrial outer membrane [Term] id: GO:0005743 name: mitochondrial inner membrane namespace: cellular_component def: "The inner, i.e. lumen-facing, lipid bilayer of the mitochondrial envelope. It is highly folded to form cristae." [GOC:ai] is_a: GO:0019866 ! organelle inner membrane is_a: GO:0031966 ! mitochondrial membrane [Term] id: GO:0005744 name: mitochondrial inner membrane presequence translocase complex namespace: cellular_component def: "The protein transport machinery of the mitochondrial inner membrane that contains three essential Tim proteins: Tim17 and Tim23 are thought to build a preprotein translocation channel while Tim44 interacts transiently with the matrix heat-shock protein Hsp70 to form an ATP-driven import motor." [EC:3.6.3.51, PMID:8851659] comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'. exact_synonym: "mitochondrial inner membrane pre-sequence translocase complex" [] exact_synonym: "mitochondrial inner membrane translocase complex" [] narrow_synonym: "Tim23 complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005743 ! mitochondrial inner membrane [Term] id: GO:0005745 name: m-AAA complex namespace: cellular_component def: "Protease complex of the mitochondrial inner membrane that is involved in mitochondrial protein turnover and in processing of proteins imported into mitochondria." [PMID:12417197] is_a: GO:0043234 ! protein complex is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005743 ! mitochondrial inner membrane [Term] id: GO:0005746 name: mitochondrial electron transport chain namespace: cellular_component def: "The protein complexes that form the mitochondrial electron transport system (the respiratory chain). Complexes I, III and IV can transport protons if embedded in an oriented membrane, such as an intact mitochondrial inner membrane." [ISBN:0198547684] exact_synonym: "respiratory chain" [] is_a: GO:0044455 ! mitochondrial membrane part relationship: part_of GO:0005743 ! mitochondrial inner membrane [Term] id: GO:0005747 name: respiratory chain complex I (sensu Eukaryota) namespace: cellular_component alt_id: GO:0005748 def: "A part of the respiratory chain, containing about 25 different polypeptide subunits, including NADH dehydrogenase (ubiquinone), flavin mononucleotide and several different iron-sulfur clusters containing non-heme iron; the iron undergoes oxidation-reduction between Fe(II) and Fe(III). Catalyzes proton translocation linked to the oxidation of NADH by ubiquinone. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0198547684] exact_synonym: "NADH dehydrogenase complex (ubiquinone) (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045271 ! respiratory chain complex I relationship: part_of GO:0005746 ! mitochondrial electron transport chain [Term] id: GO:0005749 name: respiratory chain complex II (sensu Eukaryota) namespace: cellular_component alt_id: GO:0008136 alt_id: GO:0009362 alt_id: GO:0019738 alt_id: GO:0030390 def: "A part of the respiratory chain, containing the four polypeptide subunits of succinate dehydrogenase, flavin-adenine dinucleotide and iron-sulfur. Catalyzes the oxidation of succinate by ubiquinone. Connects the TCA cycle with the respiratory chain. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0198547684] exact_synonym: "fumarate reductase complex (sensu Eukaryota)" [] exact_synonym: "succinate dehydrogenase complex (sensu Eukaryota)" [] exact_synonym: "succinate dehydrogenase complex (ubiquinone) (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045257 ! succinate dehydrogenase complex (ubiquinone) is_a: GO:0045281 ! succinate dehydrogenase complex is_a: GO:0045283 ! fumarate reductase complex relationship: part_of GO:0005746 ! mitochondrial electron transport chain [Term] id: GO:0005750 name: respiratory chain complex III (sensu Eukaryota) namespace: cellular_component alt_id: GO:0015008 def: "A part of the respiratory chain, containing about 10 polypeptide subunits including four redox centers: cytochrome b/b6, cytochrome c1 and an 2Fe-2S cluster. Catalyzes the oxidation of ubiquinol by oxidized cytochrome c1. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0198547684] exact_synonym: "ubiquinol-cytochrome c oxidoreductase complex (sensu Eukaryota)" [] exact_synonym: "ubiquinol-cytochrome-c reductase complex (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045275 ! respiratory chain complex III is_a: GO:0045285 ! ubiquinol-cytochrome-c reductase complex relationship: part_of GO:0005746 ! mitochondrial electron transport chain [Term] id: GO:0005751 name: respiratory chain complex IV (sensu Eukaryota) namespace: cellular_component alt_id: GO:0005752 def: "A part of the respiratory chain, containing the 13 polypeptide subunits of cytochrome c oxidase, including cytochrome a and cytochrome a3. Catalyzes the oxidation of reduced cytochrome c by dioxygen (O2). Found in eukaryotes. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0198547684] exact_synonym: "cytochrome c oxidase complex (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045277 ! respiratory chain complex IV relationship: part_of GO:0005746 ! mitochondrial electron transport chain [Term] id: GO:0005753 name: proton-transporting ATP synthase complex (sensu Eukaryota) namespace: cellular_component alt_id: GO:0016470 def: "The complex that catalyzes the phosphorylation of ADP to ATP in mitochondria, during oxidative phosphorylation; it catalyzes the hydrolysis of ATP to ADP and orthophosphate. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:mah, ISBN:0198547684] exact_synonym: "hydrogen-translocating F-type ATPase complex (sensu Eukaryota)" [] exact_synonym: "respiratory chain complex V (sensu Eukaryota)" [] broad_synonym: "hydrogen-transporting ATP synthase" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045255 ! hydrogen-translocating F-type ATPase complex is_a: GO:0045259 ! proton-transporting ATP synthase complex relationship: part_of GO:0005743 ! mitochondrial inner membrane [Term] id: GO:0005754 name: proton-transporting ATP synthase, catalytic core (sensu Eukaryota) namespace: cellular_component def: "The hexamer that possesses the catalytic activity of the mitochondrial hydrogen-transporting ATP synthase. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [PMID:10838056] exact_synonym: "hydrogen-transporting ATP synthase, catalytic core (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045267 ! proton-transporting ATP synthase, catalytic core relationship: part_of GO:0000275 ! proton-transporting ATP synthase complex, catalytic core F(1) (sensu Eukaryota) [Term] id: GO:0005755 name: hydrogen-transporting ATP synthase, coupling factor CF(0) namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more specific terms were created. To update annotations, consider the cellular component term 'proton-transporting ATP synthase complex, coupling factor F(o) ; GO:0045263' and its children. is_obsolete: true [Term] id: GO:0005756 name: proton-transporting ATP synthase, central stalk (sensu Eukaryota) namespace: cellular_component def: "One of two stalks that connect the catalytic core of the hydrogen-transporting ATP synthase to the membrane-associated F0 proteins; rotates within the catalytic core during catalysis. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [PMID:10838056] exact_synonym: "hydrogen-transporting ATP synthase, central stalk (sensu Eukaryota)" [] is_a: GO:0044455 ! mitochondrial membrane part is_a: GO:0045269 ! proton-transporting ATP synthase, central stalk relationship: part_of GO:0000275 ! proton-transporting ATP synthase complex, catalytic core F(1) (sensu Eukaryota) [Term] id: GO:0005757 name: mitochondrial permeability transition pore namespace: cellular_component exact_synonym: "mitochondrial PT pore" [] is_a: GO:0044429 ! mitochondrial part [Term] id: GO:0005758 name: mitochondrial intermembrane space namespace: cellular_component alt_id: GO:0031971 def: "The region between the inner and outer lipid bilayers of the mitochondrial envelope." [GOC:mah] related_synonym: "mitochondrial membrane lumen" [] exact_synonym: "mitochondrial envelope lumen" [] is_a: GO:0031970 ! organelle envelope lumen is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0005740 ! mitochondrial envelope [Term] id: GO:0005759 name: mitochondrial matrix namespace: cellular_component def: "The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and, in some organisms, the enzymes concerned with fatty-acid oxidation." [GOC:as, ISBN:0198506732] narrow_synonym: "mitochondrial stroma" [] is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0031980 ! mitochondrial lumen [Term] id: GO:0005760 name: gamma DNA polymerase complex namespace: cellular_component def: "A heterodimer consisting of a large subunit, responsible for the catalytic activities, and a small accessory subunit. Functions in the replication and repair of mitochondrial DNA." [GOC:jl, PMID:12045093] is_a: GO:0043234 ! protein complex is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0005759 ! mitochondrial matrix [Term] id: GO:0005761 name: mitochondrial ribosome namespace: cellular_component def: "A ribosome found in the mitochondrion of a eukaryotic cell; contains a characteristic set of proteins distinct from those of cytosolic ribosomes." [GOC:mah, ISBN:0198506732] is_a: GO:0000313 ! organellar ribosome is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0005759 ! mitochondrial matrix [Term] id: GO:0005762 name: mitochondrial large ribosomal subunit namespace: cellular_component def: "The larger of the two subunits of a mitochondrial ribosome. Two sites on the ribosomal large subunit are involved in translation: the aminoacyl site (A site) and peptidyl site (P site)." [GOC:mcc] is_a: GO:0000315 ! organellar large ribosomal subunit is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0005761 ! mitochondrial ribosome [Term] id: GO:0005763 name: mitochondrial small ribosomal subunit namespace: cellular_component def: "The smaller of the two subunits of a mitochondrial ribosome." [GOC:mcc] is_a: GO:0000314 ! organellar small ribosomal subunit is_a: GO:0044429 ! mitochondrial part relationship: part_of GO:0005761 ! mitochondrial ribosome [Term] id: GO:0005764 name: lysosome namespace: cellular_component def: "Any of a group of related cytoplasmic, membrane bound organelles that are found in most animal cells and that contain a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant related_synonym: "lysosomal cysteine-type endopeptidase" [] related_synonym: "lysosomal protein stabilization" [] is_a: GO:0000323 ! lytic vacuole [Term] id: GO:0005765 name: lysosomal membrane namespace: cellular_component def: "The lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm." [GOC:ai] is_a: GO:0005774 ! vacuolar membrane relationship: part_of GO:0005764 ! lysosome [Term] id: GO:0005766 name: primary lysosome namespace: cellular_component def: "A lysosome before it has fused with a vesicle or vacuole." [GOC:jl, http://cancerweb.ncl.ac.uk/] is_a: GO:0005764 ! lysosome [Term] id: GO:0005767 name: secondary lysosome namespace: cellular_component def: "Vacuole formed by the fusion of a lysosome with an organelle (autosome) or with a primary phagosome." [GOC:jl, http://cancerweb.ncl.ac.uk/] is_a: GO:0005764 ! lysosome [Term] id: GO:0005768 name: endosome namespace: cellular_component def: "A membrane-bound organelle that carries materials newly ingested by endocytosis. It passes many of the materials to lysosomes for degradation." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant related_synonym: "endosomal oligosaccharide transporter" [] is_a: GO:0043231 ! intracellular membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005769 name: early endosome namespace: cellular_component def: "Small irregularly shaped intracellular vesicles to which endocytosed molecules are initially delivered." [GOC:rb] is_a: GO:0005768 ! endosome [Term] id: GO:0005770 name: late endosome namespace: cellular_component def: "A prelysosomal endocytic organelle differentiated from early endosomes by lower lumenal pH and different protein composition. Late endosomes are more spherical than early endosomes and are mostly juxtanuclear, being concentrated near the microtubule organizing center." [PMID:11964142, PMID:2557062] exact_synonym: "prevacuolar compartment" [] broad_synonym: "PVC" [] is_a: GO:0005768 ! endosome [Term] id: GO:0005771 name: multivesicular body namespace: cellular_component def: "A type of late endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm." [PMID:11566881] exact_synonym: "MVB" [] is_a: GO:0005770 ! late endosome [Term] id: GO:0005773 name: vacuole namespace: cellular_component def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "vacuolar carboxypeptidase Y" [] is_a: GO:0043231 ! intracellular membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005774 name: vacuolar membrane namespace: cellular_component def: "The lipid bilayer surrounding the vacuole and separating its contents from the cytoplasm of the cell." [GOC:ai] subset: gosubset_prok is_a: GO:0031090 ! organelle membrane is_a: GO:0044437 ! vacuolar part [Term] id: GO:0005775 name: vacuolar lumen namespace: cellular_component def: "The volume enclosed within the vacuolar membrane." [ISBN:0198506732] is_a: GO:0043233 ! organelle lumen is_a: GO:0044437 ! vacuolar part [Term] id: GO:0005776 name: autophagic vacuole namespace: cellular_component def: "A double-membrane bound vesicle in which endogenous cellular material is sequestered; known as autophagosome in yeast." [ISBN:0198547684, PMID:11099404] exact_synonym: "autophagosome" [] is_a: GO:0005773 ! vacuole [Term] id: GO:0005777 name: peroxisome namespace: cellular_component alt_id: GO:0019818 def: "A small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules; contains some enzymes that produce and others that degrade hydrogen peroxide (H2O2)." [ISBN:0815316194] subset: goslim_generic subset: goslim_plant subset: goslim_yeast related_synonym: "peroxisomal fatty acyl transporter" [] related_synonym: "peroxisomal membrane transporter" [] related_synonym: "peroxisome receptor" [] broad_synonym: "peroxisome vesicle" [] is_a: GO:0042579 ! microbody [Term] id: GO:0005778 name: peroxisomal membrane namespace: cellular_component def: "The lipid bilayer surrounding a peroxisome." [GOC:mah] related_synonym: "peroxisome integral membrane receptor" [] is_a: GO:0031903 ! microbody membrane is_a: GO:0044439 ! peroxisomal part [Term] id: GO:0005779 name: integral to peroxisomal membrane namespace: cellular_component def: "Penetrating at least one phospholipid bilayer of a peroxisomal membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer." [GOC:mah] is_a: GO:0031231 ! intrinsic to peroxisomal membrane is_a: GO:0031301 ! integral to organelle membrane [Term] id: GO:0005780 name: extrinsic to intraperoxisomal membrane namespace: cellular_component def: "Loosely bound to the intraperoxisomal surface of the peroxisomal membrane, but not integrated into the hydrophobic region." [GOC:mah] related_synonym: "intra-peroxisomal peripheral membrane" [] is_a: GO:0031312 ! extrinsic to organelle membrane is_a: GO:0044439 ! peroxisomal part relationship: part_of GO:0005778 ! peroxisomal membrane [Term] id: GO:0005781 name: peroxisome targeting signal receptor complex namespace: cellular_component is_a: GO:0043235 ! receptor complex is_a: GO:0044439 ! peroxisomal part [Term] id: GO:0005782 name: peroxisomal matrix namespace: cellular_component def: "The material contained within the membrane of a peroxisome; in many cells the matrix contains a crystalloid core largely composed of urate oxidase." [GOC:mah, ISBN:0815316194] is_a: GO:0044439 ! peroxisomal part [Term] id: GO:0005783 name: endoplasmic reticulum namespace: cellular_component def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast exact_synonym: "ER" [] is_a: GO:0043231 ! intracellular membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005784 name: translocon complex namespace: cellular_component def: "A translocation complex that constitutes the specific site of protein translocation across the endoplasmic reticulum, which involves the signal recognition particle receptor. Composed of a heterotetramer of alpha, beta, gamma and delta subunits (translocon-associated proteins or TRAPs). In yeast it is a heterotrimeric complex consisting of Sec61p, Sbh1p, and Sss1p. The Sec61 complex functions in cotranslational and posttranslational translocation events." [GOC:rb, ISBN:0198599471] narrow_synonym: "sec61 complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044432 ! endoplasmic reticulum part relationship: part_of GO:0030867 ! rough endoplasmic reticulum membrane [Term] id: GO:0005785 name: signal recognition particle receptor complex namespace: cellular_component def: "A transmembrane heterodimeric protein located in the membrane of the rough endoplasmic reticulum. Both subunits contain GTPase domains with which signal recognition particle interacts. In the presence of GTP and SRP receptor, SRP is released from the ribosome-nascent chain complex." [ISBN:0198506732] related_synonym: "docking protein complex" [] exact_synonym: "SR complex" [] is_a: GO:0043235 ! receptor complex is_a: GO:0044425 ! membrane part is_a: GO:0044432 ! endoplasmic reticulum part relationship: part_of GO:0030867 ! rough endoplasmic reticulum membrane [Term] id: GO:0005786 name: signal recognition particle (sensu Eukaryota) namespace: cellular_component alt_id: GO:0005855 def: "A ribonucleoprotein particle of 325 kDa composed of a 7S (300 nucleotide) RNA molecule and a complex of six different polypeptides. This binds both to the N-terminal signal peptide for proteins destined for the endoplasmic reticulum as they emerge from the large ribosomal subunit and also to the ribosome. This binding arrests further translation thereby preventing the proteins from being released into the cytosol. The SRP-ribosome complex then diffuses to the endoplasmic reticulum where it is bound to the signal recognition particle receptor, which allows resumption of protein synthesis and facilitates the passage of the growing polypeptide chain through the translocon. Through a process involving GTP hydrolysis, the SRP-SRP receptor complex dissociates and SRP returns to the cytosol. Of the six polypeptides of SRP the 54 kDa subunit (SRP54) is the central player. It contains an N-terminal GTPase domain and a C-terminal domain that binds directly to the signal peptide and the SRP RNA. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0198506732] related_synonym: "signal-recognition-particle GTPase activity" [] exact_synonym: "signal sequence receptor complex" [] exact_synonym: "SRP" [] is_a: GO:0048500 ! signal recognition particle [Term] id: GO:0005787 name: signal peptidase complex namespace: cellular_component def: "A multi subunit protease complex located in the endoplasmic reticulum membrane that cleaves the signal sequence from precursor proteins following their transport out of the cytoplasmic space." [GOC:sgd_curators, PMID:1846444, PMID:7615509] is_a: GO:0043234 ! protein complex is_a: GO:0044425 ! membrane part is_a: GO:0044432 ! endoplasmic reticulum part relationship: part_of GO:0005789 ! endoplasmic reticulum membrane [Term] id: GO:0005788 name: endoplasmic reticulum lumen namespace: cellular_component def: "The volume enclosed by the membranes of the endoplasmic reticulum." [ISBN:0198547684] exact_synonym: "cisternal lumen" [] exact_synonym: "ER lumen" [] is_a: GO:0043233 ! organelle lumen is_a: GO:0044432 ! endoplasmic reticulum part [Term] id: GO:0005789 name: endoplasmic reticulum membrane namespace: cellular_component def: "The lipid bilayer surrounding the endoplasmic reticulum." [GOC:mah] exact_synonym: "ER membrane" [] is_a: GO:0031090 ! organelle membrane is_a: GO:0044425 ! membrane part is_a: GO:0044432 ! endoplasmic reticulum part relationship: part_of GO:0042175 ! nuclear envelope-endoplasmic reticulum network [Term] id: GO:0005790 name: smooth endoplasmic reticulum namespace: cellular_component def: "The smooth endoplasmic reticulum (ER) has with no ribosomes attached to it. The smooth is the recipient of the proteins synthesized in the rough ER. Those proteins to be exported are passed to the Golgi complex, the resident proteins are returned to the rough ER and the lysosomal proteins after phosphorylation of their mannose residues are passed to the lysosomes. Glycosylation of the glycoproteins also continues. The smooth ER is the site of synthesis of lipids, including the phospholipids. The membranes of the smooth ER also contain enzymes that catalyze a series of reactions to detoxify both lipid-soluble drugs and harmful products of metabolism. Large quantities of certain compounds such as phenobarbital cause an increase in the amount of the smooth ER." [ISBN:0198506732] exact_synonym: "smooth ER" [] is_a: GO:0005783 ! endoplasmic reticulum [Term] id: GO:0005791 name: rough endoplasmic reticulum namespace: cellular_component def: "The rough (or granular) endoplasmic reticulum (ER) has ribosomes adhering to the outer surface; the ribosomes are the site of translation of the mRNA for those proteins which are either to be retained within the cisternae (ER-resident proteins), the proteins of the lysosomes, or the proteins destined for export from the cell. Glycoproteins undergo their initial glycosylation within the cisternae." [ISBN:0198506732] exact_synonym: "rough ER" [] is_a: GO:0005783 ! endoplasmic reticulum [Term] id: GO:0005792 name: microsome namespace: cellular_component def: "Any of the small, heterogeneous, artifactual, vesicular particles, 50-150 nm in diameter, that are formed when some eukaryotic cells are homogenized and that sediment on centrifugation at 100000 g." [ISBN:0198506732] comment: Note that this term refers to disrupted cells, and does not necessarily correspond to any specific structure(s) in an intact cell. is_a: GO:0042598 ! vesicular fraction [Term] id: GO:0005793 name: ER-Golgi intermediate compartment namespace: cellular_component def: "A body found in cells where the endoplasmic reticulum is located several micrometers from the Golgi complex, formed from COP II coated vesicles that fuse with each other shortly after their formation." [ISBN:0716731363] exact_synonym: "endoplasmic reticulum-Golgi intermediate compartment" [] exact_synonym: "ERGIC" [] exact_synonym: "pre-Golgi intermediate compartment" [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005794 name: Golgi apparatus namespace: cellular_component def: "A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions." [ISBN:0198506732] comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. subset: goslim_generic subset: goslim_plant subset: goslim_yeast exact_synonym: "Golgi" [] exact_synonym: "Golgi complex" [] narrow_synonym: "Golgi ribbon" [] is_a: GO:0043231 ! intracellular membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005795 name: Golgi stack namespace: cellular_component alt_id: GO:0016940 def: "The set of thin, flattened membrane-bounded compartments, called cisternae, that form the central portion of the Golgi complex. The stack usually comprises cis, medial, and trans cisternae; the cis- and trans-Golgi networks are not considered part of the stack." [GOC:mah, ISBN:0815316194] exact_synonym: "Golgi cisternae" [] narrow_synonym: "dictyosome" [] is_a: GO:0044431 ! Golgi apparatus part [Term] id: GO:0005796 name: Golgi lumen namespace: cellular_component def: "The volume enclosed by the membranes of any cisterna of the Golgi apparatus." [GOC:mah] is_a: GO:0043233 ! organelle lumen is_a: GO:0044431 ! Golgi apparatus part [Term] id: GO:0005797 name: Golgi medial cisterna namespace: cellular_component def: "The middle Golgi cisterna (or cisternae)." [ISBN:0815316194] is_a: GO:0031985 ! Golgi cisterna [Term] id: GO:0005798 name: Golgi-associated vesicle namespace: cellular_component def: "Any vesicle associated with the Golgi complex and involved in mediating transport within the Golgi or between the Golgi and other parts of the cell." [GOC:mah] comment: Note that this definition includes vesicles that are transiently associated with the Golgi. related_synonym: "Golgi vesicle" [] is_a: GO:0016023 ! cytoplasmic membrane-bound vesicle is_a: GO:0044431 ! Golgi apparatus part [Term] id: GO:0005799 name: coatomer namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because its position and synonym implied that it confused a coated vesicle with the coat itself. To update annotations, consider the cellular component terms 'COPI vesicle coat ; GO:0030126' and 'COPI-coated vesicle ; GO:0030137'. related_synonym: "COPI vesicle" [] is_obsolete: true [Term] id: GO:0005800 name: COPII vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, consider the cellular component term 'ER to Golgi transport vesicle ; GO:0030134'. is_obsolete: true [Term] id: GO:0005801 name: Golgi cis-face namespace: cellular_component def: "The convex side of the Golgi apparatus, which abuts the endoplasmic reticulum." [ISBN:0198506732] exact_synonym: "forming face" [] is_a: GO:0044431 ! Golgi apparatus part [Term] id: GO:0005802 name: Golgi trans face namespace: cellular_component def: "The concave side of the Golgi apparatus, from which secretory vesicles emerge." [ISBN:0198506732] broad_synonym: "maturing face" [] broad_synonym: "trans-Golgi network" [] is_a: GO:0044431 ! Golgi apparatus part [Term] id: GO:0005803 name: secretory vesicle namespace: cellular_component def: "OBSOLETE. A small subcellular vesicle, or granule, surrounded by a single-layered membrane; formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion." [ISBN:0198547684] comment: This term was made obsolete because it was being used to describe two different components. To update annotations, consider the cellular component terms 'transport vesicle ; GO:0030133' and 'secretory granule ; GO:0030141'. exact_synonym: "secretory granule" [] narrow_synonym: "transition vesicle" [] broad_synonym: "transport vesicle" [] is_obsolete: true [Term] id: GO:0005804 name: secretory vesicle membrane namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because its parent was made obsolete. To update annotations, consider the cellular component terms 'transport vesicle membrane ; GO:0030658' and 'secretory granule membrane ; GO:0030667'. is_obsolete: true [Term] id: GO:0005805 name: ER-Golgi transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, consider the cellular component term 'ER to Golgi transport vesicle ; GO:0030134'. is_obsolete: true [Term] id: GO:0005806 name: Golgi-ER transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, consider the cellular component term 'Golgi to ER transport vesicle ; GO:0030142'. is_obsolete: true [Term] id: GO:0005807 name: inter-Golgi transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, consider the cellular component term 'inter-Golgi transport vesicle ; GO:0030143'. is_obsolete: true [Term] id: GO:0005808 name: Golgi-plasma membrane transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; a personal communication from John Armstrong indicated that a replacement term was not required, as TGN-Golgi transport is likely to be mediated by tubules rather than vesicles. To update annotations, consider the cellular component term 'transport vesicle ; GO:0030133'. is_obsolete: true [Term] id: GO:0005809 name: Golgi-vacuole transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, consider the cellular component term 'transport vesicle ; GO:0030133' and its children. is_obsolete: true [Term] id: GO:0005810 name: endocytotic transport vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology suggested that a new term was required. To update annotations, use the cellular component term 'endocytic vesicle ; GO:0030139'. is_obsolete: true [Term] id: GO:0005811 name: lipid particle namespace: cellular_component def: "Any particle of coalesced lipids in the cytoplasm of a cell. May include associated proteins." [GOC:mah] comment: Note that this term does not refer to vesicle, but instead to structures in which lipids do not necessarily form bilayers. subset: goslim_generic exact_synonym: "lipid droplet" [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005813 name: centrosome namespace: cellular_component def: "A structure comprised of a core structure (in most organisms, a pair of centrioles) and peripheral material from which a microtubule-based structure, such as a spindle apparatus, is organized. Centrosomes occur close to the nucleus during interphase in many eukaryotic cells, though in animal cells it changes continually during the cell-division cycle." [GOC:mah, ISBN:0198547684] is_a: GO:0005815 ! microtubule organizing center is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005814 name: centriole namespace: cellular_component def: "A cellular organelle, found close to the nucleus in many eukaryotic cells, consisting of a small cylinder with microtubular walls, 300-500 nm long and 150-250 nm in diameter. It contains nine short, parallel, peripheral microtubular fibrils, each fibril consisting of one complete microtubule fused to two incomplete microtubules. Cells usually have two centrioles, lying at right angles to each other. At division, each pair of centrioles generates another pair and the twin pairs form the pole of the mitotic spindle." [ISBN:0198547684] is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005813 ! centrosome [Term] id: GO:0005815 name: microtubule organizing center namespace: cellular_component def: "A region in a eukaryotic cell, such as a centrosome or basal body, from which microtubules grow." [ISBN:0815316194] subset: goslim_generic subset: goslim_yeast exact_synonym: "microtubule organising centre" [] exact_synonym: "MTOC" [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005816 name: spindle pole body namespace: cellular_component def: "The microtubule organizing center in fungi; functionally homologous to the animal cell centrosome." [ISBN:0879693568] is_a: GO:0005815 ! microtubule organizing center is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0000922 ! spindle pole [Term] id: GO:0005817 name: centrosomal mitotic factor namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:clt] comment: This term was made obsolete because it was not defined. is_obsolete: true [Term] id: GO:0005818 name: aster namespace: cellular_component def: "An array of microtubules emanating from a spindle pole MTOC that do not connect to kinetochores." [GOC:clt] is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0005819 ! spindle [Term] id: GO:0005819 name: spindle namespace: cellular_component def: "The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart." [ISBN:0198547684] is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005821 name: intermediate layer of spindle pole body namespace: cellular_component def: "Structure between the central and outer plaques of the spindle pole body." [PMID:9215630] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0005822 name: inner plaque of spindle pole body namespace: cellular_component def: "One of three laminate structures that form the spindle pole body; the inner plaque is in the nucleus." [ISBN:0879693568] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0005823 name: central plaque of spindle pole body namespace: cellular_component def: "One of three laminate structures that form the spindle pole body; the central plaque is embedded in the nuclear envelope." [ISBN:0879693568] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0005824 name: outer plaque of spindle pole body namespace: cellular_component def: "One of three laminate structures that form the spindle pole body; the outer plaque is in the cytoplasm." [ISBN:0879693568] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0005825 name: half bridge of spindle pole body namespace: cellular_component def: "Structure adjacent to the plaques of the spindle pole body." [ISBN:0879693568] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044450 ! microtubule organizing center part relationship: part_of GO:0005816 ! spindle pole body [Term] id: GO:0005826 name: contractile ring namespace: cellular_component alt_id: GO:0030480 def: "A cytoskeletal structure composed of actin filaments and myosin that forms beneath the plasma membrane of many cells, including animal cells and yeast cells, in a plane perpendicular to the axis of the spindle, i.e. the cell division plane. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two daughter cells. In animal cells, the contractile ring is located inside the plasma membrane at the location of the cleavage furrow. In budding fungal cells, e.g. mitotic S. cerevisiae cells, the contractile ring forms beneath the plasma membrane at the mother-bud neck before mitosis." [GOC:expert_jrp, GOC:sgd_curators, ISBN:0805319409, ISBN:0815316194] related_synonym: "actomyosin ring" [] related_synonym: "constriction ring" [] exact_synonym: "CAR" [] exact_synonym: "contractile actomyosin ring" [] narrow_synonym: "actomyosin ring (sensu Fungi)" [] narrow_synonym: "contractile ring (sensu Fungi)" [] narrow_synonym: "cytokinetic ring (sensu Fungi)" [] is_a: GO:0032155 ! cell division site part is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044448 ! cell cortex part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0005827 name: polar microtubule namespace: cellular_component def: "Any of the spindle microtubules that come from each pole and overlap at the spindle midzone. This interdigitating structure consisting of antiparallel microtubules is responsible for pushing the poles of the spindle apart." [ISBN:0815316194] exact_synonym: "pole-to-pole microtubule" [] is_a: GO:0005876 ! spindle microtubule relationship: part_of GO:0000922 ! spindle pole [Term] id: GO:0005828 name: kinetochore microtubule namespace: cellular_component def: "Any of the spindle microtubules that attach to the kinetochores of chromosomes by their plus ends, and maneuver the chromosomes during mitotic or meiotic chromosome segregation." [ISBN:0815316194] exact_synonym: "pole-to-kinetochore microtubule" [] is_a: GO:0005876 ! spindle microtubule [Term] id: GO:0005829 name: cytosol namespace: cellular_component def: "That part of the cytoplasm that does not contain membranous or particulate subcellular components." [ISBN:0198547684] subset: goslim_generic subset: goslim_plant subset: gosubset_prok is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005830 name: cytosolic ribosome (sensu Eukaryota) namespace: cellular_component def: "A ribosome found in the cytosol; this term can also be used to refer to ribosomes associated with the endoplasmic reticulum in eukaryotic cells. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:mah] narrow_synonym: "80S ribosome" [] is_a: GO:0005840 ! ribosome is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005831 name: steroid hormone aporeceptor complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005832 name: chaperonin-containing T-complex namespace: cellular_component def: "A multisubunit ring-shaped complex that mediates protein folding in the cytosol without a cofactor." [GOC:sgd_curators, PMID:11580267] exact_synonym: "CCT particle" [] exact_synonym: "TriC" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005833 name: hemoglobin complex namespace: cellular_component def: "An iron-containing, oxygen carrying complex. In vertebrates it is made up of two pairs of associated globin polypeptide chains, each chain carrying a noncovalently bound heme prosthetic group." [GOC:jl, ISBN:0198506732] exact_synonym: "haemoglobin complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005834 name: heterotrimeric G-protein complex namespace: cellular_component def: "Any of a family of heterotrimeric GTP-binding and hydrolyzing proteins; they belong to a superfamily of GTPases that includes monomeric proteins such as EF-Tu and RAS. Heterotrimeric G-proteins consist of three subunits; the alpha subunit contains the guanine nucleotide binding site and possesses GTPase activity; the beta and gamma subunits are tightly associated and function as a beta-gamma heterodimer; extrinsic plasma membrane proteins (cytoplasmic face) that function as a complex to transduce signals from G-protein coupled receptors to an effector protein." [ISBN:0198547684] comment: See also the molecular function term 'G-protein coupled receptor activity ; GO:0004930'. subset: gosubset_prok related_synonym: "heterotrimeric G-protein GTPase activity" [] exact_synonym: "heterotrimeric G-protein" [] narrow_synonym: "heterotrimeric G-protein GTPase, alpha-subunit" [] narrow_synonym: "heterotrimeric G-protein GTPase, beta-subunit" [] narrow_synonym: "heterotrimeric G-protein GTPase, gamma-subunit" [] is_a: GO:0019897 ! extrinsic to plasma membrane is_a: GO:0043234 ! protein complex [Term] id: GO:0005835 name: fatty acid synthase complex namespace: cellular_component def: "A multienzyme complex required to convert carbohydrates to fatty acids, specifically acetyl CoA to palmitate." [GOC:sgd_curators, ISBN:0716746840] subset: gosubset_prok related_synonym: "holo-[acyl-carrier protein] synthase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005836 name: fatty-acyl-CoA synthase complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005837 name: 26S proteasome namespace: cellular_component def: "OBSOLETE. A large multisubunit protease found in the cytosol that recognizes, unfolds, and digests protein substrates that have been marked for degradation by the attachment of a ubiquitin moiety. Individual subcomplexes of the complete 26S proteasome are involved in these different tasks: the ATP-dependent 19S caps are believed to unfold substrates and feed them to the actual protease, the 20S proteasome." [PMID:10410804] comment: This term was made obsolete because its definition was inaccurate. To update annotations, consider the cellular component terms 'proteasome core complex (sensu Bacteria) ; GO:0000503', 'proteasome regulatory particle (sensu Bacteria) ; GO:0000504', and 'proteasome complex (sensu Eukaryota) ; GO:0000502' and its children. is_obsolete: true [Term] id: GO:0005838 name: proteasome regulatory particle (sensu Eukaryota) namespace: cellular_component def: "A multisubunit complex, which caps one or both ends of the proteasome core complex. This complex recognizes, unfolds ubiquitinated proteins and translocates them to the proteasome core complex. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:rb] narrow_synonym: "19S regulatory particle" [] narrow_synonym: "PA700 proteasome activator" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part relationship: part_of GO:0000502 ! proteasome complex (sensu Eukaryota) [Term] id: GO:0005839 name: proteasome core complex (sensu Eukaryota) namespace: cellular_component def: "A multisubunit barrel shaped endoprotease complex, which is the core of the proteasome complex. This complex is involved in the proteolysis of substrates in an ATP dependent manner and consists of four ring-like structures, two outer and two inner, each containing seven subunits. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:rb, PMID:10806206] exact_synonym: "macropain" [] narrow_synonym: "20S core complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part relationship: part_of GO:0000502 ! proteasome complex (sensu Eukaryota) [Term] id: GO:0005840 name: ribosome namespace: cellular_component def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok narrow_synonym: "ribosomal RNA" [] is_a: GO:0030529 ! ribonucleoprotein complex is_a: GO:0043232 ! intracellular non-membrane-bound organelle is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005842 name: cytosolic large ribosomal subunit (sensu Eukaryota) namespace: cellular_component def: "The large subunit of a ribosome; has a sedimentation coefficient of 60S. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:jic] narrow_synonym: "60S ribosomal subunit" [] broad_synonym: "cytosolic large ribosomal subunit" [] is_a: GO:0015934 ! large ribosomal subunit is_a: GO:0044445 ! cytosolic part relationship: part_of GO:0005830 ! cytosolic ribosome (sensu Eukaryota) [Term] id: GO:0005843 name: cytosolic small ribosomal subunit (sensu Eukaryota) namespace: cellular_component def: "The small subunit of a eukaryotic cytosolic ribosome; has a sedimentation coefficient of 40S. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:mah] narrow_synonym: "40S ribosomal subunit" [] broad_synonym: "cytosolic small ribosomal subunit" [] is_a: GO:0015935 ! small ribosomal subunit is_a: GO:0044445 ! cytosolic part relationship: part_of GO:0005830 ! cytosolic ribosome (sensu Eukaryota) relationship: part_of GO:0016282 ! eukaryotic 43S preinitiation complex relationship: part_of GO:0016283 ! eukaryotic 48S initiation complex [Term] id: GO:0005844 name: polysome namespace: cellular_component def: "Several ribosomes bound to one mRNA." [ISBN:0198506732] exact_synonym: "polyribosome" [] is_a: GO:0030529 ! ribonucleoprotein complex [Term] id: GO:0005845 name: mRNA cap complex namespace: cellular_component def: "Any complex that binds to an mRNA cap at any time in the lifetime of the mRNA." [GOC:jic] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005846 name: snRNA cap binding complex namespace: cellular_component is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005847 name: mRNA cleavage and polyadenylation specificity factor complex namespace: cellular_component def: "A multisubunit complex that binds to the canonical AAUAAA hexamer and to U-rich upstream sequence elements on the pre-mRNA, thereby stimulating the otherwise weakly active and nonspecific polymerase to elongate efficiently RNAs containing a poly(A) signal." [PMID:14749727] related_synonym: "CFII complex" [] related_synonym: "cleavage and polyadenylylation specificity factor activity" [] narrow_synonym: "CPF complex" [] narrow_synonym: "CPSF complex" [] is_a: GO:0005849 ! mRNA cleavage factor complex [Term] id: GO:0005848 name: mRNA cleavage stimulating factor complex namespace: cellular_component def: "A protein complex required for mRNA cleavage but not for poly(A) addition." [GOC:mah, PMID:10357856] related_synonym: "cleavage stimulation factor activity" [] narrow_synonym: "CstF complex" [] is_a: GO:0005849 ! mRNA cleavage factor complex [Term] id: GO:0005849 name: mRNA cleavage factor complex namespace: cellular_component def: "Any macromolecular complex involved in cleavage or polyadenylation of mRNA molecules." [GOC:mah, PMID:10357856] is_a: GO:0043234 ! protein complex is_a: GO:0044451 ! nucleoplasm part [Term] id: GO:0005850 name: eukaryotic translation initiation factor 2 complex namespace: cellular_component def: "Complex of three heterogeneous polypeptide chains, that form a ternary complex with initiator methionyl-tRNA and GTP. This ternary complex binds to free 40S subunit, which subsequently binds the 5' end of mRNA." [PMID:10216940] exact_synonym: "eIF-2" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0016282 ! eukaryotic 43S preinitiation complex [Term] id: GO:0005851 name: eukaryotic translation initiation factor 2B complex namespace: cellular_component def: "A multisubunit guanine nucleotide exchange factor which catalyzes the exchange of GDP bound to initiation factor eIF2 for GTP, generating active eIF2-GTP. in humans, it is composed of five subunits, alpha, beta, delta, gamma and epsilon." [PMID:9438375] exact_synonym: "eIF-2B" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005852 name: eukaryotic translation initiation factor 3 complex namespace: cellular_component def: "A complex of several polypeptides that plays at least two important roles in protein synthesis: First, eIF3 binds to the 40S ribosome and facilitates loading of the Met-tRNA/eIF2.GTP ternary complex to form the 43S preinitiation complex. Subsequently, eIF3 apparently assists eIF4 in recruiting mRNAs to the 43S complex." [PMID:15904532] exact_synonym: "eIF-3" [] exact_synonym: "eIF3" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0016282 ! eukaryotic 43S preinitiation complex [Term] id: GO:0005853 name: eukaryotic translation elongation factor 1 complex namespace: cellular_component def: "A multisubunit nucleotide exchange complex that binds GTP and aminoacyl-tRNAs, and catalyzes their codon-dependent placement at the A-site of the ribosome. In humans, the complex is composed of four subunits, alpha, beta, delta and gamma." [GOC:jl, PMID:10216950, UniProtKB:P24534] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005854 name: nascent polypeptide-associated complex namespace: cellular_component def: "A heterodimeric protein complex that can reversibly bind to ribosomes, and is located in direct proximity to newly synthesized polypeptide chains as they emerge from the ribosome." [PMID:12475173, PMID:7568149] exact_synonym: "NAC" [] exact_synonym: "NACA" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005856 name: cytoskeleton namespace: cellular_component def: "Any of the various filamentous elements within the cytoplasm of eukaryotic cells that remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, and the microtrabecular lattice. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [ISBN:0198547684] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0043232 ! intracellular non-membrane-bound organelle [Term] id: GO:0005858 name: axonemal dynein complex namespace: cellular_component def: "A dynein complex found in eukaryotic cilia and flagella; the motor domain heads interact with adjacent microtubules to generate a sliding force which in converted to a bending motion. May contain two or three dynein heavy chains as well as several light chains." [ISBN:0815316194] narrow_synonym: "axonemal dynein heavy chain" [] narrow_synonym: "axonemal dynein intermediate chain" [] narrow_synonym: "axonemal dynein intermediate light chain" [] narrow_synonym: "axonemal dynein light chain" [] is_a: GO:0030286 ! dynein complex is_a: GO:0044447 ! axoneme part [Term] id: GO:0005859 name: muscle myosin namespace: cellular_component def: "A filament of myosin found in a muscle cell of any type." [GOC:mah] is_a: GO:0016460 ! myosin II is_a: GO:0044449 ! contractile fiber part [Term] id: GO:0005861 name: troponin complex namespace: cellular_component def: "A complex of accessory proteins (typically troponin T, troponin I and troponin C) found associated with actin in muscle thin filaments; involved in calcium regulation of muscle contraction." [ISBN:0815316194] is_a: GO:0043234 ! protein complex is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0005865 ! striated muscle thin filament [Term] id: GO:0005862 name: muscle thin filament tropomyosin namespace: cellular_component def: "An isoform of tropomyosin found associated with actin and the troponin complex in muscle thin filaments." [ISBN:0815316194] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0005865 ! striated muscle thin filament [Term] id: GO:0005863 name: striated muscle thick filament namespace: cellular_component def: "Filaments formed of polymers of a muscle-specific myosin II isoform, found in the middle of sarcomeres in myofibrils." [ISBN:0815316194] is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0031672 ! A band [Term] id: GO:0005865 name: striated muscle thin filament namespace: cellular_component def: "Filaments formed of actin and associated proteins; attached to Z discs at either end of sarcomeres in myofibrils." [ISBN:0815316194] is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044449 ! contractile fiber part relationship: part_of GO:0015629 ! actin cytoskeleton relationship: part_of GO:0030017 ! sarcomere [Term] id: GO:0005868 name: cytoplasmic dynein complex namespace: cellular_component def: "Any dynein complex that catalyzes movement along a cytoplasmic microtubule; cytoplasmic dynein complexes participates in many transport activities in eukaryotes, such as mRNA localization, intermediate filament transport, nuclear envelope breakdown, apoptosis, transport of centrosomal proteins, mitotic spindle assembly, virus transport, kinetochore functions, and movement of signaling and spindle checkpoint proteins. Subunits associated with the dynein heavy chain mediate association between dynein heavy chain and cargoes,and may include light chains and light intermediate chains." [GOC:mah, PMID:12600311] narrow_synonym: "cytoplasmic dynein heavy chain" [] narrow_synonym: "cytoplasmic dynein intermediate chain" [] narrow_synonym: "cytoplasmic dynein intermediate light chain" [] narrow_synonym: "cytoplasmic dynein light chain" [] is_a: GO:0030286 ! dynein complex [Term] id: GO:0005869 name: dynactin complex namespace: cellular_component def: "A 20S multiprotein assembly of total mass about 1.2 MDa that activates dynein-based activity in vivo. A large structural component of the complex is an actin-like 40 nm filament composed of actin-related protein, to which other components attach." [ISBN:0198506732] is_a: GO:0005875 ! microtubule associated complex relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0005870 name: actin capping protein of dynactin complex namespace: cellular_component def: "A heterodimer consisting of alpha and a beta subunits that binds to and caps the barbed ends of actin filaments, nucleates the polymerization of actin monomers but does not sever actin filaments, and which is a part of the dynactin complex." [GOC:jl, UniProtKB:P14315] is_a: GO:0008290 ! F-actin capping protein complex relationship: part_of GO:0005869 ! dynactin complex [Term] id: GO:0005871 name: kinesin complex namespace: cellular_component def: "Any complex that includes a dimer of molecules from the kinesin superfamily, a group of related proteins that contain an extended region of predicted alpha-helical coiled coil in the main chain that likely produces dimerization. The native complexes of several kinesin family members have also been shown to contain additional peptides, often designated light chains as all of the noncatalytic subunits that are currently known are smaller than the chain that contains the motor unit. Kinesin complexes generally possess a force-generating enzymatic activity, or motor, which converts the free energy of the gamma phosphate bond of ATP into mechanical work." [GOC:mah, http://www.proweb.org/kinesin//KinesinMotility.html, http://www.proweb.org/kinesin//KinesinStructure.html] is_a: GO:0005875 ! microtubule associated complex [Term] id: GO:0005872 name: minus-end kinesin complex namespace: cellular_component is_a: GO:0005871 ! kinesin complex [Term] id: GO:0005873 name: plus-end kinesin complex namespace: cellular_component is_a: GO:0005871 ! kinesin complex [Term] id: GO:0005874 name: microtubule namespace: cellular_component def: "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle." [ISBN:0879693568] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005875 name: microtubule associated complex namespace: cellular_component def: "Any multimeric complex connected to a microtubule." [GOC:jl] is_a: GO:0043234 ! protein complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005876 name: spindle microtubule namespace: cellular_component def: "Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole." [ISBN:0815316194] is_a: GO:0005874 ! microtubule relationship: part_of GO:0005819 ! spindle [Term] id: GO:0005879 name: axonemal microtubule namespace: cellular_component def: "A microtubule in the axoneme of a cilium or flagellum; an axoneme contains nine modified doublet microtubules surrounding a pair of single microtubules." [ISBN:0815316194] is_a: GO:0005874 ! microtubule is_a: GO:0044447 ! axoneme part [Term] id: GO:0005880 name: nuclear microtubule namespace: cellular_component def: "Any microtubule in the nucleus of a cell." [GOC:mah] is_a: GO:0005874 ! microtubule is_a: GO:0044428 ! nuclear part [Term] id: GO:0005881 name: cytoplasmic microtubule namespace: cellular_component def: "Any microtubule in the cytoplasm of a cell." [GOC:mah] narrow_synonym: "non-spindle-associated astral microtubule" [] is_a: GO:0005874 ! microtubule [Term] id: GO:0005882 name: intermediate filament namespace: cellular_component def: "A distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: keratin filaments of mammalian epithelial cells; desmin filaments found in cells of muscles of all types; vimentin filaments found in mesenchymal cells; neurofilaments of neurons; and glial filaments found in all types of glial cells." [ISBN:0198506732] related_synonym: "intermediate filament associated protein" [] related_synonym: "type I intermediate filament associated protein" [] related_synonym: "type II intermediate filament associated protein" [] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0045111 ! intermediate filament cytoskeleton [Term] id: GO:0005883 name: neurofilament namespace: cellular_component def: "A type of intermediate filament found in the core of neuronal axons. Neurofilaments are heteropolymers composed of three type IV polypeptides: NF-L, NF-M, and NF-H (for low, middle, and high molecular weight). Neurofilaments are responsible for the radial growth of an axon and determine axonal diameter." [ISBN:0198506732, ISBN:0716731363, ISBN:0815316194] exact_synonym: "type IV intermediate filament" [] is_a: GO:0005882 ! intermediate filament [Term] id: GO:0005884 name: actin filament namespace: cellular_component def: "A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane." [GOC:mah, ISBN:0198506732, PMID:10666339] broad_synonym: "microfilament" [] is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0005885 name: Arp2/3 protein complex namespace: cellular_component def: "A stable complex of seven subunits, two actin-related proteins, Arp2 and Arp3, and five novel proteins (ARPC1-5). Functions in the nucleation of actin filaments." [GOC:jl, PMID:12479800] is_a: GO:0043234 ! protein complex is_a: GO:0044430 ! cytoskeletal part relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0005886 name: plasma membrane namespace: cellular_component def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "plasma membrane cation-transporting ATPase" [] related_synonym: "plasma membrane copper transporter" [] related_synonym: "plasma membrane long-chain fatty acid transporter" [] exact_synonym: "cell membrane" [] exact_synonym: "cytoplasmic membrane" [] exact_synonym: "plasmalemma" [] narrow_synonym: "bacterial inner membrane" [] broad_synonym: "juxtamembrane" [] is_a: GO:0016020 ! membrane [Term] id: GO:0005887 name: integral to plasma membrane namespace: cellular_component def: "Penetrating at least one phospholipid bilayer of a plasma membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer." [GOC:go_curators] subset: gosubset_prok related_synonym: "proteoglycan integral to plasma membrane" [] related_synonym: "transmembrane ephrin" [] is_a: GO:0016021 ! integral to membrane is_a: GO:0031226 ! intrinsic to plasma membrane [Term] id: GO:0005888 name: proteoglycan integral to plasma membrane namespace: cellular_component def: "OBSOLETE. Penetrating at least one phospholipid bilayer of a plasma membrane and consisting of proteoglycan. Also refers to the state of being buried in the bilayer with no exposure outside the bilayer." [GOC:go_curators] comment: This term was made obsolete because it describes the composition (i.e. proteoglycan) and not the location of a gene product. To update annotations, use the cellular component term 'integral to plasma membrane ; GO:0005887'. is_obsolete: true [Term] id: GO:0005889 name: hydrogen:potassium-exchanging ATPase complex namespace: cellular_component exact_synonym: "hydrogen/potassium-exchanging ATPase complex" [] broad_synonym: "proton pump" [] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005890 name: sodium:potassium-exchanging ATPase complex namespace: cellular_component def: "Sodium:potassium-exchanging ATPases are tetrameric proteins, consisting of two large alpha subunits and two smaller beta subunits. The alpha subunits bear the active site and penetrate the membrane, while the beta subunits carry oligosaccharide groups and face the cell exterior." [ISBN:0198506732] exact_synonym: "sodium/potassium-exchanging ATPase complex" [] broad_synonym: "sodium pump" [] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005891 name: voltage-gated calcium channel complex namespace: cellular_component exact_synonym: "voltage gated calcium channel complex" [] exact_synonym: "voltage-dependent calcium channel complex" [] exact_synonym: "voltage-sensitive calcium channel complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005892 name: nicotinic acetylcholine-gated receptor-channel complex namespace: cellular_component broad_synonym: "nicotinic acetylcholine receptor" [] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005893 name: interleukin-2 receptor complex namespace: cellular_component def: "Complex that binds interleukin-2; comprises alpha, beta, and gamma subunits." [GOC:mah, PMID:3116143, PMID:8266078] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005894 name: interleukin-3 receptor complex namespace: cellular_component def: "Complex that binds interleukin-3; comprises an alpha and a beta subunit. The alpha chain is specific to the interleukin-3 receptor, whereas the beta chain is shared with the receptors for granulocyte-macrophage colony-stimulating factor and interleukin-5." [PMID:11839579] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005895 name: interleukin-5 receptor complex namespace: cellular_component def: "Complex that binds interleukin-3; comprises an alpha and a beta subunit. The alpha chain is specific to the interleukin-5 receptor, whereas the beta chain is shared with the receptors for granulocyte-macrophage colony-stimulating factor and interleukin-3." [GOC:mah, PMID:11312115, PMID:11839579] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005896 name: interleukin-6 receptor complex namespace: cellular_component def: "A hexameric complex consisting of two molecules each of interleukin-6, interleukin-6 receptor alpha chain, and gp-130." [PMID:8083235] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005897 name: interleukin-9 receptor complex namespace: cellular_component def: "Complex that binds interleukin-9; comprises an alpha and a beta subunit. The alpha chain is specific to the interleukin-9 receptor, whereas the beta chain is shared with the receptors for several other interleukins." [GOC:mah, PMID:10642536] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005898 name: interleukin-13 receptor complex namespace: cellular_component def: "A complex that binds interleukin-13; consists of two chains, interleukin-4 receptor alpha chain and interleukin-4 receptor alpha chain." [UniProtKB:P78552] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005899 name: insulin receptor complex namespace: cellular_component def: "A disulfide-bonded, heterotetrameric receptor complex. The alpha chains are entirely extracellular, while each beta chain has one transmembrane domain. The ligand binds to the alpha subunit extracellular domain and the kinase is associated with the beta subunit intracellular domain." [ISBN:0198506732] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005900 name: oncostatin-M receptor complex namespace: cellular_component def: "A heterodimeric receptor for the cytokine oncostatin-M (OSM). In humans the receptor complex is made up of the gene products gp130 and OSMR-beta." [GOC:jl, PMID:8999038] is_a: GO:0043235 ! receptor complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005887 ! integral to plasma membrane [Term] id: GO:0005901 name: caveola namespace: cellular_component def: "A small pit, depression, or invagination, such as any of the minute pits or incuppings of the cell membrane formed during pinocytosis, that communicates with the outside of a cell and extends inward, indenting the cytoplasm and the cell membrane. Such caveolae may be pinched off to form free vesicles within the cytoplasm." [http://cancerweb.ncl.ac.uk/, ISBN:0721662544] exact_synonym: "caveolae" [] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0005902 name: microvillus namespace: cellular_component def: "Thin cylindrical membrane-covered projections on the surface of an animal cell containing a core bundle of actin filaments. Present in especially large numbers on the absorptive surface of intestinal cells." [ISBN:0813516194] is_a: GO:0042995 ! cell projection [Term] id: GO:0005903 name: brush border namespace: cellular_component def: "Dense covering of microvilli on the apical surface of epithelial cells in the intestine and kidney; the microvilli aid absorption by increasing the surface area of the cell." [ISBN:0815316194] is_a: GO:0042995 ! cell projection [Term] id: GO:0005904 name: plasma membrane lipid bilayer namespace: cellular_component def: "The phospholipid membrane surrounding a cell that separates the cell from its external environment, excluding intergral and associated proteins." [GOC:go_curators] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0005905 name: coated pit namespace: cellular_component def: "An invagination of the cell membrane of many eukaryotic cells, concerned in receptor-mediated selective transport of many proteins and other macromolecules across the cell membrane. During endocytosis it is converted into a coated vesicle. The coat is of clathrin." [ISBN:0198506732] is_a: GO:0044459 ! plasma membrane part [Term] id: GO:0005906 name: clathrin adaptor namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it was positioned incorrectly, so the replacement term has a definition different from what this term appeared to mean. To update annotations, use the cellular component term 'membrane coat adaptor complex ; GO:0030119'. related_synonym: "adaptin" [] is_obsolete: true [Term] id: GO:0005907 name: HA1 clathrin adaptor namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology was erroneous. To update annotations, consider the cellular component term 'AP-1 adaptor complex ; GO:0030121'. related_synonym: "AP1" [] is_obsolete: true [Term] id: GO:0005908 name: HA2 clathrin adaptor namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete as part of a general reorganization of vesicle and vesicle coat terms; its position in the ontology was erroneous. To update annotations, consider the cellular component term 'AP-2 adaptor complex ; GO:0030122'. related_synonym: "AP2" [] is_obsolete: true [Term] id: GO:0005909 name: coated vesicle namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it was positioned incorrectly. To update annotations, use the cellular component term 'coated vesicle ; GO:0030135'. is_obsolete: true [Term] id: GO:0005911 name: intercellular junction namespace: cellular_component def: "A specialized region of connection between two cells including but not limited to gap junctions, desmosomes, and tight junctions, but excluding direct cytoplasmic junctions such as ring canals." [GOC:dgh, GOC:hb] exact_synonym: "cell-cell junction" [] is_a: GO:0030054 ! cell junction [Term] id: GO:0005912 name: adherens junction namespace: cellular_component def: "A cell junction at which the cytoplasmic face of the plasma membrane is attached to actin filaments." [ISBN:0198506732] is_a: GO:0030054 ! cell junction [Term] id: GO:0005913 name: cell-cell adherens junction namespace: cellular_component def: "An adherens junction which connects two cells to each other." [GOC:hb] is_a: GO:0005911 ! intercellular junction is_a: GO:0005912 ! adherens junction [Term] id: GO:0005914 name: spot adherens junction namespace: cellular_component def: "A small junction assombled during the cellularization stage of insect embyrogenesis; spot adherens junctions later fuse to form the zonula adherens." [PMID:11700298] exact_synonym: "punctum adherens" [] broad_synonym: "dense plaque" [] is_a: GO:0005913 ! cell-cell adherens junction [Term] id: GO:0005915 name: zonula adherens namespace: cellular_component def: "Cell-cell adherens junction which forms a continuous belt near the apex of epithelial cells." [ISBN:0815316208] exact_synonym: "belt desmosome" [] exact_synonym: "intermediate junction" [] is_a: GO:0005913 ! cell-cell adherens junction relationship: part_of GO:0043296 ! apical junction complex [Term] id: GO:0005916 name: fascia adherens namespace: cellular_component def: "A broad intercellular junction in the intercalated disk of cardiac muscle that anchors actin filaments." [http://cancerweb.ncl.ac.uk/cgi-bin/omd?fascia+adherens] broad_synonym: "intercalated disc" [] is_a: GO:0005913 ! cell-cell adherens junction [Term] id: GO:0005917 name: nephrocyte junction namespace: cellular_component def: "A tissue-specific adherens junction found in kidney cells." [http://flybase.bio.indiana.edu/allied-data/lk/interactive-fly/aignfam/junction.htm] is_a: GO:0005913 ! cell-cell adherens junction [Term] id: GO:0005918 name: septate junction namespace: cellular_component def: "Invertebrate-specific cell-cell junctions which form a band around the apical borders of epithelial cells and attach to actin filaments." [ISBN:0815316208] related_synonym: "septate desmosome" [] is_a: GO:0005913 ! cell-cell adherens junction relationship: part_of GO:0043296 ! apical junction complex [Term] id: GO:0005919 name: pleated septate junction namespace: cellular_component def: "A septate junction in which regular arrays of electron-dense septae span the intermembrane space." [PMID:11700298] related_synonym: "pleated desmosome" [] is_a: GO:0005918 ! septate junction [Term] id: GO:0005920 name: smooth septate junction namespace: cellular_component def: "A septate junction that lacks the regular arrays of electron-dense septae found in pleated septate junctions." [PMID:11700298] exact_synonym: "zonula continua" [] is_a: GO:0005918 ! septate junction [Term] id: GO:0005921 name: gap junction namespace: cellular_component def: "Any specialized areas of the plasma membranes of adjacent cells where the membranes are 2-4 nm apart and penetrated by a connexon." [ISBN:0198506732] exact_synonym: "communicating junction" [] exact_synonym: "macula communicans" [] exact_synonym: "zonula communicans" [] is_a: GO:0005911 ! intercellular junction [Term] id: GO:0005922 name: connexon complex namespace: cellular_component def: "An assembly of six molecules of connexin, made in the Golgi apparatus and subsequently transported to the plasma membrane, where docking of two connexons on apposed plasma membranes across the extracellular space forms a gap junction." [PMID:11146276] is_a: GO:0043234 ! protein complex is_a: GO:0044459 ! plasma membrane part relationship: part_of GO:0005921 ! gap junction [Term] id: GO:0005923 name: tight junction namespace: cellular_component def: "A belt-like region of very close contact between the plasma membranes of adjacent cells so that the intercellular space is completely occluded. They occur in epithelia and brain endothelia." [ISBN:0198506732] exact_synonym: "zonula occludens" [] is_a: GO:0005911 ! intercellular junction relationship: part_of GO:0043296 ! apical junction complex [Term] id: GO:0005924 name: cell-substrate adherens junction namespace: cellular_component def: "An adherens junction which connects a cell to the extracellular matrix." [GOC:hb] is_a: GO:0005912 ! adherens junction is_a: GO:0030055 ! cell-matrix junction [Term] id: GO:0005925 name: focal adhesion namespace: cellular_component alt_id: GO:0008357 def: "Small region on the surface of a cell that anchors the cell to the extracellular matrix and that are points of termination of actin filaments." [ISBN:0124325653, ISBN:0815316208] exact_synonym: "focal contact" [] exact_synonym: "hemi-adherens junction" [] is_a: GO:0005924 ! cell-substrate adherens junction [Term] id: GO:0005926 name: connecting hemi-adherens junction namespace: cellular_component def: "A hemiadherens junction (HAJ) that forms juctions such that HAJs in opposing cells are separated by only 30-40nm, with a thin line of extracellular electron-dense material in between; found where muscles attach to epidermal cells directly (in insects)." [http://flybase.bio.indiana.edu/allied-data/lk/interactive-fly/aignfam/junction.htm] is_a: GO:0005924 ! cell-substrate adherens junction [Term] id: GO:0005927 name: muscle tendon junction namespace: cellular_component def: "An adherens junctions formed between a muscle cell and a tendon cell; the muscle and tendon cytoplasmic faces are distinct." [PMID:12842007] is_a: GO:0005924 ! cell-substrate adherens junction [Term] id: GO:0005928 name: apical hemi-adherens junction namespace: cellular_component def: "An adherens junction found in the apical region of a cell, such as those found in cuticle-secreting epithelia, which connect the apical membrane to the cuticle." [GOC:mah, PMID:11700298] exact_synonym: "apical dense plaque" [] is_a: GO:0005924 ! cell-substrate adherens junction [Term] id: GO:0005929 name: cilium namespace: cellular_component def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:kva, ISBN:0198547684] subset: goslim_generic is_a: GO:0042995 ! cell projection is_a: GO:0043231 ! intracellular membrane-bound organelle [Term] id: GO:0005930 name: axoneme namespace: cellular_component def: "The bundle of microtubules and associated proteins that forms the core of cilia and flagella in eukaryotic cells and is responsible for their movements." [ISBN:0198547684] related_synonym: "axonemal motor activity" [] is_a: GO:0044446 ! intracellular organelle part is_a: GO:0044463 ! cell projection part relationship: part_of GO:0043231 ! intracellular membrane-bound organelle [Term] id: GO:0005931 name: nexin namespace: cellular_component def: "A protein complex found in the axoneme of eukaryotic cilia and flagella. It forms interconnections between the microtubule outer doublets that surround the inner central pair of microtubules." [ISBN:0198506732] is_a: GO:0043234 ! protein complex is_a: GO:0044447 ! axoneme part [Term] id: GO:0005932 name: basal body namespace: cellular_component def: "A short cylindrical array of microtubules and associated proteins found at the base of a eukaryotic cilium or flagellum that is similar in structure to a centriole. The basal body serves as a nucleation site for axoneme growth." [GOC:clt] is_a: GO:0005815 ! microtubule organizing center is_a: GO:0044463 ! cell projection part [Term] id: GO:0005933 name: bud namespace: cellular_component def: "A daughter cell of an organism that reproduces by budding; formed by pinching off part of the parent cell." [GOC:mah] subset: goslim_yeast is_a: GO:0044464 ! cell part [Term] id: GO:0005934 name: bud tip namespace: cellular_component def: "The end of a bud distal to the site of attachment to the mother cell." [GOC:mah] is_a: GO:0030427 ! site of polarized growth relationship: part_of GO:0005933 ! bud [Term] id: GO:0005935 name: bud neck namespace: cellular_component def: "The constriction between the mother cell and daughter cell (bud) in an organism that reproduces by budding." [GOC:mah] is_a: GO:0030427 ! site of polarized growth relationship: part_of GO:0005933 ! bud [Term] id: GO:0005936 name: shmoo namespace: cellular_component def: "OBSOLETE. The characteristic projection formed in response to mating pheromone by cells of Saccharomyces and other fungi with similar life cycles. Named after the Al Capp cartoon character, whose shape it resembles." [GOC:mah, GOC:mcc] comment: This term was made obsolete because it represents a type of whole cell rather than a cellular component. To update annotations, consider the cellular component terms 'mating projection ; GO:0005937' and 'mating projection base ; GO:0001400', or the Fungal Anatomy Ontology term 'shmoo ; FAO:0001023'. exact_synonym: "mating projection" [] is_obsolete: true [Term] id: GO:0005937 name: mating projection namespace: cellular_component def: "The projection formed by unicellular fungi in response to mating pheromone." [GOC:mcc] narrow_synonym: "conjugation tube" [] narrow_synonym: "shmoo" [] narrow_synonym: "shmoo tip" [] is_a: GO:0042995 ! cell projection [Term] id: GO:0005938 name: cell cortex namespace: cellular_component def: "The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins." [GOC:mah, ISBN:0815316194] subset: goslim_yeast related_synonym: "cell periphery" [] related_synonym: "peripheral cytoplasm" [] is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005940 name: septin ring namespace: cellular_component alt_id: GO:0030481 def: "A tight ring-shaped structure that forms in the division plane at the site of cytokinesis; composed of members of the conserved family of filament-forming proteins called septins as well as septin-associated proteins. This type of septin structure is observed at the bud neck of budding fungal cells, at the site of cell division in animal cells, at the junction between the mother cell and a pseudohyphal projection, and also within hyphae of filamentous fungi at sites where a septum will form." [GOC:krc, GOC:mah, PMID:16009555, PMID:16151244] narrow_synonym: "septin ring (sensu Fungi)" [] is_a: GO:0032156 ! septin cytoskeleton is_a: GO:0044430 ! cytoskeletal part is_a: GO:0044448 ! cell cortex part [Term] id: GO:0005941 name: unlocalized protein complex namespace: cellular_component def: "Used as a holding place for cellular components whose precise localization is, as yet, unknown, or has not been determined by GO (the latter is the major reason for nodes to have this parent); this term should not be used for annotation of gene products." [GOC:ma] comment: See also the cellular component term 'cellular component unknown ; GO:0008372'. subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok is_a: GO:0043234 ! protein complex [Term] id: GO:0005942 name: phosphoinositide 3-kinase complex namespace: cellular_component def: "A complex containing a heterodimer of a catalytic subunit and a regulatory (adaptor) subunit of any phosphoinositide 3-kinase (PI3K)." [GOC:bf] exact_synonym: "1-phosphatidylinositol 3-kinase complex" [] exact_synonym: "PI3K complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005943 name: 1-phosphatidylinositol-4-phosphate kinase, class IA complex namespace: cellular_component is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005944 name: 1-phosphatidylinositol-4-phosphate kinase, class IB complex namespace: cellular_component is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005945 name: 6-phosphofructokinase complex namespace: cellular_component def: "A allosteric homotetrameric molecule with glycolytic activity." [ISBN:019850673] subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044445 ! cytosolic part [Term] id: GO:0005946 name: alpha,alpha-trehalose-phosphate synthase complex (UDP-forming) namespace: cellular_component def: "An enzyme complex that in yeast is composed of three or four polypeptides: TPS1, TPS2, TPS3 and TSL1. Catalyzes the formation of alpha,alpha-trehalose 6-phosphate and UDP from UDP-glucose and D-glucose 6-phosphate." [GOC:jl, SP:P38426] comment: See also the molecular function term 'alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity ; GO:0003825'. exact_synonym: "trehalose-6-phosphate synthase complex" [] exact_synonym: "UDP-glucose-glucosephosphate glucosyltransferase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005947 name: alpha-ketoglutarate dehydrogenase complex (sensu Eukaryota) namespace: cellular_component def: "Complex that possesses alpha-ketoglutarate dehydrogenase activity. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:mah] broad_synonym: "2-oxoglutarate dehydrogenase complex" [] is_a: GO:0030062 ! tricarboxylic acid cycle enzyme complex (sensu Eukaryota) is_a: GO:0045240 ! alpha-ketoglutarate dehydrogenase complex [Term] id: GO:0005948 name: acetolactate synthase complex namespace: cellular_component def: "A dimeric (a large and a small chain) or tetrameric (two large and two small chains) enzyme complex. Catalyzes the formation of acetolactate from pyruvate." [BRENDA:2.2.1.6, GOC:jl, UniProt:P37252] comment: See also the molecular function term 'acetolactate synthase activity ; GO:0003984'. subset: gosubset_prok exact_synonym: "acetohydroxyacid synthase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005949 name: aminoadipate-semialdehyde dehydrogenase complex namespace: cellular_component def: "OBSOLETE. A heterodimeric enzyme composed of an alpha and beta subunit. Catalyzes the formation of L-2-aminoadipate from L-2-aminoadipate 6-semialdehyde." [EC:1.2.1.31, UniProtKB:Q12572] comment: This term was made obsolete because the catalytic activity resides in a single polypeptide that is not part of a complex with other gene products. is_obsolete: true [Term] id: GO:0005950 name: anthranilate synthase complex namespace: cellular_component def: "A heterotetrameric enzyme complex made up of two components I and two components II. Catalyzes the formation of anthranilate, pyruvate and L-glutamate from chorismate and L-glutamine." [EC:4.1.3.27, UniProtKB:P09785] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005951 name: carbamoyl-phosphate synthase complex namespace: cellular_component def: "An enzyme complex that exists in monomer, dimer, and higher oligomeric forms. Catalysis of the reaction: 2 ATP + L-glutamine + carbon dioxide (CO2) + H2O = 2 ADP + phosphate + L-glutamate + carbamoyl phosphate." [PMID:2868386] comment: Note that in eukaryotes, carbamoyl-phosphate synthase is usually a single polypeptide, not a complex, and should therefore not be annotated to this component term. subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005952 name: cAMP-dependent protein kinase complex namespace: cellular_component def: "An enzyme complex, composed of regulatory and catalytic subunits, that catalyzes protein phosphorylation. Inactive forms of the enzyme have two regulatory chains and two catalytic chains; activation by cAMP produces two active catalytic monomers and a regulatory dimer." [EC:2.7.1.37, ISBN:0198506732] subset: gosubset_prok related_synonym: "PKA" [] exact_synonym: "3',5' cAMP-dependent protein kinase complex" [] exact_synonym: "3',5'-cAMP-dependent protein kinase complex" [] exact_synonym: "adenosine 3',5'-cyclophosphate-dependent protein kinase complex" [] exact_synonym: "cyclic AMP-dependent protein kinase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005953 name: CAAX-protein geranylgeranyltransferase complex namespace: cellular_component def: "A heterodimeric enzyme, composed of an alpha and a beta subunit. Participates in the post-translational C-terminal modification of several small GTPases, allowing their targeting to the membrane." [PMID:9781874, UniProtKB:P53609] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005954 name: calcium- and calmodulin-dependent protein kinase complex namespace: cellular_component def: "An enzyme complex which in eukaryotes is composed of four different chains: alpha, beta, gamma, and delta. The different isoforms assemble into homo- or heteromultimeric holoenzymes composed of 8 to 12 subunits. Catalyzes the phosphorylation of proteins to O-phosphoproteins." [EC:2.7.1.123, UniProtKB:Q9UQM7] related_synonym: "CaMKII" [] exact_synonym: "calcium/calmodulin-dependent protein kinase complex" [] exact_synonym: "CAMK2" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005955 name: calcineurin complex namespace: cellular_component def: "A heterodimeric calcium ion and calmodulin dependent protein phosphatase composed of catalytic and regulatory subunits; the regulatory subunit is very similar in sequence to calmodulin." [ISBN:019859951] exact_synonym: "protein phosphatase type 2B complex" [] narrow_synonym: "calcium-dependent protein serine/threonine phosphatase complex" [] is_a: GO:0008287 ! protein serine/threonine phosphatase complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005956 name: protein kinase CK2 complex namespace: cellular_component def: "Complex that possesses casein kinase activity, found in nearly every subcellular compartment. Protein kinase CK2 complexes are usually tetramers of two alpha and two beta subunits, and can phosphorylate many protein substrates in addition to casein." [EC:2.7.1.37, GOC:mah, PMID:10994779] comment: Note that this term represents a location and not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. One function possessed by this complex is represented by the molecular function term 'casein kinase II ; GO:0004682'. exact_synonym: "casein kinase II complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044424 ! intracellular part [Term] id: GO:0005957 name: debranching enzyme namespace: cellular_component def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it is ambiguous (there are several debranching enzymes) and because it probably represents the glycogen debranching enzyme which is a single gene product and not a complex. To update annotations, consider the cellular component term 'isoamylase complex ; GO:0043033'. is_obsolete: true [Term] id: GO:0005958 name: DNA-dependent protein kinase complex namespace: cellular_component alt_id: GO:0005959 def: "A large protein complex which is involved in the repair of DNA double-strand breaks and V(D)J recombination events. In mammals, it consists of the DNA-dependent protein kinase catalytic subunit (DNA-PKcs), the DNA end-binding heterodimer, Ku, the nuclear phosphoprotein XRCC4 and DNA ligase IV." [GOC:jl, PMID:10854421, PMID:12235392] exact_synonym: "DNA-PK complex" [] narrow_synonym: "DNA-dependent protein kinase, DNA-end-binding complex" [] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005960 name: glycine cleavage complex namespace: cellular_component def: "A multienzyme complex that catalyzes the reversible oxidation of glycine. In E. coli, it has four components: dihydrolipoamide dehydrogenase, glycine dehydrogenase (decarboxylating), lipoyl-GcvH-protein and aminomethyltransferase." [MetaCyc:GCVMULTI-CPLX] subset: gosubset_prok exact_synonym: "glycine cleavage system" [] exact_synonym: "glycine synthase complex" [] is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005961 name: glycine dehydrogenase complex (decarboxylating) namespace: cellular_component def: "A component, along with aminomethyltransferase, of the glycine cleavage system; it is found as a homodimer or as a tetramer with two alpha subunits and two beta subunits." [EC:1.4.4.2] subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0005960 ! glycine cleavage complex [Term] id: GO:0005962 name: isocitrate dehydrogenase complex (NAD+) (sensu Eukaryota) namespace: cellular_component def: "Complex that possesses isocitrate dehydrogenase (NAD+) activity. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [GOC:mah] comment: Note that this term represents a location and not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'isocitrate dehydrogenase (NAD+) activity ; GO:0004449'. is_a: GO:0030062 ! tricarboxylic acid cycle enzyme complex (sensu Eukaryota) is_a: GO:0045242 ! isocitrate dehydrogenase complex (NAD+) [Term] id: GO:0005963 name: magnesium-dependent protein serine/threonine phosphatase complex namespace: cellular_component def: "An enzyme complex that catalyzes the removal of serine- or threonine-bound phosphate groups from a wide range of phosphoproteins, including a number of enzymes that have been phosphorylated under the action of a kinase." [EC:3.1.3.16] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005964 name: phosphorylase kinase complex namespace: cellular_component def: "An enzyme complex that catalyzes the phosphorylation of phosphorylase b to form phosphorylase a." [EC:2.7.1.38] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005965 name: protein farnesyltransferase complex namespace: cellular_component def: "A complex that possesses protein farnesyltransferase activity." [GOC:mah] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005966 name: photoreceptor cyclic-nucleotide phosphodiesterase complex namespace: cellular_component def: "An enzyme complex that catalyzes the hydrolysis of bonds in a cyclic nucleotide." [EC:3.1.4.-] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005967 name: pyruvate dehydrogenase complex (sensu Eukaryota) namespace: cellular_component def: "Complex that carries out the oxidative decarboxylation of pyruvate to form acetyl-CoA in eukaryotes; includes subunits possessing three catalytic activities: pyruvate dehydrogenase (E1), dihydrolipoamide S-acetyltransferase (E2), and dihydrolipoamide dehydrogenase (E3). Usually contains more subunits than its bacterial counterpart; for example, one known complex contains 30 E1 dimers, 60 E2 monomers, and 6 E3 dimers as well as a few copies of pyruvate dehydrogenase kinase and pyruvate dehydrogenase phosphatase. As in, but not restricted to, the eukaryotes (Eukaryota, ncbi_taxonomy_id:2759)." [ISBN:0471331309, ISBN:0716720094] comment: Note that this term represents a location and not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The functions of this complex are represented by the molecular function terms 'pyruvate dehydrogenase (lipoamide) activity ; GO:0004739', 'dihydrolipoamide S-acetyltransferase activity ; GO:0004742', and 'dihydrolipoamide dehydrogenase activity ; GO:0004148'. exact_synonym: "pyruvate dehydrogenase complex (lipoamide) (sensu Eukaryota)" [] is_a: GO:0044429 ! mitochondrial part is_a: GO:0045254 ! pyruvate dehydrogenase complex relationship: part_of GO:0005759 ! mitochondrial matrix [Term] id: GO:0005968 name: Rab-protein geranylgeranyltransferase complex namespace: cellular_component def: "A heterodimeric enzyme complex, which in mammals is composed of an alpha and a beta subunit, and which associates with an accessory protein Rep (Rab escort protein). Catalyzes of the transfer of a geranyl-geranyl moiety from geranylgeranyl pyrophosphate to a Rab protein." [GOC:jl, PMID:11886217, UniProtKB:Q08602] exact_synonym: "GGTase-II complex" [] exact_synonym: "Rab geranylgeranyltransferase complex" [] exact_synonym: "RAB-protein geranylgeranyltransferase complex" [] exact_synonym: "RabGGTase complex" [] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005969 name: serine-pyruvate aminotransferase, type 2B complex namespace: cellular_component def: "An enzyme complex that catalyzes the formation of hydroxypyruvate and alanine from serine and pyruvate." [EC:2.6.1.51] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005970 name: serine-pyruvate aminotransferase, type 1 complex namespace: cellular_component def: "An enzyme complex that catalyzes the formation of hydroxypyruvate and alanine from serine and pyruvate." [EC:2.6.1.51] is_a: GO:0005941 ! unlocalized protein complex [Term] id: GO:0005971 name: ribonucleoside-diphosphate reductase complex namespace: cellular_component def: "An enzyme complex composed of 2-4 or more subunits, which usually contains nonheme iron and requires ATP for catalysis. Catalyzes the formation of 2'-deoxyribonucleoside diphosphate and thioredoxin disulfide from ribonucleoside diphosphate and thioredoxin." [BRENDA:1.17.4.1] subset: gosubset_prok is_a: GO:0043234 ! protein complex is_a: GO:0044444 ! cytoplasmic part [Term] id: GO:0005972 name: fibrinogen alpha chain namespace: cellular_component alt_id: GO:0008005 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component term 'fibrinogen complex ; GO:0005577'. is_obsolete: true [Term] id: GO:0005973 name: fibrinogen beta chain namespace: cellular_component alt_id: GO:0008006 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component term 'fibrinogen complex ; GO:0005577'. is_obsolete: true [Term] id: GO:0005974 name: fibrinogen gamma chain namespace: cellular_component alt_id: GO:0008007 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a single gene product and not a complex. To update annotations, consider the cellular component term 'fibrinogen complex ; GO:0005577'. is_obsolete: true [Term] id: GO:0005975 name: carbohydrate metabolism namespace: biological_process def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0043170 ! macromolecule metabolism is_a: GO:0044238 ! primary metabolism [Term] id: GO:0005976 name: polysaccharide metabolism namespace: biological_process def: "The chemical reactions and pathways involving polysaccharides, a polymer of more than 10 monosaccharide residues joined by glycosidic linkages." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "glycan metabolism" [] is_a: GO:0005975 ! carbohydrate metabolism is_a: GO:0043283 ! biopolymer metabolism [Term] id: GO:0005977 name: glycogen metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues in alpha(1->4) glycosidic linkage, joined together by alpha(1->6) glycosidic linkages." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006073 ! glucan metabolism is_a: GO:0006112 ! energy reserve metabolism [Term] id: GO:0005978 name: glycogen biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "glycogen anabolism" [] exact_synonym: "glycogen formation" [] exact_synonym: "glycogen synthesis" [] xref_analog: MetaCyc:GLYCOGENSYNTH-PWY xref_analog: Reactome:70302 xref_analog: Reactome:71579 xref_analog: Reactome:71611 is_a: GO:0005977 ! glycogen metabolism is_a: GO:0009250 ! glucan biosynthesis [Term] id: GO:0005979 name: regulation of glycogen biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of glycogen." [GOC:go_curators] subset: gosubset_prok exact_synonym: "regulation of glycogen anabolism" [] exact_synonym: "regulation of glycogen formation" [] exact_synonym: "regulation of glycogen synthesis" [] is_a: GO:0043255 ! regulation of carbohydrate biosynthesis relationship: part_of GO:0005978 ! glycogen biosynthesis [Term] id: GO:0005980 name: glycogen catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "glycogen breakdown" [] exact_synonym: "glycogen degradation" [] xref_analog: MetaCyc:GLYCOCAT-PWY xref_analog: Reactome:70221 xref_analog: Reactome:71557 xref_analog: Reactome:71598 is_a: GO:0005977 ! glycogen metabolism is_a: GO:0009251 ! glucan catabolism [Term] id: GO:0005981 name: regulation of glycogen catabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of glycogen." [GOC:go_curators] subset: gosubset_prok exact_synonym: "regulation of glycogen breakdown" [] exact_synonym: "regulation of glycogen degradation" [] is_a: GO:0009894 ! regulation of catabolism relationship: part_of GO:0005980 ! glycogen catabolism [Term] id: GO:0005982 name: starch metabolism namespace: biological_process def: "The chemical reactions and pathways involving starch, the most important reserve polysaccharide in plants. It is a glucan consisting of two components, amylose and amylopectin, which are both glucose homopolymers. Starch is synthesized as a temporary storage form of carbon and can be catabolized to produce sucrose." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006073 ! glucan metabolism [Term] id: GO:0005983 name: starch catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of starch, the most important reserve polysaccharide in plants." [GOC:ai] subset: gosubset_prok exact_synonym: "starch breakdown" [] exact_synonym: "starch degradation" [] xref_analog: MetaCyc:PWY-842 is_a: GO:0005982 ! starch metabolism is_a: GO:0009251 ! glucan catabolism [Term] id: GO:0005984 name: disaccharide metabolism namespace: biological_process def: "The chemical reactions and pathways involving any disaccharide, sugars composed of two monosaccharide units." [GOC:jl, ISBN:01928006X] subset: gosubset_prok is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0005985 name: sucrose metabolism namespace: biological_process def: "The chemical reactions and pathways involving sucrose, the disaccharide fructofuranosyl-glucopyranoside." [GOC:go_curators] subset: gosubset_prok is_a: GO:0005984 ! disaccharide metabolism [Term] id: GO:0005986 name: sucrose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of sucrose, the disaccharide fructofuranosyl-glucopyranoside." [GOC:go_curators] subset: gosubset_prok exact_synonym: "sucrose anabolism" [] exact_synonym: "sucrose formation" [] exact_synonym: "sucrose synthesis" [] xref_analog: MetaCyc:SUCSYN-PWY is_a: GO:0005985 ! sucrose metabolism is_a: GO:0046351 ! disaccharide biosynthesis [Term] id: GO:0005987 name: sucrose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of sucrose, the disaccharide fructofuranosyl-glucopyranoside." [GOC:go_curators] subset: gosubset_prok exact_synonym: "sucrose breakdown" [] exact_synonym: "sucrose degradation" [] is_a: GO:0005985 ! sucrose metabolism is_a: GO:0046352 ! disaccharide catabolism [Term] id: GO:0005988 name: lactose metabolism namespace: biological_process def: "The chemical reactions and pathways involving lactose, the disaccharide galactopyranosyl-glucose." [GOC:go_curators] subset: gosubset_prok is_a: GO:0005984 ! disaccharide metabolism [Term] id: GO:0005989 name: lactose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lactose, the disaccharide galactopyranosyl-glucose." [GOC:go_curators] subset: gosubset_prok exact_synonym: "lactose anabolism" [] exact_synonym: "lactose formation" [] exact_synonym: "lactose synthesis" [] is_a: GO:0005988 ! lactose metabolism is_a: GO:0046351 ! disaccharide biosynthesis [Term] id: GO:0005990 name: lactose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of lactose, the disaccharide galactopyranosyl-glucose." [GOC:go_curators] subset: gosubset_prok exact_synonym: "lactose breakdown" [] exact_synonym: "lactose degradation" [] xref_analog: MetaCyc:GALACTOGLUCAT-PWY is_a: GO:0005988 ! lactose metabolism is_a: GO:0046352 ! disaccharide catabolism [Term] id: GO:0005991 name: trehalose metabolism namespace: biological_process def: "The chemical reactions and pathways involving trehalose, a disaccharide isomeric with sucrose and obtained from certain lichens and fungi." [GOC:jl, ISBN:0028623819] subset: gosubset_prok exact_synonym: "mycose metabolism" [] exact_synonym: "mykose metabolism" [] is_a: GO:0005984 ! disaccharide metabolism is_a: GO:0006112 ! energy reserve metabolism [Term] id: GO:0005992 name: trehalose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of trehalose, a disaccharide isomeric with sucrose and obtained from certain lichens and fungi." [GOC:jl, ISBN:0028623819] subset: gosubset_prok exact_synonym: "mycose biosynthesis" [] exact_synonym: "mykose biosynthesis" [] exact_synonym: "trehalose anabolism" [] exact_synonym: "trehalose formation" [] exact_synonym: "trehalose synthesis" [] xref_analog: MetaCyc:PWY-881 xref_analog: MetaCyc:TREHALOSESYN-PWY xref_analog: MetaCyc:TRESYN-PWY is_a: GO:0005991 ! trehalose metabolism is_a: GO:0046351 ! disaccharide biosynthesis [Term] id: GO:0005993 name: trehalose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of trehalose, a disaccharide isomeric with sucrose and obtained from certain lichens and fungi." [GOC:jl, ISBN:0028623819] subset: gosubset_prok exact_synonym: "mycose catabolism" [] exact_synonym: "mykose catabolism" [] exact_synonym: "trehalose breakdown" [] exact_synonym: "trehalose degradation" [] xref_analog: MetaCyc:TREDEGLOW-PWY is_a: GO:0005991 ! trehalose metabolism is_a: GO:0046352 ! disaccharide catabolism [Term] id: GO:0005994 name: melibiose metabolism namespace: biological_process def: "The chemical reactions and pathways involving melibiose, the disaccharide 6-O-alpha-D-galactopyranosyl-D-glucose." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0005984 ! disaccharide metabolism [Term] id: GO:0005995 name: melibiose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of melibiose, the disaccharide 6-O-alpha-D-galactopyranosyl-D-glucose." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "melibiose breakdown" [] exact_synonym: "melibiose degradation" [] is_a: GO:0005994 ! melibiose metabolism is_a: GO:0046352 ! disaccharide catabolism [Term] id: GO:0005996 name: monosaccharide metabolism namespace: biological_process def: "The chemical reactions and pathways involving monosaccharides, the simplest carbohydrates. They are polyhydric alcohols containing either an aldehyde or a keto group and between three to ten or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006066 ! alcohol metabolism is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0005997 name: xylulose metabolism namespace: biological_process def: "The chemical reactions and pathways involving xylulose, the ketopentose threo-2-pentulose." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0019321 ! pentose metabolism [Term] id: GO:0005998 name: xylulose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of xylulose, the ketopentose threo-2-pentulose." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "xylulose breakdown" [] exact_synonym: "xylulose degradation" [] xref_analog: MetaCyc:XYLCAT-PWY is_a: GO:0005997 ! xylulose metabolism is_a: GO:0019323 ! pentose catabolism [Term] id: GO:0005999 name: xylulose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of xylulose, the ketopentose threo-2-pentulose." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "xylulose anabolism" [] exact_synonym: "xylulose formation" [] exact_synonym: "xylulose synthesis" [] is_a: GO:0005997 ! xylulose metabolism is_a: GO:0019322 ! pentose biosynthesis [Term] id: GO:0006000 name: fructose metabolism namespace: biological_process def: "The chemical reactions and pathways involving fructose, the ketohexose arabino-2-hexulose. Fructose exists in a open chain form or as a ring compound. D-fructose is the sweetest of the sugars and is found free in a large number of fruits and honey." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006001 name: fructose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of fructose, the ketohexose arabino-2-hexulose." [GOC:ai] subset: gosubset_prok exact_synonym: "fructose breakdown" [] exact_synonym: "fructose degradation" [] xref_analog: Reactome:70350 is_a: GO:0006000 ! fructose metabolism is_a: GO:0019320 ! hexose catabolism [Term] id: GO:0006002 name: fructose 6-phosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving fructose 6-phosphate, also known as F6P. The D-enantiomer is an important intermediate in glycolysis, gluconeogenesis, and fructose metabolism." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006000 ! fructose metabolism [Term] id: GO:0006003 name: fructose 2,6-bisphosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving fructose 2,6-bisphosphate. The D enantiomer is an important regulator of the glycolytic and gluconeogenic pathways. It inhibits fructose 1,6-bisphosphatase and activates phosphofructokinase." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006000 ! fructose metabolism [Term] id: GO:0006004 name: fucose metabolism namespace: biological_process def: "The chemical reactions and pathways involving fucose, or 6-deoxygalactose, which has two enantiomers, D-fucose and L-fucose." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006005 name: L-fucose biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of L-fucose (6-deoxy-L-galactose)." [GOC:jl] subset: gosubset_prok exact_synonym: "L-fucose anabolism" [] exact_synonym: "L-fucose formation" [] exact_synonym: "L-fucose synthesis" [] is_a: GO:0042353 ! fucose biosynthesis is_a: GO:0042354 ! L-fucose metabolism [Term] id: GO:0006006 name: glucose metabolism namespace: biological_process def: "The chemical reactions and pathways involving glucose, the aldohexose gluco-hexose. D-glucose is dextrorotatory and is sometimes known as dextrose; it is an important source of energy for living organisms and is found free as well as combined in homo- and hetero-oligosaccharides and polysaccharides." [ISBN:0198506732] subset: gosubset_prok xref_analog: Reactome:70326 is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006007 name: glucose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glucose, the aldohexose gluco-hexose." [GOC:ai] subset: gosubset_prok exact_synonym: "glucose breakdown" [] exact_synonym: "glucose degradation" [] is_a: GO:0006006 ! glucose metabolism is_a: GO:0019320 ! hexose catabolism [Term] id: GO:0006008 name: glucose 1-phosphate utilization namespace: biological_process subset: gosubset_prok is_a: GO:0019255 ! glucose 1-phosphate metabolism [Term] id: GO:0006009 name: glucose 1-phosphate phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into glucose 1-phosphate to produce glucose bisphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0019255 ! glucose 1-phosphate metabolism is_a: GO:0046835 ! carbohydrate phosphorylation [Term] id: GO:0006010 name: glucose 6-phosphate utilization namespace: biological_process subset: gosubset_prok is_a: GO:0051156 ! glucose 6-phosphate metabolism [Term] id: GO:0006011 name: UDP-glucose metabolism namespace: biological_process def: "The chemical reactions and pathways involving UDP-glucose, uridinediphosphoglucose, a substance composed of glucose in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0006006 ! glucose metabolism is_a: GO:0009225 ! nucleotide-sugar metabolism [Term] id: GO:0006012 name: galactose metabolism namespace: biological_process def: "The chemical reactions and pathways involving galactose, the aldohexose galacto-hexose. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose." [ISBN:0198506732] subset: gosubset_prok xref_analog: MetaCyc:GALACTMETAB-PWY is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006013 name: mannose metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannose, the aldohexose manno-hexose, the C-2 epimer of glucose. The D-(+)-form is widely distributed in mannans and hemicelluloses and is of major importance in the core oligosaccharide of N-linked oligosaccharides of glycoproteins." [ISBN:0198506732] subset: gosubset_prok xref_analog: MetaCyc:MANGDPMET-PWY is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006014 name: D-ribose metabolism namespace: biological_process def: "The chemical reactions and pathways involving D-ribose (ribo-pentose). As beta-D-ribofuranose, D-ribose forms the glycose moiety of all ribonucleosides, ribonucleotides and ribonucleic acids, and also of ribose phosphates, various glycosides, some coenzymes and some forms of vitamin B12." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0019321 ! pentose metabolism [Term] id: GO:0006015 name: 5-phosphoribose 1-diphosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of 5-phosphoribose 1-diphosphate, also known as 5-phosphoribosyl-1-pyrophosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "5-phosphoribose 1-diphosphate anabolism" [] exact_synonym: "5-phosphoribose 1-diphosphate formation" [] exact_synonym: "5-phosphoribose 1-diphosphate synthesis" [] exact_synonym: "5-phosphoribosyl-1-pyrophosphate biosynthesis" [] xref_analog: MetaCyc:PRPPSYN-PWY is_a: GO:0046390 ! ribose phosphate biosynthesis is_a: GO:0046391 ! 5-phosphoribose 1-diphosphate metabolism [Term] id: GO:0006016 name: 2-deoxyribose 1-phosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of 2-deoxyribose 1-phosphate, the phosphorylated sugar 1-phospho-2-deoxyribose." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "2-deoxyribose 1-phosphate anabolism" [] exact_synonym: "2-deoxyribose 1-phosphate formation" [] exact_synonym: "2-deoxyribose 1-phosphate synthesis" [] is_a: GO:0046384 ! 2-deoxyribose 1-phosphate metabolism is_a: GO:0046385 ! deoxyribose phosphate biosynthesis [Term] id: GO:0006017 name: deoxyribose 1,5-bisphosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of deoxyribose 1,5-bisphosphate, the diphosphorylated sugar 1,5-diphospho-2-deoxyribose." [GOC:ai] subset: gosubset_prok exact_synonym: "deoxyribose 1,5-bisphosphate anabolism" [] exact_synonym: "deoxyribose 1,5-bisphosphate formation" [] exact_synonym: "deoxyribose 1,5-bisphosphate synthesis" [] is_a: GO:0046385 ! deoxyribose phosphate biosynthesis is_a: GO:0046387 ! deoxyribose 1,5-bisphosphate metabolism [Term] id: GO:0006018 name: deoxyribose 1-phosphate catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxyribose 1-phosphate, the phosphorylated sugar 1-phospho-2-deoxyribose." [GOC:ai] subset: gosubset_prok exact_synonym: "deoxyribose 1-phosphate breakdown" [] exact_synonym: "deoxyribose 1-phosphate degradation" [] is_a: GO:0046386 ! deoxyribose phosphate catabolism is_a: GO:0046388 ! deoxyribose 1-phosphate metabolism [Term] id: GO:0006019 name: deoxyribose 5-phosphate phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into deoxyribose 5-phosphate to produce deoxyribose bisphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0046389 ! deoxyribose 5-phosphate metabolism is_a: GO:0046835 ! carbohydrate phosphorylation [Term] id: GO:0006020 name: myo-inositol metabolism namespace: biological_process def: "The chemical reactions and pathways involving myo-inositol, 1,2,3,4,5/4,6-cyclohexanehexol, a growth factor for animals and microorganisms." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "vitamin Bh metabolism" [] broad_synonym: "inositol metabolism" [] is_a: GO:0019318 ! hexose metabolism [Term] id: GO:0006021 name: myo-inositol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of myo-inositol, 1,2,3,4,5/4,6-cyclohexanehexol, a growth factor for animals and microorganisms." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "myo-inositol anabolism" [] exact_synonym: "myo-inositol formation" [] exact_synonym: "myo-inositol synthesis" [] exact_synonym: "vitamin Bh biosynthesis" [] is_a: GO:0006020 ! myo-inositol metabolism is_a: GO:0019319 ! hexose biosynthesis [Term] id: GO:0006022 name: aminoglycan metabolism namespace: biological_process def: "The chemical reactions and pathways involving aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0009308 ! amine metabolism is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0006023 name: aminoglycan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "aminoglycan anabolism" [] exact_synonym: "aminoglycan formation" [] exact_synonym: "aminoglycan synthesis" [] is_a: GO:0006022 ! aminoglycan metabolism is_a: GO:0016051 ! carbohydrate biosynthesis [Term] id: GO:0006024 name: glycosaminoglycan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] subset: gosubset_prok exact_synonym: "glycosaminoglycan anabolism" [] exact_synonym: "glycosaminoglycan formation" [] exact_synonym: "glycosaminoglycan synthesis" [] is_a: GO:0006023 ! aminoglycan biosynthesis is_a: GO:0030203 ! glycosaminoglycan metabolism [Term] id: GO:0006025 name: galactosaminoglycan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose." [GOC:ai] subset: gosubset_prok exact_synonym: "galactosaminoglycan anabolism" [] exact_synonym: "galactosaminoglycan formation" [] exact_synonym: "galactosaminoglycan synthesis" [] is_a: GO:0006023 ! aminoglycan biosynthesis is_a: GO:0046350 ! galactosaminoglycan metabolism [Term] id: GO:0006026 name: aminoglycan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "aminoglycan breakdown" [] exact_synonym: "aminoglycan degradation" [] is_a: GO:0006022 ! aminoglycan metabolism is_a: GO:0044275 ! cellular carbohydrate catabolism [Term] id: GO:0006027 name: glycosaminoglycan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glycosaminoglycans, any one of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] subset: gosubset_prok exact_synonym: "glycosaminoglycan breakdown" [] exact_synonym: "glycosaminoglycan degradation" [] is_a: GO:0006026 ! aminoglycan catabolism is_a: GO:0030203 ! glycosaminoglycan metabolism [Term] id: GO:0006028 name: galactosaminoglycan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose." [GOC:ai] subset: gosubset_prok exact_synonym: "galactosaminoglycan breakdown" [] exact_synonym: "galactosaminoglycan degradation" [] is_a: GO:0006026 ! aminoglycan catabolism is_a: GO:0046350 ! galactosaminoglycan metabolism [Term] id: GO:0006029 name: proteoglycan metabolism namespace: biological_process def: "The chemical reactions and pathways involving proteoglycans, any glycoprotein in which the carbohydrate units are glycosaminoglycans." [GOC:mah, ISBN:0198506732] subset: gosubset_prok narrow_synonym: "proteoglycan sulfate transfer" [] is_a: GO:0044262 ! cellular carbohydrate metabolism is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006030 name: chitin metabolism namespace: biological_process def: "The chemical reactions and pathways involving chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "beta-1,4-linked N-acetylglucosamine metabolism" [] is_a: GO:0006044 ! N-acetylglucosamine metabolism is_a: GO:0044264 ! cellular polysaccharide metabolism [Term] id: GO:0006031 name: chitin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "beta-1,4-linked N-acetylglucosamine biosynthesis" [] exact_synonym: "chitin anabolism" [] exact_synonym: "chitin formation" [] exact_synonym: "chitin synthesis" [] is_a: GO:0000271 ! polysaccharide biosynthesis is_a: GO:0006030 ! chitin metabolism is_a: GO:0006045 ! N-acetylglucosamine biosynthesis [Term] id: GO:0006032 name: chitin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "beta-1,4-linked N-acetylglucosamine catabolism" [] exact_synonym: "chitin breakdown" [] exact_synonym: "chitin degradation" [] is_a: GO:0006030 ! chitin metabolism is_a: GO:0006046 ! N-acetylglucosamine catabolism is_a: GO:0044247 ! cellular polysaccharide catabolism [Term] id: GO:0006033 name: chitin localization namespace: biological_process def: "The processes by which chitin is transported to, or maintained in, a specific location." [GOC:ai] related_synonym: "loss of asymmetric budding" [] exact_synonym: "establishment and maintenance of chitin localization" [] is_a: GO:0051179 ! localization [Term] id: GO:0006034 name: cuticle chitin metabolism namespace: biological_process def: "The chemical reactions and pathways involving cuticle chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in cuticles." [GOC:ai] is_a: GO:0006030 ! chitin metabolism [Term] id: GO:0006035 name: cuticle chitin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cuticle chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in cuticles." [GOC:ai] exact_synonym: "cuticle chitin anabolism" [] exact_synonym: "cuticle chitin formation" [] exact_synonym: "cuticle chitin synthesis" [] is_a: GO:0006031 ! chitin biosynthesis is_a: GO:0006034 ! cuticle chitin metabolism relationship: part_of GO:0042335 ! cuticle biosynthesis [Term] id: GO:0006036 name: cuticle chitin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of cuticle chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in cuticles." [GOC:ai] exact_synonym: "cuticle chitin breakdown" [] exact_synonym: "cuticle chitin degradation" [] is_a: GO:0006032 ! chitin catabolism is_a: GO:0006034 ! cuticle chitin metabolism [Term] id: GO:0006037 name: cell wall chitin metabolism namespace: biological_process def: "The chemical reactions and pathways involving cell wall chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in the walls of cells." [GOC:ai] subset: gosubset_prok is_a: GO:0006030 ! chitin metabolism [Term] id: GO:0006038 name: cell wall chitin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cell wall chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in the walls of cells." [GOC:ai] exact_synonym: "cell wall chitin anabolism" [] exact_synonym: "cell wall chitin formation" [] exact_synonym: "cell wall chitin synthesis" [] is_a: GO:0006031 ! chitin biosynthesis is_a: GO:0006037 ! cell wall chitin metabolism is_a: GO:0051278 ! cell wall polysaccharide biosynthesis (sensu Fungi) [Term] id: GO:0006039 name: cell wall chitin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of cell wall chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in the walls of cells." [GOC:ai] subset: gosubset_prok exact_synonym: "cell wall chitin breakdown" [] exact_synonym: "cell wall chitin degradation" [] is_a: GO:0006032 ! chitin catabolism is_a: GO:0006037 ! cell wall chitin metabolism relationship: part_of GO:0016998 ! cell wall catabolism [Term] id: GO:0006040 name: amino sugar metabolism namespace: biological_process def: "The chemical reactions and pathways involving any amino sugar, sugars containing an amino group in place of a hydroxyl group." [GOC:jl, ISBN:0192801023] subset: gosubset_prok exact_synonym: "aminosaccharide metabolism" [] is_a: GO:0009308 ! amine metabolism is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0006041 name: glucosamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving glucosamine (2-amino-2-deoxyglucopyranose), an aminodeoxysugar that occurs in combined form in chitin." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "chitosamine metabolism" [] is_a: GO:0006040 ! amino sugar metabolism [Term] id: GO:0006042 name: glucosamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glucosamine (2-amino-2-deoxyglucopyranose), an aminodeoxysugar that occurs in combined form in chitin." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "chitosamine biosynthesis" [] exact_synonym: "glucosamine anabolism" [] exact_synonym: "glucosamine formation" [] exact_synonym: "glucosamine synthesis" [] is_a: GO:0006041 ! glucosamine metabolism is_a: GO:0046349 ! amino sugar biosynthesis [Term] id: GO:0006043 name: glucosamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glucosamine (2-amino-2-deoxyglucopyranose), an aminodeoxysugar that occurs in combined form in chitin." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "chitosamine catabolism" [] exact_synonym: "glucosamine breakdown" [] exact_synonym: "glucosamine degradation" [] xref_analog: MetaCyc:GLUAMCAT-PWY is_a: GO:0006041 ! glucosamine metabolism is_a: GO:0046348 ! amino sugar catabolism [Term] id: GO:0006044 name: N-acetylglucosamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving N-acetylglucosamine. The D isomer is a common structural unit of glycoproteins in plants, bacteria and animals; it is often the terminal sugar of an oligosaccharide moiety of a glycoprotein." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006041 ! glucosamine metabolism [Term] id: GO:0006045 name: N-acetylglucosamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of N-acetylglucosamine. The D isomer is a common structural unit of glycoproteins in plants, bacteria and animals; it is often the terminal sugar of an oligosaccharide moiety of a glycoprotein." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "N-acetylglucosamine anabolism" [] exact_synonym: "N-acetylglucosamine formation" [] exact_synonym: "N-acetylglucosamine synthesis" [] is_a: GO:0006042 ! glucosamine biosynthesis is_a: GO:0006044 ! N-acetylglucosamine metabolism [Term] id: GO:0006046 name: N-acetylglucosamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of N-acetylglucosamine. The D isomer is a common structural unit of glycoproteins in plants, bacteria and animals; it is often the terminal sugar of an oligosaccharide moiety of a glycoprotein." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "N-acetylglucosamine breakdown" [] exact_synonym: "N-acetylglucosamine degradation" [] is_a: GO:0006043 ! glucosamine catabolism is_a: GO:0006044 ! N-acetylglucosamine metabolism [Term] id: GO:0006047 name: UDP-N-acetylglucosamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0006044 ! N-acetylglucosamine metabolism is_a: GO:0009225 ! nucleotide-sugar metabolism [Term] id: GO:0006048 name: UDP-N-acetylglucosamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "UDP-GlcNAc biosynthesis" [] exact_synonym: "UDP-N-acetylglucosamine anabolism" [] exact_synonym: "UDP-N-acetylglucosamine formation" [] exact_synonym: "UDP-N-acetylglucosamine synthesis" [] xref_analog: MetaCyc:UDPNAGSYN-PWY is_a: GO:0006045 ! N-acetylglucosamine biosynthesis is_a: GO:0006047 ! UDP-N-acetylglucosamine metabolism [Term] id: GO:0006049 name: UDP-N-acetylglucosamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "UDP-N-acetylglucosamine breakdown" [] exact_synonym: "UDP-N-acetylglucosamine degradation" [] is_a: GO:0006046 ! N-acetylglucosamine catabolism is_a: GO:0006047 ! UDP-N-acetylglucosamine metabolism [Term] id: GO:0006050 name: mannosamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannosomine, 2-amino-2-deoxymannose; the D-isomer is a constituent of neuraminic acids as well as mucolipids and mucoproteins." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006040 ! amino sugar metabolism [Term] id: GO:0006051 name: N-acetylmannosamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving N-acetylmannosamine, the acetylated derivative of mannosamine, 2-amino-2-deoxymannose." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006050 ! mannosamine metabolism [Term] id: GO:0006052 name: N-acetylmannosamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of N-acetylmannosamine, the acetylated derivative of mannosamine, 2-amino-2-deoxymannose." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "N-acetylmannosamine anabolism" [] exact_synonym: "N-acetylmannosamine formation" [] exact_synonym: "N-acetylmannosamine synthesis" [] is_a: GO:0006051 ! N-acetylmannosamine metabolism is_a: GO:0046347 ! mannosamine biosynthesis [Term] id: GO:0006053 name: N-acetylmannosamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of N-acetylmannosamine, the acetylated derivative of mannosamine, 2-amino-2-deoxymannose." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "N-acetylmannosamine breakdown" [] exact_synonym: "N-acetylmannosamine degradation" [] is_a: GO:0006051 ! N-acetylmannosamine metabolism is_a: GO:0046346 ! mannosamine catabolism [Term] id: GO:0006054 name: N-acetylneuraminate metabolism namespace: biological_process def: "The chemical reactions and pathways involving N-acetylneuraminate, the anion of 5-(acetylamino)-3,5-dideoxy-D-glycero-D-galacto-non-3-ulosonic acid." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sialic acid metabolism" [] is_a: GO:0006040 ! amino sugar metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006055 name: CMP-N-acetylneuraminate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of CMP-N-acetylneuraminate, a substance composed of 5-(acetylamino)-3,5-dideoxy-D-glycero-D-galacto-non-3-ulosonic acid in glycosidic linkage with cytidine monophosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "CMP-N-acetylneuraminate anabolism" [] exact_synonym: "CMP-N-acetylneuraminate formation" [] exact_synonym: "CMP-N-acetylneuraminate synthesis" [] is_a: GO:0046380 ! N-acetylneuraminate biosynthesis is_a: GO:0046381 ! CMP-N-acetylneuraminate metabolism [Term] id: GO:0006056 name: mannoprotein metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannoproteins, any protein that contains covalently bound mannose residues other than as a moiety of nucleic acid." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006057 name: mannoprotein biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of mannoproteins, any protein that contains covalently bound mannose residues other than as a moiety of nucleic acid." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "mannoprotein anabolism" [] exact_synonym: "mannoprotein formation" [] exact_synonym: "mannoprotein synthesis" [] is_a: GO:0006056 ! mannoprotein metabolism is_a: GO:0006412 ! protein biosynthesis [Term] id: GO:0006058 name: mannoprotein catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mannoproteins, any protein that contains covalently bound mannose residues other than as a moiety of nucleic acid." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "mannoprotein breakdown" [] exact_synonym: "mannoprotein degradation" [] is_a: GO:0006056 ! mannoprotein metabolism is_a: GO:0051603 ! proteolysis during cellular protein catabolism [Term] id: GO:0006059 name: hexitol metabolism namespace: biological_process def: "The chemical reactions and pathways involving hexitols, any alditol with a chain of six carbon atoms in the molecule." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sugar alcohol (hexitol) metabolism" [] is_a: GO:0019400 ! alditol metabolism [Term] id: GO:0006060 name: sorbitol metabolism namespace: biological_process def: "The chemical reactions and pathways involving sorbitol (D-glucitol), one of the ten stereoisomeric hexitols. It can be derived from glucose by reduction of the aldehyde group." [ISBN:0198506732] subset: gosubset_prok xref_analog: MetaCyc:P461-PWY is_a: GO:0006059 ! hexitol metabolism [Term] id: GO:0006061 name: sorbitol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of sorbitol (D-glucitol), one of the ten stereoisomeric hexitols. It can be derived from glucose by reduction of the aldehyde group." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sorbitol anabolism" [] exact_synonym: "sorbitol formation" [] exact_synonym: "sorbitol synthesis" [] is_a: GO:0006060 ! sorbitol metabolism is_a: GO:0019406 ! hexitol biosynthesis [Term] id: GO:0006062 name: sorbitol catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of sorbitol (D-glucitol), one of the ten stereoisomeric hexitols. It can be derived from glucose by reduction of the aldehyde group." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sorbitol breakdown" [] exact_synonym: "sorbitol degradation" [] xref_analog: MetaCyc:SORBDEG-PWY is_a: GO:0006060 ! sorbitol metabolism is_a: GO:0019407 ! hexitol catabolism [Term] id: GO:0006063 name: uronic acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving uronic acid, any monocarboxylic acid formally derived by oxidizing to a carboxyl group the terminal hydroxymethylene group of either an aldose with four or more carbon atoms in the molecule, or of any glycoside derived from such an aldose." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006064 name: glucuronate catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glucuronate, any salt or ester of glucuronic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glucuronate breakdown" [] exact_synonym: "glucuronate degradation" [] xref_analog: MetaCyc:GURGAPCAT-PWY6 is_a: GO:0019585 ! glucuronate metabolism is_a: GO:0046395 ! carboxylic acid catabolism [Term] id: GO:0006065 name: UDP-glucuronate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of UDP-glucuronate, a substance composed of glucuronic acid in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "UDP-glucuronate anabolism" [] exact_synonym: "UDP-glucuronate formation" [] exact_synonym: "UDP-glucuronate synthesis" [] is_a: GO:0046398 ! UDP-glucuronate metabolism is_a: GO:0046399 ! glucuronate biosynthesis [Term] id: GO:0006066 name: alcohol metabolism namespace: biological_process def: "The chemical reactions and pathways involving alcohols, any of a class of alkyl compounds containing a hydroxyl group." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006067 name: ethanol metabolism namespace: biological_process def: "The chemical reactions and pathways involving ethanol, CH3-CH2-OH, a colorless, water-miscible, flammable liquid produced by alcoholic fermentation." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006066 ! alcohol metabolism [Term] id: GO:0006068 name: ethanol catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ethanol, CH3-CH2-OH, a colorless, water-miscible, flammable liquid produced by alcoholic fermentation." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "ethanol breakdown" [] exact_synonym: "ethanol degradation" [] xref_analog: MetaCyc:PWY0-341 xref_analog: Reactome:71384 is_a: GO:0006067 ! ethanol metabolism is_a: GO:0046164 ! alcohol catabolism [Term] id: GO:0006069 name: ethanol oxidation namespace: biological_process subset: gosubset_prok is_a: GO:0006067 ! ethanol metabolism [Term] id: GO:0006070 name: octanol metabolism namespace: biological_process def: "The chemical reactions and pathways involving octanol, the 8-carbon alcohol with the formula C8H17OH." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006066 ! alcohol metabolism [Term] id: GO:0006071 name: glycerol metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids." [GOC:ai, ISBN:0198506732] subset: gosubset_prok xref_analog: MetaCyc:GLYCEROLMETAB-PWY is_a: GO:0019751 ! polyol metabolism [Term] id: GO:0006072 name: glycerol-3-phosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycerol-3-phosphate, a phosphoric monoester of glycerol." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006071 ! glycerol metabolism [Term] id: GO:0006073 name: glucan metabolism namespace: biological_process def: "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0044264 ! cellular polysaccharide metabolism [Term] id: GO:0006074 name: 1,3-beta-glucan metabolism namespace: biological_process def: "The chemical reactions and pathways involving beta-1,3 glucans, compounds composed of glucose residues linked by 1,3-beta-D-glucosidic bonds." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "beta-1,3 glucan metabolism" [] is_a: GO:0051273 ! beta-glucan metabolism [Term] id: GO:0006075 name: 1,3-beta-glucan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of beta-1,3 glucans." [GOC:ai] exact_synonym: "1,3-beta-glucan anabolism" [] exact_synonym: "1,3-beta-glucan formation" [] exact_synonym: "1,3-beta-glucan synthesis" [] exact_synonym: "beta-1,3 glucan anabolism" [] exact_synonym: "beta-1,3 glucan biosynthesis" [] exact_synonym: "beta-1,3 glucan formation" [] exact_synonym: "beta-1,3 glucan synthesis" [] is_a: GO:0006074 ! 1,3-beta-glucan metabolism is_a: GO:0051274 ! beta-glucan biosynthesis is_a: GO:0051278 ! cell wall polysaccharide biosynthesis (sensu Fungi) [Term] id: GO:0006076 name: 1,3-beta-glucan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of beta-1,3 glucans." [GOC:ai] subset: gosubset_prok exact_synonym: "1,3-beta-glucan breakdown" [] exact_synonym: "1,3-beta-glucan degradation" [] exact_synonym: "beta-1,3 glucan breakdown" [] exact_synonym: "beta-1,3 glucan catabolism" [] exact_synonym: "beta-1,3 glucan degradation" [] is_a: GO:0006074 ! 1,3-beta-glucan metabolism is_a: GO:0051275 ! beta-glucan catabolism [Term] id: GO:0006077 name: 1,6-beta-glucan metabolism namespace: biological_process def: "The chemical reactions and pathways involving beta-1,6 glucans, compounds composed of glucose residues linked by 1,6-beta-D-glucosidic bonds." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "beta-1,6 glucan metabolism" [] is_a: GO:0051273 ! beta-glucan metabolism [Term] id: GO:0006078 name: 1,6-beta-glucan biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of beta-1,6 glucans." [GOC:ai] exact_synonym: "1,6-beta-glucan anabolism" [] exact_synonym: "1,6-beta-glucan formation" [] exact_synonym: "1,6-beta-glucan synthesis" [] exact_synonym: "beta-1,6 glucan anabolism" [] exact_synonym: "beta-1,6 glucan biosynthesis" [] exact_synonym: "beta-1,6 glucan formation" [] exact_synonym: "beta-1,6 glucan synthesis" [] is_a: GO:0006077 ! 1,6-beta-glucan metabolism is_a: GO:0051274 ! beta-glucan biosynthesis is_a: GO:0051278 ! cell wall polysaccharide biosynthesis (sensu Fungi) [Term] id: GO:0006079 name: 1,6-beta-glucan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of beta-1,6 glucans." [GOC:ai] subset: gosubset_prok exact_synonym: "1,6-beta-glucan breakdown" [] exact_synonym: "1,6-beta-glucan degradation" [] exact_synonym: "beta-1,6 glucan breakdown" [] exact_synonym: "beta-1,6 glucan catabolism" [] exact_synonym: "beta-1,6 glucan degradation" [] is_a: GO:0006077 ! 1,6-beta-glucan metabolism is_a: GO:0051275 ! beta-glucan catabolism [Term] id: GO:0006080 name: mannan metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannan, the main hemicellulose of soft (coniferous) wood, made up of D-mannose, D-glucose and D-galactose. Mannans also occur in ferns, high plants, algae and some yeasts where they may function as the main structural component of the cell wall." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0044264 ! cellular polysaccharide metabolism [Term] id: GO:0006081 name: aldehyde metabolism namespace: biological_process def: "The chemical reactions and pathways involving aldehydes, any organic compound with the formula R-CH=O." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "alkanal metabolism" [] is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006082 name: organic acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving organic acids, any acidic compound containing carbon in covalent linkage." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006083 name: acetate metabolism namespace: biological_process def: "The chemical reactions and pathways involving acetate, the anion of acetic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006084 name: acetyl-CoA metabolism namespace: biological_process def: "The chemical reactions and pathways involving acetyl-CoA, a derivative of coenzyme A in which the sulfhydryl group is acetylated; it is a metabolite derived from several pathways (e.g. glycolysis, fatty acid oxidation, amino-acid catabolism) and is further metabolized by the tricarboxylic acid cycle. It is a key intermediate in lipid and terpenoid biosynthesis." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "acetyl coenzyme A metabolism" [] is_a: GO:0006732 ! coenzyme metabolism [Term] id: GO:0006085 name: acetyl-CoA biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of acetyl-CoA, a derivative of coenzyme A in which the sulfhydryl group is acetylated." [GOC:go_curators] subset: gosubset_prok exact_synonym: "acetyl-CoA anabolism" [] exact_synonym: "acetyl-CoA formation" [] exact_synonym: "acetyl-CoA synthesis" [] is_a: GO:0006084 ! acetyl-CoA metabolism [Term] id: GO:0006086 name: acetyl-CoA biosynthesis from pyruvate namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of acetyl-CoA from other compounds, including pyruvate." [GOC:go_curators] subset: gosubset_prok exact_synonym: "acetyl-CoA anabolism from pyruvate" [] exact_synonym: "acetyl-CoA formation from pyruvate" [] exact_synonym: "acetyl-CoA synthesis from pyruvate" [] exact_synonym: "pyruvate dehydrogenase pathway" [] xref_analog: MetaCyc:PYRUVDEHYD-PWY xref_analog: Reactome:71397 is_a: GO:0006085 ! acetyl-CoA biosynthesis is_a: GO:0006090 ! pyruvate metabolism [Term] id: GO:0006087 name: pyruvate dehydrogenase bypass namespace: biological_process subset: gosubset_prok is_a: GO:0006090 ! pyruvate metabolism [Term] id: GO:0006088 name: acetate to acetyl-CoA namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a function rather than a process. To update annotations, consider the molecular function term 'acetate-CoA ligase activity ; GO:0003987'. is_obsolete: true [Term] id: GO:0006089 name: lactate metabolism namespace: biological_process def: "The chemical reactions and pathways involving lactate, the anion of lactic acid." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "2-hydroxypropanoate metabolism" [] exact_synonym: "alpha-hydroxypropionate metabolism" [] is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006090 name: pyruvate metabolism namespace: biological_process def: "The chemical reactions and pathways involving pyruvate, 2-oxopropanoate." [GOC:go_curators] subset: gosubset_prok xref_analog: MetaCyc:P41-PWY is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006091 name: generation of precursor metabolites and energy namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and the processes involved in the liberation of energy from these substances." [GOC:jl] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok broad_synonym: "energy pathways" [] is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006092 name: main pathways of carbohydrate metabolism namespace: biological_process subset: gosubset_prok is_a: GO:0015980 ! energy derivation by oxidation of organic compounds is_a: GO:0044262 ! cellular carbohydrate metabolism [Term] id: GO:0006094 name: gluconeogenesis namespace: biological_process def: "The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "glucose biosynthesis" [] xref_analog: MetaCyc:GLUCONEO-PWY xref_analog: Reactome:70263 is_a: GO:0006006 ! glucose metabolism is_a: GO:0006090 ! pyruvate metabolism is_a: GO:0006092 ! main pathways of carbohydrate metabolism is_a: GO:0019319 ! hexose biosynthesis [Term] id: GO:0006096 name: glycolysis namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a monosaccharide (generally glucose) in other compounds, including pyruvate." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok xref_analog: Reactome:70171 is_a: GO:0006007 ! glucose catabolism is_a: GO:0006092 ! main pathways of carbohydrate metabolism [Term] id: GO:0006097 name: glyoxylate cycle namespace: biological_process def: "A modification of the TCA cycle occurring in some plants and microorganisms, in which isocitrate is cleaved to glyoxylate and succinate. Glyoxylate can then react with acetyl-CoA to form malate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "glyoxylate bypass" [] xref_analog: MetaCyc:GLYOXYLATE-BYPASS is_a: GO:0006092 ! main pathways of carbohydrate metabolism is_a: GO:0046487 ! glyoxylate metabolism [Term] id: GO:0006098 name: pentose-phosphate shunt namespace: biological_process def: "The process by which glucose is oxidized, coupled to NADPH synthesis. Glucose 6-P is oxidized with the formation of carbon dioxide (CO2), ribulose 5-phosphate and reduced NADP; ribulose 5-P then enters a series of reactions interconverting sugar phosphates. The pentose phosphate pathway is a major source of reducing equivalents for biosynthesis reactions and is also important for the conversion of hexoses to pentoses." [ISBN:0198506732, MetaCyc:PENTOSE-P-PWY] subset: gosubset_prok exact_synonym: "hexose monophosphate pathway" [] exact_synonym: "pentose phosphate pathway" [] exact_synonym: "pentose phosphate shunt" [] exact_synonym: "pentose-phosphate pathway" [] xref_analog: MetaCyc:PENTOSE-P-PWY xref_analog: Reactome:71336 is_a: GO:0006007 ! glucose catabolism is_a: GO:0006092 ! main pathways of carbohydrate metabolism is_a: GO:0006740 ! NADPH regeneration [Term] id: GO:0006099 name: tricarboxylic acid cycle namespace: biological_process def: "A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two C02 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "citric acid cycle" [] exact_synonym: "Krebs cycle" [] exact_synonym: "TCA cycle" [] xref_analog: MetaCyc:P102-PWY xref_analog: MetaCyc:P103-PWY xref_analog: MetaCyc:P104-PWY xref_analog: MetaCyc:P105-PWY xref_analog: MetaCyc:P42-PWY xref_analog: MetaCyc:P62-PWY xref_analog: MetaCyc:P63-PWY xref_analog: MetaCyc:P82-PWY xref_analog: MetaCyc:TCA xref_analog: Reactome:71403 is_a: GO:0006092 ! main pathways of carbohydrate metabolism is_a: GO:0046356 ! acetyl-CoA catabolism relationship: part_of GO:0009060 ! aerobic respiration [Term] id: GO:0006100 name: tricarboxylic acid cycle intermediate metabolism namespace: biological_process def: "The chemical reactions and pathways involving intermediates of the tricarboxylic acid cycle." [GOC:ai] subset: gosubset_prok exact_synonym: "citric acid cycle intermediate metabolism" [] exact_synonym: "Krebs cycle intermediate metabolism" [] exact_synonym: "TCA intermediate metabolism" [] is_a: GO:0006092 ! main pathways of carbohydrate metabolism [Term] id: GO:0006101 name: citrate metabolism namespace: biological_process def: "The chemical reactions and pathways involving citrate, 2-hydroxy-1,2,3-propanetricarboyxlate. Citrate is widely distributed in nature and is an important intermediate in the TCA cycle and the glyoxylate cycle." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006102 name: isocitrate metabolism namespace: biological_process def: "The chemical reactions and pathways involving isocitrate, the anion of isocitric acid, 1-hydroxy-1,2,3-propanetricarboxylic acid. Isocitrate is an important intermediate in the TCA cycle and the glycoxylate cycle." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006103 name: 2-oxoglutarate metabolism namespace: biological_process def: "The chemical reactions and pathways involving oxoglutarate, the dianion of 2-oxoglutaric acid. It is a key constituent of the TCA cycle and a key intermediate in amino-acid metabolism." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "2-ketoglutarate metabolism" [] exact_synonym: "alpha-ketoglutarate metabolism" [] exact_synonym: "alpha-oxoglutarate metabolism" [] is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0019752 ! carboxylic acid metabolism is_a: GO:0042180 ! ketone metabolism [Term] id: GO:0006104 name: succinyl-CoA metabolism namespace: biological_process def: "The chemical reactions and pathways involving succinyl-CoA, a compound composed of the univalent acyl group 3-carboxypropanoyl, derived from succinic acid by loss of one OH group, linked to coenzyme A." [GOC:ai] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0006732 ! coenzyme metabolism [Term] id: GO:0006105 name: succinate metabolism namespace: biological_process def: "The chemical reactions and pathways involving succinate, also known as butanedioate or ethane dicarboxylate, the dianion of succinic acid. Succinate is an important intermediate in metabolism and a component of the TCA cycle." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006106 name: fumarate metabolism namespace: biological_process def: "The chemical reactions and pathways involving fumarate, the anion of trans-1,2-ethenedicarboxylic acid, the diastereoisomer of maleate. It is a key intermediate in metabolism and is formed in the TCA cycle from succinate and converted into malate." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0043648 ! dicarboxylic acid metabolism [Term] id: GO:0006107 name: oxaloacetate metabolism namespace: biological_process def: "The chemical reactions and pathways involving oxaloacetate, the anion of oxobutanedioic acid, an important intermediate in metabolism, especially as a component of the TCA cycle." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0043648 ! dicarboxylic acid metabolism [Term] id: GO:0006108 name: malate metabolism namespace: biological_process def: "The chemical reactions and pathways involving malate, the anion of hydroxybutanedioic acid, a chiral hydroxydicarboxylic acid. The (+) enantiomer is an important intermediate in metabolism as a component of both the TCA cycle and the glyoxylate cycle." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006100 ! tricarboxylic acid cycle intermediate metabolism is_a: GO:0043648 ! dicarboxylic acid metabolism [Term] id: GO:0006109 name: regulation of carbohydrate metabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving carbohydrates." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019222 ! regulation of metabolism relationship: part_of GO:0005975 ! carbohydrate metabolism [Term] id: GO:0006110 name: regulation of glycolysis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glycolysis." [GOC:go_curators] subset: gosubset_prok is_a: GO:0009894 ! regulation of catabolism relationship: part_of GO:0006096 ! glycolysis [Term] id: GO:0006111 name: regulation of gluconeogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gluconeogenesis, the formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol." [GOC:go_curators] subset: gosubset_prok broad_synonym: "regulation of glucose biosynthesis" [] is_a: GO:0043255 ! regulation of carbohydrate biosynthesis relationship: part_of GO:0006094 ! gluconeogenesis [Term] id: GO:0006112 name: energy reserve metabolism namespace: biological_process subset: gosubset_prok is_a: GO:0015980 ! energy derivation by oxidation of organic compounds [Term] id: GO:0006113 name: fermentation namespace: biological_process def: "The anaerobic enzymatic conversion of organic compounds, especially carbohydrates, to other compounds, especially to ethyl alcohol, yielding energy in the form of adenosine triphosphate (ATP)." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok xref_analog: MetaCyc:FERMENTATION-PWY is_a: GO:0015980 ! energy derivation by oxidation of organic compounds [Term] id: GO:0006114 name: glycerol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "glycerol anabolism" [] exact_synonym: "glycerol formation" [] exact_synonym: "glycerol synthesis" [] xref_analog: MetaCyc:LIPAS-PWY is_a: GO:0006071 ! glycerol metabolism is_a: GO:0046173 ! polyol biosynthesis relationship: part_of GO:0006113 ! fermentation [Term] id: GO:0006115 name: ethanol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ethanol, CH3-CH2-OH, a colorless, water-miscible, flammable liquid produced by alcoholic fermentation." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "ethanol anabolism" [] exact_synonym: "ethanol formation" [] exact_synonym: "ethanol synthesis" [] is_a: GO:0006067 ! ethanol metabolism is_a: GO:0046165 ! alcohol biosynthesis [Term] id: GO:0006116 name: NADH oxidation namespace: biological_process def: "Any of the processes that result in the oxidation of reduced nicotinamide adenine dinucleotide, NADH, to the oxidized form, NAD." [GOC:ai] subset: gosubset_prok exact_synonym: "NAD (reduced) dehydrogenation" [] exact_synonym: "NAD (reduced) oxidation" [] exact_synonym: "NADH dehydrogenation" [] exact_synonym: "reduced NAD dehydrogenation" [] exact_synonym: "reduced NAD oxidation" [] exact_synonym: "reduced nicotinamide adenine dinucleotide dehydrogenation" [] exact_synonym: "reduced nicotinamide adenine dinucleotide oxidation" [] is_a: GO:0006734 ! NADH metabolism is_a: GO:0019674 ! NAD metabolism [Term] id: GO:0006117 name: acetaldehyde metabolism namespace: biological_process def: "The chemical reactions and pathways involving acetaldehyde, a colorless, flammable liquid intermediate in the metabolism of alcohol." [GOC:go_curators, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "ethanal metabolism" [] is_a: GO:0006081 ! aldehyde metabolism [Term] id: GO:0006118 name: electron transport namespace: biological_process def: "The transport of electrons from an electron donor to an electron acceptor." [http://cancerweb.ncl.ac.uk/] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "6-phosphofructokinase reduction" [] related_synonym: "dihydrobiopterin reduction" [] related_synonym: "dihydrolipoamide reduction" [] related_synonym: "dihydrolipoylprotein reduction" [] related_synonym: "dihydropteridine reduction" [] related_synonym: "other pathways of electron transport" [] related_synonym: "oxidized glutathione reduction" [] related_synonym: "protein-disulfide reduction" [] exact_synonym: "electron transfer" [] is_a: GO:0006091 ! generation of precursor metabolites and energy [Term] id: GO:0006119 name: oxidative phosphorylation namespace: biological_process def: "The phosphorylation of ADP to ATP that accompanies the oxidation of a metabolite through the operation of the respiratory chain. Oxidation of compounds establishes a proton gradient across the membrane, providing the energy for ATP synthesis." [ISBN:0198506732, ISBN:0471331309] subset: gosubset_prok exact_synonym: "respiratory-chain phosphorylation" [] is_a: GO:0006091 ! generation of precursor metabolites and energy is_a: GO:0016310 ! phosphorylation [Term] id: GO:0006120 name: mitochondrial electron transport, NADH to ubiquinone namespace: biological_process def: "The transfer of electrons from NADH to ubiquinone that occurs during oxidative phosphorylation, mediated by the multisubunit enzyme known as complex I." [ISBN:0716731363] related_synonym: "complex I (NADH to ubiquinone)" [] exact_synonym: "oxidative phosphorylation, NADH to ubiquinone" [] relationship: part_of GO:0042775 ! ATP synthesis coupled electron transport (sensu Eukaryota) [Term] id: GO:0006121 name: mitochondrial electron transport, succinate to ubiquinone namespace: biological_process def: "The transfer of electrons from succinate to ubiquinone that occurs during oxidative phosphorylation, mediated by the multisubunit enzyme known as complex II." [ISBN:0716731363] related_synonym: "complex II (succinate to ubiquinone)" [] exact_synonym: "mitochondrial electron transport, succinate to coenzyme Q" [] exact_synonym: "oxidative phosphorylation, succinate to ubiquinone" [] relationship: part_of GO:0042775 ! ATP synthesis coupled electron transport (sensu Eukaryota) [Term] id: GO:0006122 name: mitochondrial electron transport, ubiquinol to cytochrome c namespace: biological_process def: "The transfer of electrons from ubiquinol to cytochrome c that occurs during oxidative phosphorylation, mediated by the multisubunit enzyme known as complex III." [ISBN:0716731363] related_synonym: "complex III (ubiquinone to cytochrome c)" [] relationship: part_of GO:0042775 ! ATP synthesis coupled electron transport (sensu Eukaryota) [Term] id: GO:0006123 name: mitochondrial electron transport, cytochrome c to oxygen namespace: biological_process def: "The transfer of electrons from cytochrome c to oxygen that occurs during oxidative phosphorylation, mediated by the multisubunit enzyme known as complex IV." [ISBN:0716731363] related_synonym: "complex IV (reduction of O2)" [] relationship: part_of GO:0042775 ! ATP synthesis coupled electron transport (sensu Eukaryota) [Term] id: GO:0006124 name: ferredoxin metabolism namespace: biological_process def: "The chemical reactions and pathways involving ferredoxin, any simple, nonenzymatic iron-sulfur protein that is characterized by having equal numbers of atoms of iron and labile sulfur. Iron and sulfur atoms are present in one or two clusters of two or four atoms of each." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006125 name: thioredoxin pathway namespace: biological_process subset: gosubset_prok narrow_synonym: "thioredoxin reduction" [] xref_analog: MetaCyc:THIOREDOX-PWY is_a: GO:0006118 ! electron transport [Term] id: GO:0006126 name: other pathways of electron transport namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it was an unnecessary grouping term. To update annotations, use the biological process term 'electron transport ; GO:0006118'. is_obsolete: true [Term] id: GO:0006127 name: glycerophosphate shuttle namespace: biological_process def: "The process of transferring reducing equivalents from the cytosol into the mitochondria; NADH is used to synthesise glycerol 3-phosphate in the cytosol; this compound is then transported into the mitochondria where it is converted to dihydroxyacetone phosphate (DHAP) using FAD; DHAP then returns to the cytosol to complete the cycle." [GOC:jl, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006118 ! electron transport [Term] id: GO:0006128 name: oxidized glutathione reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because the term string represents a molecular function and not a biological pathway. To update annotations, consider the molecular function term 'glutathione-disulfide reductase activity ; GO:0004362' and the biological process terms 'glutathione metabolism ; GO:0006749' and 'electron transport ; GO:0006118'. is_obsolete: true [Term] id: GO:0006129 name: protein-disulfide reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'protein-disulfide reductase (glutathione) activity ; GO:0019153' and the biological process term 'electron transport ; GO:0006118'. exact_synonym: "protein-disulphide reduction" [] is_obsolete: true [Term] id: GO:0006130 name: 6-phosphofructokinase reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because the term string was ambiguous and the term may represent a molecular function. To update annotations, consider the molecular function term '6-phosphofructokinase activity ; GO:0003872' and the biological process term 'electron transport ; GO:0006118'. is_obsolete: true [Term] id: GO:0006131 name: dihydrolipoamide reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'dihydrolipoyl dehydrogenase activity ; GO:0004148' and the biological process terms 'electron transport ; GO:0006118' and 'dihydrolipoamide metabolism ; GO:0051068'. is_obsolete: true [Term] id: GO:0006132 name: dihydrolipoylprotein reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'dihydrolipoyl dehydrogenase activity ; GO:0004148' and the biological process term 'electron transport ; GO:0006118'. is_obsolete: true [Term] id: GO:0006133 name: 5,10-methylenetetrahydrofolate oxidation namespace: biological_process subset: gosubset_prok is_a: GO:0006118 ! electron transport [Term] id: GO:0006134 name: dihydrobiopterin reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'pteridine reductase activity ; GO:0047040' and the biological process terms 'electron transport ; GO:0006118' and 'dihydrobiopterin metabolism ; GO:0051066'. is_obsolete: true [Term] id: GO:0006135 name: dihydropteridine reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term '6,7-dihydropteridine reductase activity ; GO:0004155' and the biological process terms 'electron transport ; GO:0006118' and 'dihydropteridine metabolism ; GO:0051067'. is_obsolete: true [Term] id: GO:0006136 name: succinate-O2 electron transport namespace: biological_process subset: gosubset_prok is_a: GO:0006118 ! electron transport [Term] id: GO:0006137 name: ubiquinone-8-O2 electron transport namespace: biological_process subset: gosubset_prok is_a: GO:0006118 ! electron transport [Term] id: GO:0006138 name: NADH-O2 electron transport namespace: biological_process subset: gosubset_prok is_a: GO:0006118 ! electron transport [Term] id: GO:0006139 name: nucleobase, nucleoside, nucleotide and nucleic acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:ai] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism is_a: GO:0044238 ! primary metabolism [Term] id: GO:0006140 name: regulation of nucleotide metabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleotides." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019219 ! regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism relationship: part_of GO:0009117 ! nucleotide metabolism [Term] id: GO:0006141 name: regulation of purine base metabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving purines." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019219 ! regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism relationship: part_of GO:0006144 ! purine base metabolism [Term] id: GO:0006142 name: regulation of pyrimidine base metabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving pyrimidines." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019219 ! regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism relationship: part_of GO:0006206 ! pyrimidine base metabolism [Term] id: GO:0006143 name: purine metabolism namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more appropriate terms were created. To update annotations, consider the biological process terms 'purine base metabolism ; GO:0006144', 'purine nucleoside metabolism ; GO:0042278', 'purine nucleotide metabolism ; GO:0006163'. is_obsolete: true [Term] id: GO:0006144 name: purine base metabolism namespace: biological_process def: "The chemical reactions and pathways involving purine bases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, which include adenine and guanine." [GOC:go_curators] subset: gosubset_prok narrow_synonym: "purine metabolism" [] is_a: GO:0009112 ! nucleobase metabolism [Term] id: GO:0006145 name: purine base catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of purine bases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, which include adenine and guanine." [GOC:go_curators] subset: gosubset_prok exact_synonym: "purine base breakdown" [] exact_synonym: "purine base degradation" [] is_a: GO:0006144 ! purine base metabolism is_a: GO:0046113 ! nucleobase catabolism [Term] id: GO:0006146 name: adenine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of adenine, 6-aminopurine, one of the 5 main bases found in nucleic acids and a component of numerous important derivatives of its corresponding ribonucleoside, adenosine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "adenine breakdown" [] exact_synonym: "adenine degradation" [] is_a: GO:0006145 ! purine base catabolism is_a: GO:0046083 ! adenine metabolism [Term] id: GO:0006147 name: guanine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of guanine, 2-amino-6-hydroxypurine, a purine that is one of the five main bases found in nucleic acids and a component of a number of phosphorylated guanosine derivatives whose metabolic or regulatory functions are important." [GOC:go_curators] subset: gosubset_prok exact_synonym: "guanine breakdown" [] exact_synonym: "guanine degradation" [] is_a: GO:0006145 ! purine base catabolism is_a: GO:0046098 ! guanine metabolism [Term] id: GO:0006148 name: inosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of inosine, hypoxanthine riboside, a nucleoside found free but not in combination in nucleic acids except in the anticodons of some tRNAs." [GOC:go_curators] subset: gosubset_prok exact_synonym: "inosine breakdown" [] exact_synonym: "inosine degradation" [] is_a: GO:0046102 ! inosine metabolism is_a: GO:0046130 ! purine ribonucleoside catabolism [Term] id: GO:0006149 name: deoxyinosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxyinosine, hypoxanthine deoxyriboside." [GOC:go_curators] subset: gosubset_prok exact_synonym: "deoxyinosine breakdown" [] exact_synonym: "deoxyinosine degradation" [] is_a: GO:0046094 ! deoxyinosine metabolism is_a: GO:0046124 ! purine deoxyribonucleoside catabolism [Term] id: GO:0006150 name: hypoxanthine oxidation namespace: biological_process subset: gosubset_prok is_a: GO:0009114 ! hypoxanthine catabolism [Term] id: GO:0006151 name: xanthine oxidation namespace: biological_process def: "The oxidation of xanthine, 2,6-dihydroxypurine, a purine formed in the metabolic breakdown of guanine but not present in nucleic acids." [GOC:jl] subset: gosubset_prok is_a: GO:0009115 ! xanthine catabolism [Term] id: GO:0006152 name: purine nucleoside catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of purine nucleoside, one of a family of organic molecules consisting of a purine base covalently bonded to a sugar ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside)." [GOC:go_curators] subset: gosubset_prok exact_synonym: "purine nucleoside breakdown" [] exact_synonym: "purine nucleoside degradation" [] is_a: GO:0009164 ! nucleoside catabolism is_a: GO:0042278 ! purine nucleoside metabolism [Term] id: GO:0006153 name: purine nucleosidase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'purine nucleosidase activity ; GO:0008477'. is_obsolete: true [Term] id: GO:0006154 name: adenosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of adenosine, adenine riboside, a ribonucleoside found widely distributed in cells of every type as the free nucleoside and in combination in nucleic acids and various nucleoside coenzymes." [GOC:go_curators] subset: gosubset_prok exact_synonym: "adenosine breakdown" [] exact_synonym: "adenosine degradation" [] is_a: GO:0046085 ! adenosine metabolism is_a: GO:0046130 ! purine ribonucleoside catabolism [Term] id: GO:0006155 name: adenosine deaminase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'adenosine deaminase activity ; GO:0004000'. is_obsolete: true [Term] id: GO:0006156 name: adenosine phosphorolysis namespace: biological_process subset: gosubset_prok is_a: GO:0006154 ! adenosine catabolism [Term] id: GO:0006157 name: deoxyadenosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxyadenosine, 2-deoxyribosyladenine, one of the four major nucleosides of DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "deoxyadenosine breakdown" [] exact_synonym: "deoxyadenosine degradation" [] is_a: GO:0046090 ! deoxyadenosine metabolism is_a: GO:0046124 ! purine deoxyribonucleoside catabolism [Term] id: GO:0006158 name: deoxyadenosine deaminase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'deoxyadenosine deaminase activity ; GO:0046936'. is_obsolete: true [Term] id: GO:0006159 name: deoxyadenosine phosphorolysis namespace: biological_process subset: gosubset_prok is_a: GO:0006157 ! deoxyadenosine catabolism [Term] id: GO:0006160 name: guanosine phosphorolysis namespace: biological_process subset: gosubset_prok is_a: GO:0008617 ! guanosine metabolism [Term] id: GO:0006161 name: deoxyguanosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxyguanosine, a nucleoside consisting of the base guanine and the sugar deoxyribose." [GOC:jl, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "deoxyguanosine breakdown" [] exact_synonym: "deoxyguanosine degradation" [] is_a: GO:0042453 ! deoxyguanosine metabolism is_a: GO:0046124 ! purine deoxyribonucleoside catabolism [Term] id: GO:0006162 name: purine/pyrimidine nucleoside diphosphate reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'ribonucleoside-diphosphate reductase activity ; GO:0004748' and its children. is_obsolete: true [Term] id: GO:0006163 name: purine nucleotide metabolism namespace: biological_process def: "The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok narrow_synonym: "purine metabolism" [] is_a: GO:0009117 ! nucleotide metabolism [Term] id: GO:0006164 name: purine nucleotide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "purine nucleotide anabolism" [] exact_synonym: "purine nucleotide formation" [] exact_synonym: "purine nucleotide synthesis" [] xref_analog: MetaCyc:DENOVOPURINE2-PWY is_a: GO:0006163 ! purine nucleotide metabolism is_a: GO:0009165 ! nucleotide biosynthesis [Term] id: GO:0006165 name: nucleoside diphosphate phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into a nucleoside diphosphate to produce a nucleoside triphosphate." [GOC:ai] subset: gosubset_prok is_a: GO:0009132 ! nucleoside diphosphate metabolism is_a: GO:0046939 ! nucleotide phosphorylation [Term] id: GO:0006166 name: purine ribonucleoside salvage namespace: biological_process def: "Any process which produces a purine nucleoside from derivatives of it, without de novo synthesis." [GOC:jl] subset: gosubset_prok xref_analog: MetaCyc:P121-PWY is_a: GO:0043101 ! purine salvage is_a: GO:0043174 ! nucleoside salvage is_a: GO:0046128 ! purine ribonucleoside metabolism [Term] id: GO:0006167 name: AMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of AMP, adenosine monophosphate." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "AMP anabolism" [] exact_synonym: "AMP formation" [] exact_synonym: "AMP synthesis" [] is_a: GO:0009168 ! purine ribonucleoside monophosphate biosynthesis is_a: GO:0046033 ! AMP metabolism [Term] id: GO:0006168 name: adenine salvage namespace: biological_process def: "Any process that generates adenine, 6-aminopurine, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok exact_synonym: "adenine salvage pathway" [] broad_synonym: "adenine, hypoxanthine and their nucleoside salvage" [] is_a: GO:0043096 ! purine base salvage is_a: GO:0046083 ! adenine metabolism [Term] id: GO:0006169 name: adenosine salvage namespace: biological_process def: "Any process that generates adenosine, adenine riboside, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok broad_synonym: "adenine, hypoxanthine and their nucleoside salvage" [] is_a: GO:0006166 ! purine ribonucleoside salvage is_a: GO:0046085 ! adenosine metabolism [Term] id: GO:0006170 name: dAMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dAMP, deoxyadenosine monophosphate (2'-deoxyadenosine 5'-phosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dAMP anabolism" [] exact_synonym: "dAMP formation" [] exact_synonym: "dAMP synthesis" [] is_a: GO:0009171 ! purine deoxyribonucleoside monophosphate biosynthesis is_a: GO:0046053 ! dAMP metabolism [Term] id: GO:0006171 name: cAMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the nucleotide cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "3',5' cAMP biosynthesis" [] exact_synonym: "3',5'-cAMP biosynthesis" [] exact_synonym: "adenosine 3',5'-cyclophosphate biosynthesis" [] exact_synonym: "cAMP anabolism" [] exact_synonym: "cAMP formation" [] exact_synonym: "cAMP synthesis" [] exact_synonym: "cyclic AMP biosynthesis" [] is_a: GO:0009190 ! cyclic nucleotide biosynthesis is_a: GO:0046058 ! cAMP metabolism [Term] id: GO:0006172 name: ADP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ADP, adenosine 5'-diphosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "ADP anabolism" [] exact_synonym: "ADP formation" [] exact_synonym: "ADP synthesis" [] is_a: GO:0009180 ! purine ribonucleoside diphosphate biosynthesis is_a: GO:0046031 ! ADP metabolism [Term] id: GO:0006173 name: dADP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dADP, deoxyadenosine diphosphate (2'-deoxyadenosine 5'-diphosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dADP anabolism" [] exact_synonym: "dADP formation" [] exact_synonym: "dADP synthesis" [] is_a: GO:0009183 ! purine deoxyribonucleoside diphosphate biosynthesis is_a: GO:0046056 ! dADP metabolism [Term] id: GO:0006174 name: dADP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into dADP, deoxyadenosine diphosphate, to produce dATP." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006165 ! nucleoside diphosphate phosphorylation is_a: GO:0009216 ! purine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046056 ! dADP metabolism [Term] id: GO:0006175 name: dATP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dATP, deoxyadenosine triphosphate (2'-deoxyadenosine 5'-triphosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dATP anabolism" [] exact_synonym: "dATP formation" [] exact_synonym: "dATP synthesis" [] is_a: GO:0009216 ! purine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046060 ! dATP metabolism [Term] id: GO:0006176 name: dATP biosynthesis from ADP namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dATP, deoxyadenosine triphosphate (2'-deoxyadenosine 5'-triphosphate) from other compounds, including ADP, adenosine diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dATP anabolism from ADP" [] exact_synonym: "dATP formation from ADP" [] exact_synonym: "dATP synthesis from ADP" [] is_a: GO:0006175 ! dATP biosynthesis is_a: GO:0046031 ! ADP metabolism [Term] id: GO:0006177 name: GMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of GMP, guanosine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "GMP anabolism" [] exact_synonym: "GMP formation" [] exact_synonym: "GMP synthesis" [] is_a: GO:0009168 ! purine ribonucleoside monophosphate biosynthesis is_a: GO:0046037 ! GMP metabolism [Term] id: GO:0006178 name: guanine salvage namespace: biological_process def: "Any process that generates guanine, 2-amino-6-hydroxypurine, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok broad_synonym: "guanine, xanthine and their nucleoside salvage" [] is_a: GO:0043096 ! purine base salvage is_a: GO:0046098 ! guanine metabolism [Term] id: GO:0006179 name: guanosine salvage namespace: biological_process def: "Any process that generates guanosine, guanine riboside, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok broad_synonym: "guanine, xanthine and their nucleoside salvage" [] is_a: GO:0006166 ! purine ribonucleoside salvage is_a: GO:0008617 ! guanosine metabolism [Term] id: GO:0006180 name: deoxyguanosine salvage namespace: biological_process def: "Any process that generates deoxyguanosine from derivatives of it, without de novo synthesis." [GOC:jl] subset: gosubset_prok is_a: GO:0043098 ! purine deoxyribonucleoside salvage [Term] id: GO:0006181 name: dGMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dGMP, deoxyguanosine monophosphate (2'-deoxyguanosine 5'-phosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dGMP anabolism" [] exact_synonym: "dGMP formation" [] exact_synonym: "dGMP synthesis" [] is_a: GO:0009171 ! purine deoxyribonucleoside monophosphate biosynthesis is_a: GO:0046054 ! dGMP metabolism [Term] id: GO:0006182 name: cGMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cyclic GMP, guanosine 3',5'-phosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "cGMP anabolism" [] exact_synonym: "cGMP formation" [] exact_synonym: "cGMP synthesis" [] is_a: GO:0009190 ! cyclic nucleotide biosynthesis is_a: GO:0046068 ! cGMP metabolism [Term] id: GO:0006183 name: GTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of GTP, guanosine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "GTP anabolism" [] exact_synonym: "GTP formation" [] exact_synonym: "GTP synthesis" [] is_a: GO:0009206 ! purine ribonucleoside triphosphate biosynthesis is_a: GO:0046039 ! GTP metabolism [Term] id: GO:0006184 name: GTP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of GTP, guanosine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "GTP breakdown" [] exact_synonym: "GTP degradation" [] exact_synonym: "GTP hydrolysis" [] is_a: GO:0009207 ! purine ribonucleoside triphosphate catabolism is_a: GO:0046039 ! GTP metabolism [Term] id: GO:0006185 name: dGDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dGDP, deoxyguanosine diphosphate, (2'-deoxyguanosine 5'-diphosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dGDP anabolism" [] exact_synonym: "dGDP formation" [] exact_synonym: "dGDP synthesis" [] is_a: GO:0009183 ! purine deoxyribonucleoside diphosphate biosynthesis is_a: GO:0046066 ! dGDP metabolism [Term] id: GO:0006186 name: dGDP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into dGDP, deoxyguanosine diphosphate, to produce dGTP." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006165 ! nucleoside diphosphate phosphorylation is_a: GO:0009216 ! purine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046066 ! dGDP metabolism [Term] id: GO:0006187 name: dGTP biosynthesis from dGDP namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dGTP, deoxyguanosine triphosphate (2'-deoxyguanosine 5'-triphosphate) from other compounds, including gGDP, deoxyguanosine diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dGTP anabolism from dGDP" [] exact_synonym: "dGTP formation from dGDP" [] exact_synonym: "dGTP synthesis from dGDP" [] is_a: GO:0046066 ! dGDP metabolism is_a: GO:0046071 ! dGTP biosynthesis [Term] id: GO:0006188 name: IMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "IMP anabolism" [] exact_synonym: "IMP formation" [] exact_synonym: "IMP synthesis" [] is_a: GO:0009168 ! purine ribonucleoside monophosphate biosynthesis is_a: GO:0046040 ! IMP metabolism [Term] id: GO:0006189 name: 'de novo' IMP biosynthesis namespace: biological_process subset: gosubset_prok exact_synonym: "'de novo' IMP anabolism" [] exact_synonym: "'de novo' IMP formation" [] exact_synonym: "'de novo' IMP synthesis" [] broad_synonym: "'de novo' purine biosynthesis" [] is_a: GO:0006188 ! IMP biosynthesis [Term] id: GO:0006190 name: inosine salvage namespace: biological_process def: "Any process that generates inosine, hypoxanthine riboside, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok related_synonym: "adenine, hypoxanthine and their nucleoside salvage" [] related_synonym: "guanine, xanthine and their nucleoside salvage" [] is_a: GO:0006166 ! purine ribonucleoside salvage is_a: GO:0046102 ! inosine metabolism [Term] id: GO:0006191 name: deoxyinosine salvage namespace: biological_process def: "Any process that generates deoxyinosine from derivatives of it, without de novo synthesis." [GOC:jl] subset: gosubset_prok is_a: GO:0043098 ! purine deoxyribonucleoside salvage [Term] id: GO:0006192 name: IDP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into IDP, inosine (5'-)diphosphate, to produce ITP." [GOC:ai] subset: gosubset_prok is_a: GO:0006165 ! nucleoside diphosphate phosphorylation is_a: GO:0009206 ! purine ribonucleoside triphosphate biosynthesis is_a: GO:0046707 ! IDP metabolism [Term] id: GO:0006193 name: ITP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ITP, inosine (5'-)triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "ITP breakdown" [] exact_synonym: "ITP degradation" [] exact_synonym: "ITP hydrolysis" [] is_a: GO:0009207 ! purine ribonucleoside triphosphate catabolism is_a: GO:0046041 ! ITP metabolism [Term] id: GO:0006194 name: dIDP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into dIDP, deoxyinosine diphosphate, to produce dITP." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006165 ! nucleoside diphosphate phosphorylation is_a: GO:0009216 ! purine deoxyribonucleoside triphosphate biosynthesis [Term] id: GO:0006195 name: purine nucleotide catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "purine nucleotide breakdown" [] exact_synonym: "purine nucleotide degradation" [] is_a: GO:0006163 ! purine nucleotide metabolism is_a: GO:0009166 ! nucleotide catabolism [Term] id: GO:0006196 name: AMP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of AMP, adenosine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "AMP breakdown" [] exact_synonym: "AMP degradation" [] is_a: GO:0009169 ! purine ribonucleoside monophosphate catabolism is_a: GO:0046033 ! AMP metabolism [Term] id: GO:0006197 name: adenylate deaminase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'AMP deaminase activity ; GO:0003876'. is_obsolete: true [Term] id: GO:0006198 name: cAMP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of the nucleotide cAMP (cyclic AMP, adenosine 3',5'-cyclophosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "3',5' cAMP catabolism" [] exact_synonym: "3',5'-cAMP catabolism" [] exact_synonym: "adenosine 3',5'-cyclophosphate catabolism" [] exact_synonym: "cAMP breakdown" [] exact_synonym: "cAMP degradation" [] exact_synonym: "cyclic AMP catabolism" [] is_a: GO:0009214 ! cyclic nucleotide catabolism is_a: GO:0046058 ! cAMP metabolism [Term] id: GO:0006199 name: ADP reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'ADP reductase activity ; GO:0051061'. is_obsolete: true [Term] id: GO:0006200 name: ATP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [GOC:ai] subset: gosubset_prok exact_synonym: "ATP breakdown" [] exact_synonym: "ATP degradation" [] exact_synonym: "ATP hydrolysis" [] is_a: GO:0009207 ! purine ribonucleoside triphosphate catabolism is_a: GO:0046034 ! ATP metabolism [Term] id: GO:0006201 name: GMP catabolism to IMP namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of guanosine monophosphate into other compounds, including inosine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "GMP breakdown to IMP" [] exact_synonym: "GMP degradation to IMP" [] is_a: GO:0046038 ! GMP catabolism is_a: GO:0046040 ! IMP metabolism [Term] id: GO:0006202 name: GMP catabolism to guanine namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of guanosine monophosphate into other compounds, including guanine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "GMP breakdown to guanine" [] exact_synonym: "GMP degradation to guanine" [] is_a: GO:0046038 ! GMP catabolism is_a: GO:0046098 ! guanine metabolism [Term] id: GO:0006203 name: dGTP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dGTP, guanosine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dGTP breakdown" [] exact_synonym: "dGTP degradation" [] is_a: GO:0009217 ! purine deoxyribonucleoside triphosphate catabolism is_a: GO:0046070 ! dGTP metabolism [Term] id: GO:0006204 name: IMP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of IMP, inosine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "IMP breakdown" [] exact_synonym: "IMP degradation" [] is_a: GO:0009169 ! purine ribonucleoside monophosphate catabolism is_a: GO:0046040 ! IMP metabolism [Term] id: GO:0006205 name: pyrimidine metabolism namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because more appropriate terms were created. To update annotations, consider the biological process terms 'pyrimidine base metabolism ; GO:0006206', 'pyrimidine nucleoside metabolism ; GO:0006213', 'pyrimidine nucleotide metabolism ; GO:0006220'. is_obsolete: true [Term] id: GO:0006206 name: pyrimidine base metabolism namespace: biological_process def: "The chemical reactions and pathways involving pyrimidine bases, 1,3-diazine, organic nitrogenous bases." [GOC:go_curators] subset: gosubset_prok broad_synonym: "pyrimidine metabolism" [] is_a: GO:0009112 ! nucleobase metabolism [Term] id: GO:0006207 name: 'de novo' pyrimidine base biosynthesis namespace: biological_process subset: gosubset_prok exact_synonym: "'de novo' pyrimidine base anabolism" [] exact_synonym: "'de novo' pyrimidine base formation" [] exact_synonym: "'de novo' pyrimidine base synthesis" [] xref_analog: MetaCyc:PYRIMSYN-PWY is_a: GO:0019856 ! pyrimidine base biosynthesis [Term] id: GO:0006208 name: pyrimidine base catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of pyrimidine bases, 1,3-diazine, organic nitrogenous bases." [GOC:go_curators] subset: gosubset_prok exact_synonym: "pyrimidine base breakdown" [] exact_synonym: "pyrimidine base degradation" [] is_a: GO:0006206 ! pyrimidine base metabolism is_a: GO:0046113 ! nucleobase catabolism [Term] id: GO:0006209 name: cytosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of cytosine, 4-amino-2-hydroxypyrimidine, a pyrimidine derivative that is one of the five main bases found in nucleic acids; it occurs widely in cytidine derivatives." [GOC:go_curators] subset: gosubset_prok exact_synonym: "cytosine breakdown" [] exact_synonym: "cytosine degradation" [] is_a: GO:0006208 ! pyrimidine base catabolism is_a: GO:0019858 ! cytosine metabolism [Term] id: GO:0006210 name: thymine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of thymine, 5-methyluracil, one of the two major pyrimidine bases present (as thymidine) in DNA but not found in RNA other than (as ribothymidine) in transfer RNA, where it is a minor base." [GOC:go_curators] subset: gosubset_prok exact_synonym: "thymine breakdown" [] exact_synonym: "thymine degradation" [] is_a: GO:0006208 ! pyrimidine base catabolism is_a: GO:0019859 ! thymine metabolism [Term] id: GO:0006211 name: 5-methylcytosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of 5-methylcytosine, a methylated base of DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "5-methylcytosine breakdown" [] exact_synonym: "5-methylcytosine degradation" [] is_a: GO:0006208 ! pyrimidine base catabolism is_a: GO:0019857 ! 5-methylcytosine metabolism [Term] id: GO:0006212 name: uracil catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of uracil, 2,4-dioxopyrimidine, one of the pyrimidine bases occurring in RNA, but not in DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "uracil breakdown" [] exact_synonym: "uracil degradation" [] is_a: GO:0006208 ! pyrimidine base catabolism is_a: GO:0019860 ! uracil metabolism [Term] id: GO:0006213 name: pyrimidine nucleoside metabolism namespace: biological_process def: "The chemical reactions and pathways involving any pyrimidine nucleoside, one of a family of organic molecules consisting of a pyrimidine base covalently bonded to a sugar ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside)." [GOC:jl, ISBN:0140512713] subset: gosubset_prok broad_synonym: "pyrimidine metabolism" [] is_a: GO:0009116 ! nucleoside metabolism [Term] id: GO:0006214 name: thymidine catabolism namespace: biological_process alt_id: GO:0006215 def: "The chemical reactions and pathways resulting in the breakdown of thymidine, deoxyribosylthymine thymine 2-deoxyriboside, a deoxynucleoside very widely distributed but occurring almost entirely as phosphoric esters in deoxynucleotides and deoxyribonucleic acid, DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "deoxyribosylthymine catabolism" [] exact_synonym: "thymidine breakdown" [] exact_synonym: "thymidine degradation" [] is_a: GO:0046104 ! thymidine metabolism is_a: GO:0046127 ! pyrimidine deoxyribonucleoside catabolism [Term] id: GO:0006216 name: cytidine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of cytidine, cytosine riboside, a widely distributed nucleoside." [GOC:ai] subset: gosubset_prok exact_synonym: "cytidine breakdown" [] exact_synonym: "cytidine degradation" [] is_a: GO:0046087 ! cytidine metabolism is_a: GO:0046133 ! pyrimidine ribonucleoside catabolism [Term] id: GO:0006217 name: deoxycytidine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxycytidine, 2-deoxyribosylcytosine, one of the four major nucleosides of DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "deoxycytidine breakdown" [] exact_synonym: "deoxycytidine degradation" [] is_a: GO:0046092 ! deoxycytidine metabolism is_a: GO:0046127 ! pyrimidine deoxyribonucleoside catabolism [Term] id: GO:0006218 name: uridine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of uridine, uracil riboside, a ribonucleoside very widely distributed but occurring almost entirely as phosphoric esters in ribonucleotides and ribonucleic acids." [GOC:go_curators] subset: gosubset_prok exact_synonym: "uridine breakdown" [] exact_synonym: "uridine degradation" [] is_a: GO:0046108 ! uridine metabolism is_a: GO:0046133 ! pyrimidine ribonucleoside catabolism [Term] id: GO:0006219 name: deoxyuridine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of deoxyuridine, 2-deoxyribosyluracil, one of the four major nucleosides of DNA." [GOC:go_curators] subset: gosubset_prok exact_synonym: "deoxyuridine breakdown" [] exact_synonym: "deoxyuridine degradation" [] is_a: GO:0046096 ! deoxyuridine metabolism is_a: GO:0046127 ! pyrimidine deoxyribonucleoside catabolism [Term] id: GO:0006220 name: pyrimidine nucleotide metabolism namespace: biological_process def: "The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok broad_synonym: "pyrimidine metabolism" [] is_a: GO:0009117 ! nucleotide metabolism [Term] id: GO:0006221 name: pyrimidine nucleotide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "pyrimidine nucleotide anabolism" [] exact_synonym: "pyrimidine nucleotide formation" [] exact_synonym: "pyrimidine nucleotide synthesis" [] is_a: GO:0006220 ! pyrimidine nucleotide metabolism is_a: GO:0009165 ! nucleotide biosynthesis [Term] id: GO:0006222 name: UMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "UMP anabolism" [] exact_synonym: "UMP formation" [] exact_synonym: "UMP synthesis" [] is_a: GO:0009174 ! pyrimidine ribonucleoside monophosphate biosynthesis is_a: GO:0046049 ! UMP metabolism [Term] id: GO:0006223 name: uracil salvage namespace: biological_process def: "Any process that generates uracil, 2,4-dioxopyrimidine, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok is_a: GO:0019860 ! uracil metabolism is_a: GO:0043100 ! pyrimidine base salvage [Term] id: GO:0006224 name: uridine kinase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'uridine kinase activity ; GO:0004849'. is_obsolete: true [Term] id: GO:0006225 name: UDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of UDP, uridine (5'-)diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "UDP anabolism" [] exact_synonym: "UDP formation" [] exact_synonym: "UDP synthesis" [] is_a: GO:0009194 ! pyrimidine ribonucleoside diphosphate biosynthesis is_a: GO:0046048 ! UDP metabolism [Term] id: GO:0006226 name: dUMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dUMP, deoxyuridine monophosphate (2'-deoxyuridine 5'-phosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dUMP anabolism" [] exact_synonym: "dUMP formation" [] exact_synonym: "dUMP synthesis" [] is_a: GO:0009177 ! pyrimidine deoxyribonucleoside monophosphate biosynthesis is_a: GO:0046078 ! dUMP metabolism [Term] id: GO:0006227 name: dUDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dUDP, deoxyuridine diphosphate (2'-deoxy-5'-uridylyl phosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dUDP anabolism" [] exact_synonym: "dUDP formation" [] exact_synonym: "dUDP synthesis" [] is_a: GO:0009197 ! pyrimidine deoxyribonucleoside diphosphate biosynthesis is_a: GO:0046077 ! dUDP metabolism [Term] id: GO:0006228 name: UTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of UTP, uridine (5'-)triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "UTP anabolism" [] exact_synonym: "UTP formation" [] exact_synonym: "UTP synthesis" [] is_a: GO:0009209 ! pyrimidine ribonucleoside triphosphate biosynthesis is_a: GO:0046051 ! UTP metabolism [Term] id: GO:0006229 name: dUTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dUTP, deoxyuridine (5'-)triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dUTP anabolism" [] exact_synonym: "dUTP formation" [] exact_synonym: "dUTP synthesis" [] is_a: GO:0009212 ! pyrimidine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046080 ! dUTP metabolism [Term] id: GO:0006230 name: TMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of TMP, ribosylthymine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "TMP anabolism" [] exact_synonym: "TMP formation" [] exact_synonym: "TMP synthesis" [] is_a: GO:0009174 ! pyrimidine ribonucleoside monophosphate biosynthesis is_a: GO:0046044 ! TMP metabolism [Term] id: GO:0006231 name: dTMP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dTMP, deoxyribosylthymine monophosphate (2'-deoxyribosylthymine 5'-phosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dTMP anabolism" [] exact_synonym: "dTMP formation" [] exact_synonym: "dTMP synthesis" [] is_a: GO:0009177 ! pyrimidine deoxyribonucleoside monophosphate biosynthesis is_a: GO:0046073 ! dTMP metabolism [Term] id: GO:0006232 name: TDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of TDP, ribosylthymine diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "TDP anabolism" [] exact_synonym: "TDP formation" [] exact_synonym: "TDP synthesis" [] is_a: GO:0009194 ! pyrimidine ribonucleoside diphosphate biosynthesis is_a: GO:0046043 ! TDP metabolism [Term] id: GO:0006233 name: dTDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dTDP, deoxyribosylthymine diphosphate (2'-deoxyribosylthymine5'-diphosphate)." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dTDP anabolism" [] exact_synonym: "dTDP formation" [] exact_synonym: "dTDP synthesis" [] is_a: GO:0009197 ! pyrimidine deoxyribonucleoside diphosphate biosynthesis is_a: GO:0046072 ! dTDP metabolism [Term] id: GO:0006234 name: TTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of TTP, ribosylthymine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "TTP anabolism" [] exact_synonym: "TTP formation" [] exact_synonym: "TTP synthesis" [] is_a: GO:0009209 ! pyrimidine ribonucleoside triphosphate biosynthesis is_a: GO:0046046 ! TTP metabolism [Term] id: GO:0006235 name: dTTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dTTP, deoxyribosylthymine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dTTP anabolism" [] exact_synonym: "dTTP formation" [] exact_synonym: "dTTP synthesis" [] is_a: GO:0009212 ! pyrimidine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046075 ! dTTP metabolism [Term] id: GO:0006236 name: cytidine salvage namespace: biological_process def: "Any process that generates cytidine, cytosine riboside, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok is_a: GO:0043097 ! pyrimidine nucleoside salvage is_a: GO:0046087 ! cytidine metabolism [Term] id: GO:0006237 name: deoxycytidine salvage namespace: biological_process def: "Any process that generates deoxycytidine, 2-deoxyribosylcytosine, from derivatives of it, without de novo synthesis." [GOC:jl] subset: gosubset_prok is_a: GO:0043099 ! pyrimidine deoxyribonucleoside salvage is_a: GO:0046092 ! deoxycytidine metabolism [Term] id: GO:0006238 name: CMP salvage namespace: biological_process def: "Any process that generates CMP, cytidine monophosphate, from derivatives of it without de novo synthesis." [GOC:jl] subset: gosubset_prok exact_synonym: "cytidine monophosphate salvage" [] is_a: GO:0010138 ! pyrimidine ribonucleotide salvage is_a: GO:0046035 ! CMP metabolism [Term] id: GO:0006239 name: dCMP salvage namespace: biological_process def: "Any process that generates dCMP, deoxycytidine monophosphate from derivatives of it, without de novo synthesis." [GOC:jl] subset: gosubset_prok exact_synonym: "deoxycytidine monophosphate salvage" [] is_a: GO:0010139 ! pyrimidine deoxyribonucleotide salvage is_a: GO:0046063 ! dCMP metabolism [Term] id: GO:0006240 name: dCDP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dCDP, deoxycytidine 5'-diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dCDP anabolism" [] exact_synonym: "dCDP formation" [] exact_synonym: "dCDP synthesis" [] is_a: GO:0009197 ! pyrimidine deoxyribonucleoside diphosphate biosynthesis is_a: GO:0046062 ! dCDP metabolism [Term] id: GO:0006241 name: CTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of CTP, cytidine 5'-triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "CTP anabolism" [] exact_synonym: "CTP formation" [] exact_synonym: "CTP synthesis" [] is_a: GO:0009209 ! pyrimidine ribonucleoside triphosphate biosynthesis is_a: GO:0046036 ! CTP metabolism [Term] id: GO:0006242 name: dCTP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dCTP, deoxycytidine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dCTP anabolism" [] exact_synonym: "dCTP formation" [] exact_synonym: "dCTP synthesis" [] is_a: GO:0009212 ! pyrimidine deoxyribonucleoside triphosphate biosynthesis is_a: GO:0046065 ! dCTP metabolism [Term] id: GO:0006243 name: CTP deamination namespace: biological_process subset: gosubset_prok is_a: GO:0009210 ! pyrimidine ribonucleoside triphosphate catabolism is_a: GO:0046036 ! CTP metabolism [Term] id: GO:0006244 name: pyrimidine nucleotide catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate moiety at either the 3' or 5'-hydroxyl group of its glycose moiety." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "pyrimidine nucleotide breakdown" [] exact_synonym: "pyrimidine nucleotide degradation" [] is_a: GO:0006220 ! pyrimidine nucleotide metabolism is_a: GO:0009166 ! nucleotide catabolism [Term] id: GO:0006245 name: TDP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of TDP, ribosylthymine diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "TDP breakdown" [] exact_synonym: "TDP degradation" [] is_a: GO:0009195 ! pyrimidine ribonucleoside diphosphate catabolism is_a: GO:0046043 ! TDP metabolism [Term] id: GO:0006246 name: dTDP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dTDP, deoxyribosylthymine diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dTDP breakdown" [] exact_synonym: "dTDP degradation" [] is_a: GO:0009198 ! pyrimidine deoxyribonucleoside diphosphate catabolism is_a: GO:0046072 ! dTDP metabolism [Term] id: GO:0006247 name: TTP reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'TTP reductase activity ; GO:0051064'. is_obsolete: true [Term] id: GO:0006248 name: CMP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of CMP, cytidine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "CMP breakdown" [] exact_synonym: "CMP degradation" [] is_a: GO:0009175 ! pyrimidine ribonucleoside monophosphate catabolism is_a: GO:0046035 ! CMP metabolism [Term] id: GO:0006249 name: dCMP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dCMP, deoxycytidine monophosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dCMP breakdown" [] exact_synonym: "dCMP degradation" [] is_a: GO:0009178 ! pyrimidine deoxyribonucleoside monophosphate catabolism is_a: GO:0046063 ! dCMP metabolism [Term] id: GO:0006250 name: CDP reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'CDP reductase activity ; GO:0051063'. is_obsolete: true [Term] id: GO:0006251 name: dCDP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dCDP, deoxycytidine 5'-diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dCDP breakdown" [] exact_synonym: "dCDP degradation" [] is_a: GO:0009198 ! pyrimidine deoxyribonucleoside diphosphate catabolism is_a: GO:0046062 ! dCDP metabolism [Term] id: GO:0006252 name: CTP reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'CTP reductase activity ; GO:0051065'. is_obsolete: true [Term] id: GO:0006253 name: dCTP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dCTP, deoxycytidine triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dCTP breakdown" [] exact_synonym: "dCTP degradation" [] is_a: GO:0009213 ! pyrimidine deoxyribonucleoside triphosphate catabolism is_a: GO:0046065 ! dCTP metabolism [Term] id: GO:0006254 name: CTP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of CTP, cytidine 5'-triphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "CTP breakdown" [] exact_synonym: "CTP degradation" [] exact_synonym: "CTP hydrolysis" [] is_a: GO:0009210 ! pyrimidine ribonucleoside triphosphate catabolism is_a: GO:0046036 ! CTP metabolism [Term] id: GO:0006255 name: UDP reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'UDP reductase activity ; GO:0051062'. is_obsolete: true [Term] id: GO:0006256 name: UDP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of UDP, uridine (5'-)diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "UDP breakdown" [] exact_synonym: "UDP degradation" [] is_a: GO:0009195 ! pyrimidine ribonucleoside diphosphate catabolism is_a: GO:0046048 ! UDP metabolism [Term] id: GO:0006257 name: dUDP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of dUDP, deoxyuridine (5'-)diphosphate." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dUDP breakdown" [] exact_synonym: "dUDP degradation" [] is_a: GO:0009198 ! pyrimidine deoxyribonucleoside diphosphate catabolism is_a: GO:0046077 ! dUDP metabolism [Term] id: GO:0006258 name: UDP-glucose catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of UDP-glucose, uridinediphosphoglucose, a substance composed of glucose in glycosidic linkage with uridine diphosphate." [GOC:ai] subset: gosubset_prok exact_synonym: "UDP-glucose breakdown" [] exact_synonym: "UDP-glucose degradation" [] is_a: GO:0006011 ! UDP-glucose metabolism is_a: GO:0009227 ! nucleotide-sugar catabolism [Term] id: GO:0006259 name: DNA metabolism namespace: biological_process def: "The chemical reactions and pathways involving DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0006139 ! nucleobase, nucleoside, nucleotide and nucleic acid metabolism is_a: GO:0043283 ! biopolymer metabolism [Term] id: GO:0006260 name: DNA replication namespace: biological_process def: "The process whereby new strands of DNA are synthesized. The template for replication can either be DNA or RNA." [ISBN:0198506732] comment: See also the biological process terms 'DNA-dependent DNA replication ; GO:0006261' and 'RNA-dependent DNA replication ; GO:0006278'. subset: gosubset_prok related_synonym: "DNA biosynthesis" [] related_synonym: "DNA replication accessory factor" [] related_synonym: "DNA replication factor" [] related_synonym: "DNA synthesis" [] is_a: GO:0006259 ! DNA metabolism [Term] id: GO:0006261 name: DNA-dependent DNA replication namespace: biological_process alt_id: GO:0006262 alt_id: GO:0006263 def: "The process whereby new strands of DNA are synthesized, using parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006260 ! DNA replication [Term] id: GO:0006264 name: mitochondrial DNA replication namespace: biological_process def: "The process whereby new strands of DNA are synthesized in the mitochondrion." [GOC:ai] related_synonym: "mitochondrial DNA synthesis" [] related_synonym: "mtDNA synthesis" [] exact_synonym: "mtDNA replication" [] exact_synonym: "replication of mitochondrial DNA" [] is_a: GO:0006261 ! DNA-dependent DNA replication is_a: GO:0032042 ! mitochondrial DNA metabolism [Term] id: GO:0006265 name: DNA topological change namespace: biological_process def: "The process by which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number. This may be mediated by helicases, which can unwind the DNA duplex, thereby inducing formation of supercoils, or topoisomerases, which catalyze addition or removal of supercoils." [ISBN:071673706X, ISBN:0815316194] comment: Note that the synonym 'DNA underwinding' should not be confused with 'DNA unwinding ; GO:0006268', which refers to DNA strand separation. GO:0006265 refers to alteration of the superhelical density of double-stranded DNA. subset: gosubset_prok exact_synonym: "DNA conformation modification" [] narrow_synonym: "DNA underwinding" [] relationship: part_of GO:0006259 ! DNA metabolism [Term] id: GO:0006266 name: DNA ligation namespace: biological_process def: "The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase." [ISBN:0815316194] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolism [Term] id: GO:0006267 name: pre-replicative complex formation and maintenance namespace: biological_process def: "The assembly and maintenance of the pre-replicative complex, multiprotein complex that forms at eukaryotic DNA replication origins during late M phase; its presence is required for replication initiation." [GOC:mah] subset: gosubset_prok relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006268 name: DNA unwinding during replication namespace: biological_process def: "The process by which interchain hydrogen bonds between two strands of DNA are broken or 'melted', generating unpaired template strands for DNA replication." [ISBN:071673706X, ISBN:0815316194] subset: gosubset_prok related_synonym: "DNA unwinding factor" [] exact_synonym: "duplex DNA melting" [] relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006269 name: DNA replication, synthesis of RNA primer namespace: biological_process def: "The generation, by DNA polymerase alpha, of an RNA primer followed by a short segment of DNA on the lagging strand of the replicating DNA." [GOC:jl, PMID:12424238] subset: gosubset_prok relationship: part_of GO:0006273 ! lagging strand elongation [Term] id: GO:0006270 name: DNA replication initiation namespace: biological_process def: "The process by which DNA replication is started; this involves the separation of a stretch of the DNA double helix, the recruitment of DNA polymerases and the initiation of polymerase action." [ISBN:071673706X, ISBN:0815316194] subset: gosubset_prok relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006271 name: DNA strand elongation namespace: biological_process def: "The process by which a DNA strand is synthesized from template DNA by the action of polymerases, which add nucleotides to the 3' end of the nascent DNA strand." [ISBN:071673706X, ISBN:0815316194] subset: gosubset_prok exact_synonym: "DNA replication elongation" [] relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006272 name: leading strand elongation namespace: biological_process def: "The synthesis of DNA from a template strand in the 5' to 3' direction; leading strand elongation is continuous as it proceeds in the same direction as the replication fork." [ISBN:071673706X, ISBN:0815316194] subset: gosubset_prok is_a: GO:0006271 ! DNA strand elongation [Term] id: GO:0006273 name: lagging strand elongation namespace: biological_process def: "The synthesis of DNA from a template strand in a net 3' to 5' direction. Lagging strand DNA elongation proceeds by discontinuous synthesis of short stretches of DNA, known as Okazaki fragments, from RNA primers; these fragments are then joined by DNA ligase. Although each segment of nascent DNA is synthesized in the 5' to 3' direction, the overall direction of lagging strand synthesis is 3' to 5', mirroring the progress of the replication fork." [ISBN:071673706X, ISBN:0815316194] subset: gosubset_prok is_a: GO:0006271 ! DNA strand elongation [Term] id: GO:0006274 name: DNA replication termination namespace: biological_process def: "The process by which DNA replication at a replication fork ceases; occurs when the replication fork reaches a specific termination site or when two replication forks meet." [GOC:mah, PMID:10209736, PMID:12009298] subset: gosubset_prok relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006275 name: regulation of DNA replication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA replication." [GOC:go_curators] subset: gosubset_prok is_a: GO:0051052 ! regulation of DNA metabolism relationship: part_of GO:0006261 ! DNA-dependent DNA replication [Term] id: GO:0006276 name: plasmid maintenance namespace: biological_process def: "The maintenance of the integrity of extrachromosomal plasmid DNA; includes processes that ensure plasmids are retained in the daughter cells after cell division." [GOC:ai] subset: gosubset_prok is_a: GO:0050875 ! cellular physiological process [Term] id: GO:0006277 name: DNA amplification namespace: biological_process def: "The process by which the number of copies of a gene is increased in certain cells as extra copies of DNA are made in response to certain signals of cell development or of stress from the environment." [ISBN:0721601464] subset: gosubset_prok is_a: GO:0006260 ! DNA replication [Term] id: GO:0006278 name: RNA-dependent DNA replication namespace: biological_process def: "The process whereby new strands of DNA are synthesized, using RNA as a template for RNA-dependent DNA polymerases (e.g. reverse transcriptase) that synthesize the new strands." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006260 ! DNA replication [Term] id: GO:0006279 name: premeiotic DNA synthesis namespace: biological_process def: "The replication of DNA that precedes meiotic cell division." [GOC:ai] exact_synonym: "meiotic DNA replication" [] exact_synonym: "meiotic DNA synthesis" [] exact_synonym: "premeiotic DNA replication" [] is_a: GO:0006260 ! DNA replication [Term] id: GO:0006280 name: mutagenesis namespace: biological_process def: "The process by which genetic material undergoes a detectable and heritable structural change. There are three categories of mutation: genome mutations, involving addition or subtraction of one or more whole chromosomes; chromosome mutations, which alter the structure of chromosomes; and gene mutations, where the structure of a gene is altered at the molecular level." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolism [Term] id: GO:0006281 name: DNA repair namespace: biological_process def: "The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway." [PMID:11563486] subset: gosubset_prok xref_analog: Reactome:73894 xref_analog: Reactome:73942 is_a: GO:0006259 ! DNA metabolism is_a: GO:0006974 ! response to DNA damage stimulus [Term] id: GO:0006282 name: regulation of DNA repair namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA repair." [GOC:go_curators] subset: gosubset_prok is_a: GO:0051052 ! regulation of DNA metabolism relationship: part_of GO:0006281 ! DNA repair [Term] id: GO:0006283 name: transcription-coupled nucleotide-excision repair namespace: biological_process def: "The preferential repair of DNA lesions on the actively transcribed strand of the DNA duplex. In addition, the transcription-coupled nucleotide-excision repair pathway is required for the recognition and repair of a small subset of lesions that are not recognized by the general nucleotide excision repair pathway." [PMID:10197977, PMID:11900249] subset: gosubset_prok xref_analog: Reactome:73937 is_a: GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006284 name: base-excision repair namespace: biological_process def: "In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase." [ISBN:0815316194] subset: gosubset_prok exact_synonym: "BER" [] xref_analog: Reactome:73884 is_a: GO:0006281 ! DNA repair [Term] id: GO:0006285 name: base-excision repair, AP site formation namespace: biological_process def: "The formation of an AP site, a deoxyribose sugar with a missing base, by DNA glycosylase which recognizes an altered base in DNA and catalyzes its hydrolytic removal. This sugar phosphate is the substrate recognized by the AP endonuclease, which cuts the DNA phosphodiester backbone at the 5' side of the altered site." [ISBN:0815316194] subset: gosubset_prok xref_analog: Reactome:73929 relationship: part_of GO:0006284 ! base-excision repair [Term] id: GO:0006286 name: base-excision repair, base-free sugar-phosphate removal namespace: biological_process def: "Excision of the sugar phosphate residue at an AP site by a phosphodiesterase enzyme." [ISBN:0815316194] subset: gosubset_prok xref_analog: Reactome:110375 xref_analog: Reactome:115458 xref_analog: Reactome:118028 xref_analog: Reactome:120611 xref_analog: Reactome:122891 xref_analog: Reactome:166488 xref_analog: Reactome:170495 xref_analog: Reactome:177204 xref_analog: Reactome:180384 relationship: part_of GO:0006284 ! base-excision repair [Term] id: GO:0006287 name: base-excision repair, gap-filling namespace: biological_process def: "Repair of the damaged strand by the combined action of an apurinic endouclease that degrades a few bases on the damaged strand and a polymerase that synthesizes a 'patch' in the 5' to 3' direction, using the undamaged strand as a template." [ISBN:1550091131] subset: gosubset_prok relationship: part_of GO:0006284 ! base-excision repair [Term] id: GO:0006288 name: base-excision repair, DNA ligation namespace: biological_process def: "The ligation by DNA ligase of DNA strands. Ligation occurs after polymerase action to fill the gap left by the action of endonucleases during base-excision repair." [ISBN:1550091131] subset: gosubset_prok xref_analog: Reactome:110370 xref_analog: Reactome:115414 xref_analog: Reactome:115771 xref_analog: Reactome:117970 xref_analog: Reactome:118389 xref_analog: Reactome:120553 xref_analog: Reactome:122869 xref_analog: Reactome:124915 xref_analog: Reactome:166387 xref_analog: Reactome:167234 xref_analog: Reactome:171249 xref_analog: Reactome:177111 xref_analog: Reactome:180353 xref_analog: Reactome:73931 is_a: GO:0051103 ! DNA ligation during DNA repair relationship: part_of GO:0006284 ! base-excision repair [Term] id: GO:0006289 name: nucleotide-excision repair namespace: biological_process alt_id: GO:0045001 def: "In nucleotide excision repair a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts)." [PMID:10197977] comment: Note that although intrastrand cross-link repair is not exactly synonymous with nucleotide excision repair, nucleotide excision repair includes the repair of intrastrand cross-links. The synonym field is being used to reflect the broad substrate specificity of nucleotide excision repair. subset: gosubset_prok related_synonym: "intrastrand cross-link repair" [] exact_synonym: "NER" [] exact_synonym: "pyrimidine-dimer repair, DNA damage excision" [] narrow_synonym: "interstrand crosslink repair" [] xref_analog: Reactome:73885 is_a: GO:0006281 ! DNA repair [Term] id: GO:0006290 name: pyrimidine dimer repair namespace: biological_process def: "The repair of UV-induced T-T, C-T and C-C dimers." [ISBN:0815316194] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0006291 name: pyrimidine-dimer repair, DNA damage excision namespace: biological_process def: "OBSOLETE. The excision of damaged DNA during pyrimidine-dimer repair. A large multienzyme complex scans the DNA for a distortion in the double helix rather than for a specific base change. Once a bulky lesion is found, the phosphodiester backbone of the abnormal strand is cleaved on both sides of the distortion, and the portion of the strand containing the lesion (an oligonucleotide) is peeled away from the DNA double helix by a DNA helicase enzyme." [ISBN:0815316194] comment: This term was made obsolete because this process can be subdivided into multiple processes. To update annotations, consider the biological process term 'nucleotide-excision repair ; GO:0006289' and its children. is_obsolete: true [Term] id: GO:0006292 name: pyrimidine-dimer repair, DNA damage recognition namespace: biological_process def: "OBSOLETE. The location of pyrimidine dimers by a large multienzyme complex that scans the DNA for distortions in the double helix caused by pyrimidine dimers." [ISBN:0815316194] comment: This term was made obsolete because it is a substrate specific DNA repair process. To update annotations, consider the biological process term 'nucleotide-excision repair, DNA damage recognition ; GO:0000715', 'transcription-coupled nucleotide-excision repair, DNA damage recognition ; GO:0000716'. is_obsolete: true [Term] id: GO:0006293 name: nucleotide-excision repair, preincision complex stabilization namespace: biological_process def: "The stabilization of the multiprotein complex involved in damage recognition, DNA helix unwinding, and endonucleolytic cleavage at the site of DNA damage as well as the unwound DNA. The stabilization of the protein-DNA complex ensures proper positioning of the preincision complex before the phosphodiester backbone of the damaged strand is cleaved 3' and 5' of the site of DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref_analog: Reactome:109953 xref_analog: Reactome:120225 xref_analog: Reactome:169836 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006294 name: nucleotide-excision repair, preincision complex formation namespace: biological_process def: "The assembly of the multiprotein complex involved in damage recognition, DNA helix unwinding, and endonucleolytic cleavage at the site of DNA damage. This assembly occurs before the phosphodiester backbone of the damaged strand is cleaved 3' and 5' of the site of DNA damage." [GOC:elh, PMID:10197977] subset: gosubset_prok xref_analog: Reactome:121335 xref_analog: Reactome:171925 xref_analog: Reactome:178465 xref_analog: Reactome:73936 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006295 name: nucleotide-excision repair, DNA incision, 3'-to lesion namespace: biological_process def: "The endonucleolytic cleavage of the damaged strand of DNA 3' to the site of damage. The incision occurs at the junction of single-stranded DNA and double-stranded DNA that is formed when the DNA duplex is unwound. The incision precedes the incision formed 5' to the site of damage." [GOC:elh, PMID:10197977] subset: gosubset_prok exact_synonym: "nucleotide-excision repair, DNA incision, 3' to lesion" [] xref_analog: Reactome:119671 xref_analog: Reactome:169148 xref_analog: Reactome:73938 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006296 name: nucleotide-excision repair, DNA incision, 5'-to lesion namespace: biological_process def: "The endonucleolytic cleavage of the damaged strand of DNA 5' to the site of damage. The incision occurs at the junction of single-stranded DNA and double-stranded DNA that is formed when the DNA duplex is unwound. The incision follows the incision formed 3' to the site of damage." [GOC:elh, PMID:10197977] subset: gosubset_prok exact_synonym: "nucleotide-excision repair, DNA incision, 5' to lesion" [] xref_analog: Reactome:119722 xref_analog: Reactome:169204 xref_analog: Reactome:73939 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006297 name: nucleotide-excision repair, DNA gap filling namespace: biological_process def: "Repair of the gap in the DNA helix by DNA polymerase and DNA ligase after the portion of the strand containing the lesion has been removed by pyrimidine-dimer repair enzymes." [ISBN:0815316194] subset: gosubset_prok xref_analog: Reactome:74969 relationship: part_of GO:0006289 ! nucleotide-excision repair [Term] id: GO:0006298 name: mismatch repair namespace: biological_process def: "A system for the correction of errors introduced during DNA replication when an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination." [ISBN:0198506732, PMID:11687886] subset: gosubset_prok exact_synonym: "MMR" [] is_a: GO:0006281 ! DNA repair is_a: GO:0045005 ! maintenance of fidelity during DNA-dependent DNA replication [Term] id: GO:0006299 name: short patch mismatch repair system namespace: biological_process def: "The repair of mismatched DNA where the gap to be repaired is only one nucleotide. DNA polymerase is the preferred polymerase in short patch repair, performing gap filling DNA synthesis and removal of the 5'-deoxyribose phosphate of the abasic site." [PMID:10660619, PMID:10878254] subset: gosubset_prok is_a: GO:0006298 ! mismatch repair [Term] id: GO:0006300 name: long patch mismatch repair system namespace: biological_process def: "The repair of mismatched DNA where the gap to be filled is 2-8 nucleotides in size. DNA polymerase displaces the damaged strand and cooperates with flap endonuclease in the excision of the damaged strand." [PMID:10660619, PMID:10878254] subset: gosubset_prok is_a: GO:0006298 ! mismatch repair [Term] id: GO:0006301 name: postreplication repair namespace: biological_process def: "Pathways for DNA repair which occur after DNA has replicated, e.g. mismatch repair, and which involve translesion synthesis (TLS-type) DNA polymerases." [GOC:ai, ISBN:0716735202, PMID:12154119] subset: gosubset_prok is_a: GO:0006281 ! DNA repair [Term] id: GO:0006302 name: double-strand break repair namespace: biological_process def: "The repair of double-strand breaks in DNA via homologous and nonhomologous mechanisms to reform a continuous DNA helix." [GOC:elh] subset: gosubset_prok xref_analog: Reactome:73890 is_a: GO:0006281 ! DNA repair [Term] id: GO:0006303 name: double-strand break repair via nonhomologous end joining namespace: biological_process def: "The repair of a double-strand break in DNA in which the two broken ends are rejoined with little or no sequence complementarity. Information at the DNA ends may be lost due to the modification of broken DNA ends." [PMID:10827453] subset: gosubset_prok exact_synonym: "NHEJ" [] xref_analog: Reactome:73889 is_a: GO:0000726 ! non-recombinational repair is_a: GO:0006302 ! double-strand break repair [Term] id: GO:0006304 name: DNA modification namespace: biological_process def: "The covalent alteration of one or more nucleotide sites in DNA, resulting in a change in its properties." [GOC:jl, GOC:ma] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolism is_a: GO:0043412 ! biopolymer modification [Term] id: GO:0006305 name: DNA alkylation namespace: biological_process def: "The addition of alkyl groups to many positions on all four bases of DNA. Alkylating agents can also modify the bases of incoming nucleotides in the course of DNA synthesis." [ISBN:0716735970] subset: gosubset_prok is_a: GO:0006304 ! DNA modification [Term] id: GO:0006306 name: DNA methylation namespace: biological_process def: "The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine." [GOC:ems, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006305 ! DNA alkylation is_a: GO:0040029 ! regulation of gene expression, epigenetic is_a: GO:0043414 ! biopolymer methylation [Term] id: GO:0006307 name: DNA dealkylation namespace: biological_process def: "The repair of alkylation damage, e.g. the removal of the alkyl group at the O6-position of guanine by O6-alkylguanine-DNA alkyltransferase (AGT)." [PMID:10946226] subset: gosubset_prok xref_analog: Reactome:112122 xref_analog: Reactome:112126 xref_analog: Reactome:115838 xref_analog: Reactome:118469 xref_analog: Reactome:121066 xref_analog: Reactome:123225 xref_analog: Reactome:125314 xref_analog: Reactome:167340 xref_analog: Reactome:171343 xref_analog: Reactome:174662 xref_analog: Reactome:178000 xref_analog: Reactome:73892 xref_analog: Reactome:73943 is_a: GO:0006281 ! DNA repair [Term] id: GO:0006308 name: DNA catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "DNA breakdown" [] exact_synonym: "DNA degradation" [] is_a: GO:0006259 ! DNA metabolism is_a: GO:0043285 ! biopolymer catabolism is_a: GO:0044248 ! cellular catabolism [Term] id: GO:0006309 name: DNA fragmentation during apoptosis namespace: biological_process alt_id: GO:0008178 def: "The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments." [GOC:mah, ISBN:0721639976] exact_synonym: "DNA catabolism during apoptosis" [] broad_synonym: "DNA fragmentation" [] xref_analog: Reactome:140342 is_a: GO:0006308 ! DNA catabolism is_a: GO:0006921 ! disassembly of cell structures during apoptosis relationship: part_of GO:0030262 ! apoptotic nuclear changes [Term] id: GO:0006310 name: DNA recombination namespace: biological_process def: "The processes by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006259 ! DNA metabolism [Term] id: GO:0006311 name: meiotic gene conversion namespace: biological_process def: "The transfer of genetic information from one helix to another. It often occurs in association with general genetic recombination events, and is believed to be a straightforward consequence of the mechanisms of general recombination and DNA repair. For example, meiosis might yield three copies of the maternal version of an allele and only one copy of the paternal allele, indicating that one of the two copies of the paternal allele has been changed to a copy of the maternal allele." [ISBN:0815316194] exact_synonym: "gene conversion without reciprocal crossover" [] is_a: GO:0006310 ! DNA recombination relationship: part_of GO:0007127 ! meiosis I [Term] id: GO:0006312 name: mitotic recombination namespace: biological_process def: "The exchange, reciprocal or nonreciprocal, of genetic material between one DNA molecule and a homologous region of DNA that occurs during mitotic cell cycles." [GOC:elh] is_a: GO:0006310 ! DNA recombination [Term] id: GO:0006313 name: transposition, DNA-mediated namespace: biological_process alt_id: GO:0006317 alt_id: GO:0006318 def: "Any process involved in a type of transpositional recombination which occurs via a DNA intermediate." [GOC:jp, ISBN:0198506732, ISBN:1555812090] subset: gosubset_prok exact_synonym: "Class II transposition" [] exact_synonym: "cut-and-paste transposition" [] narrow_synonym: "P-element excision" [] narrow_synonym: "P-element transposition" [] narrow_synonym: "Tc1/mariner transposition" [] narrow_synonym: "Tc3 transposition" [] is_a: GO:0006310 ! DNA recombination is_a: GO:0032196 ! transposition [Term] id: GO:0006314 name: intron homing namespace: biological_process def: "Lateral transfer of an intron to a homologous allele that lacks the intron, mediated by a site-specific endonuclease encoded within the mobile intron." [PMID:10487208] subset: gosubset_prok is_a: GO:0006310 ! DNA recombination [Term] id: GO:0006315 name: homing of group II introns namespace: biological_process def: "Lateral transfer of a group II intron to a homologous allele that lacks the intron, mediated by a site-specific endonuclease encoded within the mobile intron; group II introns are self-splicing introns with a conserved secondary structure." [GOC:mcc, ISBN:0716743663, PMID:10487208] subset: gosubset_prok is_a: GO:0006314 ! intron homing [Term] id: GO:0006316 name: movement of group I intron namespace: biological_process def: "Lateral transfer of a group I intron to a homologous allele that lacks the intron, mediated by a site-specific endonuclease encoded within the mobile intron; group I introns are self-splicing introns that use guanosine as a cofactor in the splicing reaction." [GOC:mcc, ISBN:0716743663, PMID:10487208] subset: gosubset_prok is_a: GO:0006314 ! intron homing [Term] id: GO:0006323 name: DNA packaging namespace: biological_process def: "Any process by which DNA and associated proteins are formed into a compact, orderly structure." [GOC:mah, ISBN:0815316194] is_a: GO:0006259 ! DNA metabolism [Term] id: GO:0006324 name: S-phase regulated histone modification namespace: biological_process is_a: GO:0016570 ! histone modification [Term] id: GO:0006325 name: establishment and/or maintenance of chromatin architecture namespace: biological_process def: "The specification, formation and maintenance of the physical structure of eukaryotic chromatin." [GOC:mah] is_a: GO:0006323 ! DNA packaging is_a: GO:0007001 ! chromosome organization and biogenesis (sensu Eukaryota) [Term] id: GO:0006326 name: bent DNA binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, use the molecular function term 'bent DNA binding ; GO:0003681'. is_obsolete: true [Term] id: GO:0006327 name: random coil binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, consider the molecular function term 'random coil DNA binding ; GO:0003695'. is_obsolete: true [Term] id: GO:0006328 name: AT binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, use the molecular function term 'AT DNA binding ; GO:0003680'. is_obsolete: true [Term] id: GO:0006329 name: satellite DNA binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, use the molecular function term 'satellite DNA binding ; GO:0003696'. is_obsolete: true [Term] id: GO:0006330 name: single-stranded DNA binding namespace: biological_process alt_id: GO:0006331 alt_id: GO:0006332 def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, use the molecular function term 'single-stranded DNA binding ; GO:0003697'. is_obsolete: true [Term] id: GO:0006333 name: chromatin assembly or disassembly namespace: biological_process def: "The formation or destruction of chromatin structures." [GOC:mah] related_synonym: "histone-specific chaperone activity" [] related_synonym: "nucleoplasmin ATPase activity" [] exact_synonym: "chromatin assembly/disassembly" [] is_a: GO:0006325 ! establishment and/or maintenance of chromatin architecture [Term] id: GO:0006334 name: nucleosome assembly namespace: biological_process def: "The aggregation and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA." [GOC:mah] related_synonym: "histone-specific chaperone activity" [] exact_synonym: "nucleosome modeling" [] is_a: GO:0006461 ! protein complex assembly is_a: GO:0031497 ! chromatin assembly [Term] id: GO:0006335 name: DNA replication-dependent nucleosome assembly namespace: biological_process def: "The formation of nucleosomes on newly replicated DNA, coupled to strand elongation." [GOC:mah] is_a: GO:0006334 ! nucleosome assembly [Term] id: GO:0006336 name: DNA replication-independent nucleosome assembly namespace: biological_process def: "The formation of nucleosomes outside the context of DNA replication." [GOC:mah] is_a: GO:0006334 ! nucleosome assembly [Term] id: GO:0006337 name: nucleosome disassembly namespace: biological_process def: "The disassembly of nucleosomes, the beadlike structural units of eukaryotic chromatin composed of histones and DNA." [GOC:mah] is_a: GO:0031498 ! chromatin disassembly is_a: GO:0043241 ! protein complex disassembly [Term] id: GO:0006338 name: chromatin remodeling namespace: biological_process def: "Dynamic structural changes to eukaryotic chromatin occurring throughout the cell division cycle. These changes range from the local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation." [GOC:jic, PMID:12697820] exact_synonym: "chromatin modeling" [] exact_synonym: "chromatin modelling" [] exact_synonym: "chromatin remodelling" [] is_a: GO:0016568 ! chromatin modification [Term] id: GO:0006339 name: positive regulation of transcription of homeotic gene (trithorax group) namespace: biological_process def: "OBSOLETE. Any process that activates or increases the frequency, rate or extent of transcription of homeotic genes of the trithorax group." [GOC:go_curators] comment: This term was made obsolete because it relates to a specific gene family rather than a process. To update annotations, consider the biological process terms 'chromatin silencing ; GO:0006342' and 'chromatin-mediated maintenance of transcription ; GO:0048096'. is_obsolete: true [Term] id: GO:0006340 name: negative regulation of transcription of homeotic gene (Polycomb group) namespace: biological_process def: "OBSOLETE. Any process that stops, prevents or reduces the frequency, rate or extent of transcription of homeotic genes of the Polycomb group." [GOC:go_curators] comment: This term was made obsolete because it relates to a specific gene family rather than a process. To update annotations, consider the biological process terms 'chromatin silencing ; GO:0006342' and 'chromatin-mediated maintenance of transcription ; GO:0048096'. is_obsolete: true [Term] id: GO:0006341 name: chromatin insulator sequence binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:jl] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, use the molecular function term 'chromatin insulator sequence binding ; GO:0043035'. is_obsolete: true [Term] id: GO:0006342 name: chromatin silencing namespace: biological_process alt_id: GO:0016440 def: "Repression of transcription by conversion of large regions of DNA into an inaccessible state often called heterochromatin." [PMID:10219245] comment: Note that this process is the opposite of chromatin-mediated maintenance of transcription. This regulation is exemplified by members of the Polycomb group, which maintain the inactive state of homeotic gene transcription. related_synonym: "negative regulation of transcription of homeotic gene (Polycomb group)" [] related_synonym: "negative regulation of transcription of homeotic gene (trithorax group)" [] related_synonym: "positive regulation of transcription of homeotic gene (Polycomb group)" [] related_synonym: "positive regulation of transcription of homeotic gene (trithorax group)" [] related_synonym: "regulation of transcription of homeotic gene (Polycomb group)" [] related_synonym: "regulation of transcription of homeotic gene (trithorax group)" [] exact_synonym: "chromatin-mediated maintenance of transcriptional inactivation" [] exact_synonym: "chromatin-mediated silencing" [] exact_synonym: "TGS" [] exact_synonym: "transcriptional gene silencing" [] is_a: GO:0016458 ! gene silencing is_a: GO:0031507 ! heterochromatin formation is_a: GO:0045814 ! negative regulation of gene expression, epigenetic is_a: GO:0045892 ! negative regulation of transcription, DNA-dependent [Term] id: GO:0006343 name: establishment of chromatin silencing namespace: biological_process def: "The initial formation of transcriptionally silent heterochromatin." [GOC:mah] relationship: part_of GO:0006342 ! chromatin silencing [Term] id: GO:0006344 name: maintenance of chromatin silencing namespace: biological_process def: "The maintenance of chromatin in a transciptionally silent heterochromatin state." [GOC:mah] relationship: part_of GO:0006342 ! chromatin silencing [Term] id: GO:0006345 name: loss of chromatin silencing namespace: biological_process def: "The process leading to expression of genes that are typically not expressed due to silencing by regulatory proteins." [GOC:go_curators] is_a: GO:0006338 ! chromatin remodeling is_a: GO:0045815 ! positive regulation of gene expression, epigenetic is_a: GO:0045893 ! positive regulation of transcription, DNA-dependent [Term] id: GO:0006346 name: methylation-dependent chromatin silencing namespace: biological_process def: "Repression of transcription by methylation of DNA, leading to the formation of heterochromatin." [GOC:mah] is_a: GO:0006342 ! chromatin silencing is_a: GO:0016569 ! covalent chromatin modification [Term] id: GO:0006348 name: chromatin silencing at telomere namespace: biological_process def: "Repression of transcription of telomeric DNA by the formation of heterochromatin." [PMID:10219245] is_a: GO:0006342 ! chromatin silencing is_a: GO:0031509 ! telomeric heterochromatin formation [Term] id: GO:0006349 name: imprinting namespace: biological_process def: "Heritable alterations in the activity of a gene that depend on whether it passed through the paternal or the maternal germline, but that are not encoded by DNA itself." [GOC:ems, ISBN:0198506732, PMID:11498578] exact_synonym: "DNA imprinting" [] is_a: GO:0006139 ! nucleobase, nucleoside, nucleotide and nucleic acid metabolism is_a: GO:0040029 ! regulation of gene expression, epigenetic [Term] id: GO:0006350 name: transcription namespace: biological_process def: "The synthesis of either RNA on a template of DNA or DNA on a template of RNA." [ISBN:0198506732] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok xref_analog: Reactome:74159 is_a: GO:0006139 ! nucleobase, nucleoside, nucleotide and nucleic acid metabolism [Term] id: GO:0006351 name: transcription, DNA-dependent namespace: biological_process def: "The synthesis of RNA on a template of DNA." [GOC:jl] subset: gosubset_prok broad_synonym: "RNA biosynthesis" [] broad_synonym: "RNA synthesis" [] is_a: GO:0006350 ! transcription [Term] id: GO:0006352 name: transcription initiation namespace: biological_process def: "Processes involved in starting transcription, which is the synthesis of RNA by RNA polymerases using a DNA template." [GOC:jic] subset: gosubset_prok relationship: part_of GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006353 name: transcription termination namespace: biological_process def: "The process by which transcription is completed; the formation of phosphodiester bonds ceases, the RNA-DNA hybrid dissociates, and RNA polymerase releases the DNA." [ISBN:0716720094] subset: gosubset_prok relationship: part_of GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006354 name: RNA elongation namespace: biological_process def: "The extension of an RNA molecule after transcription initiation by the addition of ribonucleotides catalyzed by an RNA polymerase." [GOC:mah] subset: gosubset_prok broad_synonym: "transcription elongation" [] broad_synonym: "transcriptional elongation" [] relationship: part_of GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006355 name: regulation of transcription, DNA-dependent namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA-dependent transcription." [GOC:go_curators] subset: gosubset_prok broad_synonym: "transcriptional control" [] is_a: GO:0045449 ! regulation of transcription relationship: part_of GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006356 name: regulation of transcription from RNA polymerase I promoter namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase I promoter." [GOC:go_curators] exact_synonym: "regulation of transcription from Pol I promoter" [] is_a: GO:0006355 ! regulation of transcription, DNA-dependent relationship: part_of GO:0006360 ! transcription from RNA polymerase I promoter [Term] id: GO:0006357 name: regulation of transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:go_curators] exact_synonym: "regulation of transcription from Pol II promoter" [] is_a: GO:0006355 ! regulation of transcription, DNA-dependent relationship: part_of GO:0006366 ! transcription from RNA polymerase II promoter [Term] id: GO:0006358 name: regulation of global transcription from RNA polymerase II promoter namespace: biological_process def: "Any process that modulates the frequency, rate or extent of global transcription from Pol II promoter." [GOC:go_curators] exact_synonym: "global transcription regulation from Pol II promoter" [] exact_synonym: "regulation of global transcription from Pol II promoter" [] is_a: GO:0006357 ! regulation of transcription from RNA polymerase II promoter [Term] id: GO:0006359 name: regulation of transcription from RNA polymerase III promoter namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transcription from an RNA ploymerase III promoter." [GOC:go_curators] exact_synonym: "regulation of transcription from Pol III promoter" [] is_a: GO:0006355 ! regulation of transcription, DNA-dependent relationship: part_of GO:0006383 ! transcription from RNA polymerase III promoter [Term] id: GO:0006360 name: transcription from RNA polymerase I promoter namespace: biological_process def: "The synthesis of RNA from a DNA template by RNA polymerase I (Pol I), originating at a Pol I-specific promoter." [GOC:jl] exact_synonym: "transcription from Pol I promoter" [] xref_analog: Reactome:73864 is_a: GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006361 name: transcription initiation from RNA polymerase I promoter namespace: biological_process exact_synonym: "transcription initiation from Pol I promoter" [] xref_analog: Reactome:73762 is_a: GO:0006352 ! transcription initiation relationship: part_of GO:0006360 ! transcription from RNA polymerase I promoter [Term] id: GO:0006362 name: RNA elongation from RNA polymerase I promoter namespace: biological_process def: "The extension of an RNA molecule after transcription initiation at an RNA polymerase I-specific promoter by the addition of ribonucleotides catalyzed by RNA polymerase I." [GOC:mah] exact_synonym: "RNA elongation from Pol I promoter" [] xref_analog: Reactome:73777 is_a: GO:0006354 ! RNA elongation relationship: part_of GO:0006360 ! transcription from RNA polymerase I promoter [Term] id: GO:0006363 name: transcription termination from RNA polymerase I promoter namespace: biological_process alt_id: GO:0019223 def: "The process by which transcription by RNA polymerase I is terminated; typically occurs within U-rich regions." [GOC:mah, PMID:12944462] exact_synonym: "transcription termination from Pol I promoter" [] xref_analog: Reactome:73863 is_a: GO:0006353 ! transcription termination relationship: part_of GO:0006360 ! transcription from RNA polymerase I promoter [Term] id: GO:0006364 name: rRNA processing namespace: biological_process def: "Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into a mature rRNA molecule." [GOC:jl] subset: gosubset_prok is_a: GO:0006396 ! RNA processing is_a: GO:0016072 ! rRNA metabolism relationship: part_of GO:0007046 ! ribosome biogenesis [Term] id: GO:0006365 name: 35S primary transcript processing namespace: biological_process is_a: GO:0006364 ! rRNA processing [Term] id: GO:0006366 name: transcription from RNA polymerase II promoter namespace: biological_process def: "The synthesis of RNA from a DNA template by RNA polymerase II (Pol II), originating at a Pol II-specific promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." [GOC:jl, ISBN:0321000382] exact_synonym: "transcription from Pol II promoter" [] xref_analog: Reactome:73857 is_a: GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006367 name: transcription initiation from RNA polymerase II promoter namespace: biological_process def: "Processes involved in starting transcription from the RNA polymerase II promoter." [GOC:jic] exact_synonym: "transcription initiation from Pol II promoter" [] xref_analog: Reactome:75953 is_a: GO:0006352 ! transcription initiation relationship: part_of GO:0006366 ! transcription from RNA polymerase II promoter [Term] id: GO:0006368 name: RNA elongation from RNA polymerase II promoter namespace: biological_process def: "The extension of an RNA molecule after transcription initiation at an RNA polymerase II-specific promoter by the addition of ribonucleotides catalyzed by RNA polymerase II." [GOC:mah] exact_synonym: "RNA elongation from Pol II promoter" [] xref_analog: Reactome:75955 is_a: GO:0006354 ! RNA elongation relationship: part_of GO:0006366 ! transcription from RNA polymerase II promoter [Term] id: GO:0006369 name: transcription termination from RNA polymerase II promoter namespace: biological_process alt_id: GO:0019224 def: "Any process by which transcription by RNA polymerase II is terminated." [GOC:mah] exact_synonym: "transcription termination from Pol II promoter" [] xref_analog: Reactome:73856 is_a: GO:0006353 ! transcription termination relationship: part_of GO:0006366 ! transcription from RNA polymerase II promoter [Term] id: GO:0006370 name: mRNA capping namespace: biological_process def: "Addition of the 7-methylguanosine cap to the 5' end of a nascent messenger RNA transcript." [GOC:mah, PMID:9266685] comment: See also the biological process term 'RNA capping ; GO:0009452'. exact_synonym: "5' end capping" [] exact_synonym: "5' mRNA capping" [] exact_synonym: "5'-end mRNA processing" [] broad_synonym: "5'-end processing" [] xref_analog: Reactome:72086 is_a: GO:0006397 ! mRNA processing is_a: GO:0009452 ! RNA capping [Term] id: GO:0006371 name: mRNA splicing namespace: biological_process def: "OBSOLETE. The process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, so that mRNA consisting only of the joined exons is produced." [GOC:krc, ISBN:0198506732] comment: This term was made obsolete because it represents several different processes. To update annotations, consider the process terms 'Group I intron splicing ; GO:0000372', 'Group II intron splicing ; GO:0000373', 'Group III intron splicing ; GO:0000374', 'nuclear mRNA splicing, via spliceosome ; GO:0000398', 'RNA splicing, via endonucleolytic cleavage and ligation ; GO:0000394'. is_obsolete: true [Term] id: GO:0006372 name: lariat formation, 5'-splice site cleavage namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it represents a molecular function. To update annotations, consider the molecular function term 'second spliceosomal transesterification activity ; GO:0000386' and children or the biological process terms 'formation of catalytic spliceosome for second transesterification step ; GO:0000350' and children. is_obsolete: true [Term] id: GO:0006373 name: 3'-splice site cleavage, exon ligation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it represents a molecular function. To update annotations, consider the molecular function term 'second spliceosomal transesterification activity ; GO:0000386' and children or the biological process terms 'spliceosomal conformational changes to generate catalytic conformation ; GO:0000393', 'spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) ; GO:0000388' and their children. is_obsolete: true [Term] id: GO:0006374 name: nuclear mRNA splicing via U2-type spliceosome namespace: biological_process def: "The cleavage and rejoining of a primary nuclear mRNA transcript to remove sequences not present in the mature form of the RNA via a U2-type spliceosome." [GOC:krc] comment: Note that although the majority of U2-type introns have the sequence GU-AG at the intron termini, some introns with these terminal sequences are spliced by the U12-type spliceosome. The distinguishing characteristics are sequences near the 5' splice site and the branch point sequences of the intron. broad_synonym: "splicing GT-AG intron" [] is_a: GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0006375 name: nuclear mRNA splicing via U12-type spliceosome namespace: biological_process def: "The cleavage and rejoining of a primary nuclear mRNA transcript to remove sequences not present in the mature form of the RNA via a U12-type spliceosome." [GOC:krc] comment: Note that although the many U12-type introns have the sequence AT-AC at the intron termini, some introns with these terminal sequences are spliced by the U2-type spliceosome. The distinguishing characteristics are sequences near the 5' splice site and the branch point sequences of the intron. broad_synonym: "splicing AT-AC intron" [] is_a: GO:0000398 ! nuclear mRNA splicing, via spliceosome [Term] id: GO:0006376 name: mRNA splice site selection namespace: biological_process def: "Selection of a splice site by components of the assembling spliceosome." [GOC:krc, ISBN:0879695897] narrow_synonym: "spliceosomal commitment complex formation" [] narrow_synonym: "spliceosomal E complex formation" [] relationship: part_of GO:0000245 ! spliceosome assembly [Term] id: GO:0006377 name: MATa1 (A1) pre-mRNA splicing namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it does not represent a process unique to splicing of the MATa1 (A1) pre-mRNA, but a recycling defect exacerbated by the presence of two introns within the same gene. To update annotations, consider the biological process term 'assembly of spliceosomal tri-snRNP ; GO:0000244'. is_obsolete: true [Term] id: GO:0006378 name: mRNA polyadenylylation namespace: biological_process def: "The enzymatic addition of a sequence of 40-200 adenylyl residues at the 3' end of a eukaryotic mRNA primary transcript." [ISBN:0198506732] subset: gosubset_prok related_synonym: "cleavage and polyadenylylation specificity factor activity" [] exact_synonym: "mRNA polyadenylation" [] xref_analog: Reactome:72185 is_a: GO:0031124 ! mRNA 3'-end processing is_a: GO:0043631 ! RNA polyadenylation [Term] id: GO:0006379 name: mRNA cleavage namespace: biological_process def: "Any process by which a pre-mRNA or mRNA molecule is cleaved at specific sites or in a regulated manner." [GOC:mah] subset: gosubset_prok related_synonym: "cleavage and polyadenylylation specificity factor activity" [] related_synonym: "cleavage stimulation factor activity" [] related_synonym: "pre-mRNA cleavage factor activity" [] is_a: GO:0006397 ! mRNA processing [Term] id: GO:0006380 name: poly-A binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, consider the molecular function term 'poly(A) binding ; GO:0008143'. is_obsolete: true [Term] id: GO:0006381 name: mRNA editing namespace: biological_process def: "The insertion, deletion or substitution of nucleotides within nascent mRNA transcripts to produce mRNA molecules with sequences that differ from those coded genetically." [ISBN:0198506732] subset: gosubset_prok xref_analog: Reactome:75072 is_a: GO:0016547 ! RNA editing is_a: GO:0016556 ! mRNA modification [Term] id: GO:0006382 name: adenosine to inosine editing namespace: biological_process def: "The conversion of an adenosine residue to inosine in an RNA molecule by deamination." [PMID:11092837] subset: gosubset_prok xref_analog: Reactome:75064 is_a: GO:0016553 ! base conversion or substitution editing [Term] id: GO:0006383 name: transcription from RNA polymerase III promoter namespace: biological_process def: "The synthesis of RNA from a DNA template by RNA polymerase III (Pol III), originating at a Pol III-specific promoter." [GOC:jl] subset: gosubset_prok exact_synonym: "transcription from Pol III promoter" [] xref_analog: Reactome:112054 xref_analog: Reactome:112055 xref_analog: Reactome:112149 xref_analog: Reactome:112153 xref_analog: Reactome:112155 xref_analog: Reactome:112156 xref_analog: Reactome:113442 xref_analog: Reactome:113446 xref_analog: Reactome:113451 xref_analog: Reactome:113705 xref_analog: Reactome:118749 xref_analog: Reactome:118773 xref_analog: Reactome:118955 xref_analog: Reactome:118978 xref_analog: Reactome:74158 xref_analog: Reactome:76060 is_a: GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006384 name: transcription initiation from RNA polymerase III promoter namespace: biological_process exact_synonym: "transcription initiation from Pol III promoter" [] is_a: GO:0006352 ! transcription initiation relationship: part_of GO:0006383 ! transcription from RNA polymerase III promoter [Term] id: GO:0006385 name: RNA elongation from RNA polymerase III promoter namespace: biological_process def: "The extension of an RNA molecule after transcription initiation at an RNA polymerase III-specific promoter by the addition of ribonucleotides catalyzed by RNA polymerase III." [GOC:mah] exact_synonym: "RNA elongation from Pol III promoter" [] xref_analog: Reactome:73780 is_a: GO:0006354 ! RNA elongation relationship: part_of GO:0006383 ! transcription from RNA polymerase III promoter [Term] id: GO:0006386 name: transcription termination from RNA polymerase III promoter namespace: biological_process alt_id: GO:0019225 def: "The process by which transcription by RNA polymerase III is terminated; Pol III has an intrinsic ability to terminate transcription upon incorporation of 4 to 6 contiguous U residues." [GOC:mah, PMID:12944462] exact_synonym: "transcription termination from Pol III promoter" [] xref_analog: Reactome:112466 xref_analog: Reactome:112480 xref_analog: Reactome:113454 xref_analog: Reactome:118980 xref_analog: Reactome:73980 is_a: GO:0006353 ! transcription termination relationship: part_of GO:0006383 ! transcription from RNA polymerase III promoter [Term] id: GO:0006387 name: snRNA capping namespace: biological_process is_a: GO:0009452 ! RNA capping is_a: GO:0016180 ! snRNA processing [Term] id: GO:0006388 name: tRNA splicing namespace: biological_process def: "Splicing of tRNA substrates via recognition of the folded RNA structure that brings the 5' and 3' splice sites into proximity and cleavage of the RNA at both the 3' and 5' splice sites by an endonucleolytic mechanism, followed by ligation of the exons." [GOC:krc, ISBN:0879695897, PMID:9582290] comment: Note that while typically associated with tRNA splicing, splicing via endonucleolytic cleavages and subsequent ligation of the free exon ends is known to be used for some non-tRNA substrates, e.g. HAC1 (YFL031W) in S. cerevisiae and an intron in the 23S rRNA of the Archaeal species Desulfurococcus mobilis. subset: gosubset_prok narrow_synonym: "tRNA-Y splicing" [] is_a: GO:0000394 ! RNA splicing, via endonucleolytic cleavage and ligation is_a: GO:0008033 ! tRNA processing [Term] id: GO:0006389 name: tRNA-Y splicing namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:krc] comment: This term was made obsolete because it does not represent a process unique to splicing of the tyrosyl (Y) tRNA. To update annotations, consider the biological process term 'tRNA splicing ; GO:0006388'. is_obsolete: true [Term] id: GO:0006390 name: transcription from mitochondrial promoter namespace: biological_process def: "The synthesis of RNA from a mitochondrial DNA template, usually by a specific mitochondrial RNA polymerase." [GOC:jl] xref_analog: Reactome:75944 is_a: GO:0006351 ! transcription, DNA-dependent [Term] id: GO:0006391 name: transcription initiation from mitochondrial promoter namespace: biological_process xref_analog: Reactome:163282 is_a: GO:0006352 ! transcription initiation relationship: part_of GO:0006390 ! transcription from mitochondrial promoter [Term] id: GO:0006392 name: RNA elongation from mitochondrial promoter namespace: biological_process def: "The extension of an RNA molecule after transcription initiation at mitochondrial promoter by the addition of ribonucleotides catalyzed by a mitchondrial RNA polymerase." [GOC:mah] is_a: GO:0006354 ! RNA elongation relationship: part_of GO:0006390 ! transcription from mitochondrial promoter [Term] id: GO:0006393 name: RNA transcription termination from mitochondrial promoter namespace: biological_process def: "The process by which transcription from a mitochondrial promoter is terminated." [GOC:mah] xref_analog: Reactome:163316 is_a: GO:0006353 ! transcription termination relationship: part_of GO:0006390 ! transcription from mitochondrial promoter [Term] id: GO:0006396 name: RNA processing namespace: biological_process alt_id: GO:0006394 def: "Any process involved in the conversion of a primary RNA transcript into one or more mature RNA molecules." [GOC:mah] subset: gosubset_prok is_a: GO:0016070 ! RNA metabolism [Term] id: GO:0006397 name: mRNA processing namespace: biological_process def: "Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide." [GOC:mah] subset: gosubset_prok related_synonym: "mRNA maturation" [] xref_analog: Reactome:75067 xref_analog: Reactome:77586 is_a: GO:0006396 ! RNA processing is_a: GO:0016071 ! mRNA metabolism [Term] id: GO:0006398 name: histone mRNA 3'-end processing namespace: biological_process def: "Any process involved in forming the mature 3' end of a histone mRNA molecule." [GOC:mah] exact_synonym: "histone mRNA 3' end processing" [] is_a: GO:0008334 ! histone mRNA metabolism is_a: GO:0031124 ! mRNA 3'-end processing [Term] id: GO:0006399 name: tRNA metabolism namespace: biological_process def: "The chemical reactions and pathways involving tRNA, transfer RNA, a class of relatively small RNA molecules responsible for mediating the insertion of amino acids into the sequence of nascent polypeptide chains during protein synthesis. Transfer RNA is characterized by the presence of many unusual minor bases, the function of which has not been completely established." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0016070 ! RNA metabolism [Term] id: GO:0006400 name: tRNA modification namespace: biological_process def: "The covalent alteration of one or more nucleotides within tRNA, resulting in a change in the properties of the tRNA." [GOC:jl] subset: gosubset_prok is_a: GO:0006399 ! tRNA metabolism is_a: GO:0009451 ! RNA modification [Term] id: GO:0006401 name: RNA catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "RNA breakdown" [] exact_synonym: "RNA degradation" [] is_a: GO:0016070 ! RNA metabolism is_a: GO:0043285 ! biopolymer catabolism is_a: GO:0044265 ! cellular macromolecule catabolism [Term] id: GO:0006402 name: mRNA catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "mRNA breakdown" [] exact_synonym: "mRNA degradation" [] is_a: GO:0006401 ! RNA catabolism is_a: GO:0016071 ! mRNA metabolism [Term] id: GO:0006403 name: RNA localization namespace: biological_process def: "The processes by which RNA is transported to, or maintained in, a specific location." [GOC:ai] exact_synonym: "establishment and maintenance of RNA localization" [] is_a: GO:0051179 ! localization [Term] id: GO:0006404 name: RNA import into nucleus namespace: biological_process def: "The import of RNA from the cytoplasm to the nucleus." [GOC:ma] exact_synonym: "RNA transport from cytoplasm to nucleus" [] exact_synonym: "RNA-nucleus import" [] is_a: GO:0050658 ! RNA transport is_a: GO:0051170 ! nuclear import [Term] id: GO:0006405 name: RNA export from nucleus namespace: biological_process def: "The directed movement of RNA from the nucleus to the cytoplasm." [GOC:ma] exact_synonym: "RNA export out of nucleus" [] exact_synonym: "RNA transport from nucleus to cytoplasm" [] exact_synonym: "RNA-nucleus export" [] xref_analog: Reactome:158441 xref_analog: Reactome:158447 xref_analog: Reactome:158481 xref_analog: Reactome:159101 xref_analog: Reactome:167990 xref_analog: Reactome:168242 xref_analog: Reactome:168243 xref_analog: Reactome:178504 xref_analog: Reactome:178700 xref_analog: Reactome:178701 xref_analog: Reactome:181429 xref_analog: Reactome:181432 is_a: GO:0050658 ! RNA transport is_a: GO:0051168 ! nuclear export [Term] id: GO:0006406 name: mRNA export from nucleus namespace: biological_process def: "The directed movement of mRNA from the nucleus to the cytoplasm." [GOC:ma] exact_synonym: "mRNA export out of nucleus" [] exact_synonym: "mRNA transport from nucleus to cytoplasm" [] exact_synonym: "mRNA-nucleus export" [] xref_analog: Reactome:158484 xref_analog: Reactome:159046 xref_analog: Reactome:159050 xref_analog: Reactome:159234 xref_analog: Reactome:159236 xref_analog: Reactome:166406 xref_analog: Reactome:166409 xref_analog: Reactome:166419 xref_analog: Reactome:167995 xref_analog: Reactome:167998 xref_analog: Reactome:168244 xref_analog: Reactome:177133 xref_analog: Reactome:177143 xref_analog: Reactome:178508 xref_analog: Reactome:181438 xref_analog: Reactome:72202 xref_analog: Reactome:75096 xref_analog: Reactome:75097 xref_analog: Reactome:75098 xref_analog: Reactome:77587 xref_analog: Reactome:77594 is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0051028 ! mRNA transport [Term] id: GO:0006407 name: rRNA export from nucleus namespace: biological_process def: "The directed movement of rRNA from the nucleus to the cytoplasm." [GOC:ma] exact_synonym: "rRNA export out of nucleus" [] exact_synonym: "rRNA transport from nucleus to cytoplasm" [] exact_synonym: "rRNA-nucleus export" [] is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0051029 ! rRNA transport [Term] id: GO:0006408 name: snRNA export from nucleus namespace: biological_process def: "The directed movement of snRNA from the nucleus to the cytoplasm." [GOC:ma] exact_synonym: "snRNA export out of nucleus" [] exact_synonym: "snRNA transport from nucleus to cytoplasm" [] exact_synonym: "snRNA-nucleus export" [] is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0051030 ! snRNA transport [Term] id: GO:0006409 name: tRNA export from nucleus namespace: biological_process def: "The directed movement of tRNA from the nucleus to the cytoplasm." [GOC:ma] exact_synonym: "tRNA export out of nucleus" [] exact_synonym: "tRNA transport from nucleus to cytoplasm" [] exact_synonym: "tRNA-nucleus export" [] is_a: GO:0006405 ! RNA export from nucleus is_a: GO:0051031 ! tRNA transport [Term] id: GO:0006410 name: transcription, RNA-dependent namespace: biological_process def: "The synthesis of DNA on a template of RNA." [GOC:jl] subset: gosubset_prok exact_synonym: "reverse transcription" [] is_a: GO:0006350 ! transcription [Term] id: GO:0006412 name: protein biosynthesis namespace: biological_process alt_id: GO:0006416 alt_id: GO:0006453 def: "The chemical reactions and pathways resulting in the formation of a protein, rather than of proteins in general." [GOC:go_curators] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity" [] related_synonym: "protein-synthesizing GTPase activity, elongation" [] related_synonym: "protein-synthesizing GTPase activity, initiation" [] related_synonym: "protein-synthesizing GTPase activity, termination" [] exact_synonym: "protein anabolism" [] exact_synonym: "protein formation" [] exact_synonym: "protein synthesis" [] is_a: GO:0009059 ! macromolecule biosynthesis is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006413 name: translational initiation namespace: biological_process alt_id: GO:0006440 alt_id: GO:0006454 def: "The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA, and an initiation complex that contains the first aminoacyl-tRNA." [ISBN:019879276X] subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity, initiation" [] exact_synonym: "translation initiation" [] broad_synonym: "protein synthesis initiation" [] relationship: part_of GO:0043037 ! translation [Term] id: GO:0006414 name: translational elongation namespace: biological_process alt_id: GO:0006442 alt_id: GO:0006455 def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis." [GOC:ems] subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity, elongation" [] exact_synonym: "translation elongation" [] broad_synonym: "protein synthesis elongation" [] xref_analog: Reactome:156842 relationship: part_of GO:0043037 ! translation [Term] id: GO:0006415 name: translational termination namespace: biological_process alt_id: GO:0006443 alt_id: GO:0006456 def: "The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code)." [GOC:hjd, ISBN:019879276X] subset: gosubset_prok related_synonym: "protein-synthesizing GTPase activity, termination" [] exact_synonym: "translation termination" [] broad_synonym: "protein synthesis termination" [] xref_analog: Reactome:141667 xref_analog: Reactome:141671 xref_analog: Reactome:141673 xref_analog: Reactome:141687 xref_analog: Reactome:141691 xref_analog: Reactome:141696 xref_analog: Reactome:141698 xref_analog: Reactome:72764 relationship: part_of GO:0043037 ! translation [Term] id: GO:0006417 name: regulation of protein biosynthesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins." [GOC:go_curators] subset: gosubset_prok exact_synonym: "regulation of protein anabolism" [] exact_synonym: "regulation of protein formation" [] exact_synonym: "regulation of protein synthesis" [] is_a: GO:0031326 ! regulation of cellular biosynthesis is_a: GO:0051246 ! regulation of protein metabolism relationship: part_of GO:0006412 ! protein biosynthesis [Term] id: GO:0006418 name: tRNA aminoacylation for protein translation namespace: biological_process def: "The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis." [GOC:ma] subset: gosubset_prok narrow_synonym: "tRNA charging" [] xref_analog: MetaCyc:TRNA-CHARGING-PWY is_a: GO:0043039 ! tRNA aminoacylation relationship: part_of GO:0043037 ! translation [Term] id: GO:0006419 name: alanyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling alanine to alanyl-tRNA, catalyzed by alanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006420 name: arginyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006421 name: asparaginyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling asparagine to asparaginyl-tRNA, catalyzed by asparaginyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006422 name: aspartyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling aspartate to aspartyl-tRNA, catalyzed by aspartyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mah, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006423 name: cysteinyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling cysteine to cysteinyl-tRNA, catalyzed by cysteinyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006424 name: glutamyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling glutamate to glutamyl-tRNA, catalyzed by glutamyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'- adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006425 name: glutaminyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling glutamine to glutaminyl-tRNA, catalyzed by glutaminyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'- adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006426 name: glycyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling glycine to glycyl-tRNA, catalyzed by glycyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006427 name: histidyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling histidine to histidyl-tRNA, catalyzed by histidyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006428 name: isoleucyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling isoleucine to isoleucyl-tRNA, catalyzed by isoleucyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006429 name: leucyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling leucine to leucyl-tRNA, catalyzed by leucyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006430 name: lysyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling lysine to lysyl-tRNA, catalyzed by lysyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006431 name: methionyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling methionine to methionyl-tRNA, catalyzed by methionyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006432 name: phenylalanyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling phenylalanine to phenylalanyl-tRNA, catalyzed by phenylalanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006433 name: prolyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling proline to prolyl-tRNA, catalyzed by prolyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mah, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006434 name: seryl-tRNA aminoacylation namespace: biological_process def: "The process of coupling serine to seryl-tRNA, catalyzed by seryl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006435 name: threonyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling threonine to threonyl-tRNA, catalyzed by threonyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006436 name: tryptophanyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling tryptophan to tryptophanyl-tRNA, catalyzed by tryptophanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006437 name: tyrosyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling tyrosine to tyrosyl-tRNA, catalyzed by tyrosyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006438 name: valyl-tRNA aminoacylation namespace: biological_process def: "The process of coupling valine to valyl-tRNA, catalyzed by valyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA." [GOC:mcc, ISBN:0716730510] subset: gosubset_prok is_a: GO:0006418 ! tRNA aminoacylation for protein translation [Term] id: GO:0006439 name: aminoacyl-tRNA hydrolase reaction namespace: biological_process def: "OBSOLETE. Hydrolysis of the peptidyl-tRNA by aminoacyl-tRNA hydrolase upon termination of translation. Analogous to usual peptidyl transfer during elongation, except that the acceptor is H2O instead of an aminoacyl-tRNA." [ISBN:019879276X] comment: This term was made obsolete because it represents a molecular function. To update annotations, use the molecular function term 'aminoacyl-tRNA hydrolase activity ; GO:0004045'. is_obsolete: true [Term] id: GO:0006441 name: binding to mRNA cap namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:hjd] comment: This term was made obsolete because it represents a function rather than a process. To update annotations, consider the molecular function term 'RNA cap binding ; GO:0000339' and its children. is_obsolete: true [Term] id: GO:0006445 name: regulation of translation namespace: biological_process def: "Any process that modulates the frequency, rate or extent that mRNAs are effectively translated into protein." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006417 ! regulation of protein biosynthesis relationship: part_of GO:0043037 ! translation [Term] id: GO:0006446 name: regulation of translational initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational initiation." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006445 ! regulation of translation relationship: part_of GO:0006413 ! translational initiation [Term] id: GO:0006447 name: regulation of translational initiation by iron namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the translation of certain mRNAs involved in iron metabolism; regulated by the concentration of iron." [GOC:jl] subset: gosubset_prok is_a: GO:0006446 ! regulation of translational initiation [Term] id: GO:0006448 name: regulation of translational elongation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational elongation." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006445 ! regulation of translation relationship: part_of GO:0006414 ! translational elongation [Term] id: GO:0006449 name: regulation of translational termination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational termination." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006445 ! regulation of translation relationship: part_of GO:0006415 ! translational termination [Term] id: GO:0006450 name: regulation of translational fidelity namespace: biological_process alt_id: GO:0000029 def: "Any process that modulates the frequency, rate or extent of activities to ensure translational fidelity." [GOC:go_curators] subset: gosubset_prok exact_synonym: "regulation of translational accuracy" [] is_a: GO:0006445 ! regulation of translation [Term] id: GO:0006451 name: translational readthrough namespace: biological_process def: "The continuation of translation beyond a stop codon by the use of a special tRNA that recognizes the UGA codon as a modified amino acid, rather than as a termination codon." [GOC:mah, ISBN:0] subset: gosubset_prok related_synonym: "nonsense suppression" [] is_a: GO:0006414 ! translational elongation is_a: GO:0006445 ! regulation of translation [Term] id: GO:0006452 name: translational frameshifting namespace: biological_process def: "A mechanism whereby different proteins may result from a single mRNA molecule, due to a change in the parsing of three nucleotides per codon relative to an initiating AUG codon." [GOC:hjd, ISBN:0195094425] subset: gosubset_prok is_a: GO:0006445 ! regulation of translation [Term] id: GO:0006457 name: protein folding namespace: biological_process def: "The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure." [GOC:go_curators, GOC:rb] subset: gosubset_prok related_synonym: "chaperone activity" [] related_synonym: "chaperonin ATPase activity" [] related_synonym: "co-chaperone activity" [] related_synonym: "co-chaperonin activity" [] related_synonym: "glycoprotein-specific chaperone activity" [] related_synonym: "non-chaperonin molecular chaperone ATPase activity" [] related_synonym: "protein complex assembly, multichaperone pathway" [] is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006458 name: 'de novo' protein folding namespace: biological_process def: "The process of assisting in the folding of a nascent peptide chain into its correct tertiary structure." [GOC:mb] subset: gosubset_prok exact_synonym: "nascent chain protein folding" [] is_a: GO:0006457 ! protein folding [Term] id: GO:0006459 name: binding unfolded ER proteins namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:mah] comment: This term was made obsolete because it represents a function rather than a process. To update annotations, consider the molecular function term 'unfolded protein binding ; GO:0051082' and the cellular component term 'endoplasmic reticulum ; GO:0005783'. is_obsolete: true [Term] id: GO:0006460 name: peptidyl-prolyl isomerase B reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, consider the molecular function term 'peptidyl-prolyl cis-trans isomerase activity ; GO:0003755'. is_obsolete: true [Term] id: GO:0006461 name: protein complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form a protein complex." [GOC:ai] subset: gosubset_prok related_synonym: "chaperone activity" [] related_synonym: "tubulin-specific chaperone activity" [] is_a: GO:0019538 ! protein metabolism [Term] id: GO:0006462 name: protein complex assembly, multichaperone pathway namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because the string was ambiguous and the original meaning of the term was hence unknown. To update annotations, consider the biological process terms 'protein folding ; GO:0006457' and 'chaperone-mediated protein complex assembly ; GO:0051131'. is_obsolete: true [Term] id: GO:0006463 name: steroid hormone receptor complex assembly namespace: biological_process def: "The aggregation and bonding together of a set of components to form a steroid hormone receptor complex, an intracellular receptor that binds steroid hormones. The complex is often a dimer, and forms after the steroid has bound the receptor." [GOC:jl, http://en.wikipedia.org/] is_a: GO:0006461 ! protein complex assembly [Term] id: GO:0006464 name: protein modification namespace: biological_process def: "The covalent alteration of one or more amino acid residues within a protein, resulting in a change in the properties of that protein." [GOC:go_curators] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok related_synonym: "protein tagging activity" [] narrow_synonym: "protein-pyrroloquinoline-quinone linkage" [] xref_analog: Reactome:163841 is_a: GO:0043412 ! biopolymer modification is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006465 name: signal peptide processing namespace: biological_process subset: gosubset_prok exact_synonym: "leader peptide processing" [] is_a: GO:0006518 ! peptide metabolism is_a: GO:0016485 ! protein processing [Term] id: GO:0006466 name: protein disulfide-isomerase reaction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it presents a molecular function. To update annotations, use the molecular function term 'protein disulfide isomerase activity ; GO:0003756'. exact_synonym: "protein disulphide-isomerase reaction" [] is_obsolete: true [Term] id: GO:0006467 name: protein thiol-disulfide exchange namespace: biological_process def: "Oxidation of two organic sulfhydryl groups (thiols) by a disulfide compound to form a disulfide bond." [GOC:jsg] subset: gosubset_prok exact_synonym: "disulphide bond formation" [] exact_synonym: "protein thiol-disulphide exchange" [] is_a: GO:0006457 ! protein folding is_a: GO:0006464 ! protein modification [Term] id: GO:0006468 name: protein amino acid phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group on to a protein." [GOC:hb] subset: gosubset_prok xref_analog: Reactome:118553 xref_analog: Reactome:121166 xref_analog: Reactome:167589 xref_analog: Reactome:171586 xref_analog: Reactome:178198 xref_analog: Reactome:73722 is_a: GO:0006464 ! protein modification is_a: GO:0016310 ! phosphorylation [Term] id: GO:0006469 name: negative regulation of protein kinase activity namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein kinase activity." [GOC:go_curators] subset: gosubset_prok is_a: GO:0045859 ! regulation of protein kinase activity is_a: GO:0051348 ! negative regulation of transferase activity [Term] id: GO:0006470 name: protein amino acid dephosphorylation namespace: biological_process def: "The process of removing one or more phosphoric residues from a protein." [GOC:hb] subset: gosubset_prok is_a: GO:0006464 ! protein modification is_a: GO:0016311 ! dephosphorylation [Term] id: GO:0006471 name: protein amino acid ADP-ribosylation namespace: biological_process def: "The transfer, from NAD, of ADP-ribose to protein amino acids." [RESID:AA0040, RESID:AA0168, RESID:AA0169, RESID:AA0231, RESID:AA0237, RESID:AA0295] subset: gosubset_prok xref_analog: RESID:AA0040 xref_analog: RESID:AA0168 xref_analog: RESID:AA0169 xref_analog: RESID:AA0231 xref_analog: RESID:AA0237 xref_analog: RESID:AA0295 is_a: GO:0006464 ! protein modification [Term] id: GO:0006473 name: protein amino acid acetylation namespace: biological_process def: "The addition of an acetyl group to a protein amino acid. An acetyl group is CH3CO-, derived from acetic [ethanoic] acid." [GOC:ai] subset: gosubset_prok is_a: GO:0043543 ! protein amino acid acylation [Term] id: GO:0006474 name: N-terminal protein amino acid acetylation namespace: biological_process def: "The acetylation of the N-terminal amino acid of proteins." [GOC:ai] subset: gosubset_prok is_a: GO:0006473 ! protein amino acid acetylation is_a: GO:0018409 ! peptide or protein amino-terminal blocking [Term] id: GO:0006475 name: internal protein amino acid acetylation namespace: biological_process subset: gosubset_prok is_a: GO:0006473 ! protein amino acid acetylation [Term] id: GO:0006476 name: protein amino acid deacetylation namespace: biological_process def: "The removal of an acetyl group from a protein amino acid. An acetyl group is CH3CO-, derived from acetic [ethanoic] acid." [GOC:ai] subset: gosubset_prok is_a: GO:0006464 ! protein modification [Term] id: GO:0006477 name: protein amino acid sulfation namespace: biological_process def: "The addition of a sulfate group as an ester to a protein amino acid." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "protein amino acid sulphation" [] is_a: GO:0006464 ! protein modification is_a: GO:0051923 ! sulfation [Term] id: GO:0006478 name: peptidyl-tyrosine sulfation namespace: biological_process def: "The posttranslational sulfation of peptidyl-tyrosine residues to form peptidyl-O4'-sulfo-L-tyrosine." [RESID:AA0172] subset: gosubset_prok exact_synonym: "peptidyl-tyrosine sulphation" [] xref_analog: RESID:AA0172 is_a: GO:0006477 ! protein amino acid sulfation is_a: GO:0018212 ! peptidyl-tyrosine modification [Term] id: GO:0006479 name: protein amino acid methylation namespace: biological_process def: "The addition of a methyl group to a protein amino acid. A methyl group is derived from methane by the removal of a hydrogen atom." [GOC:ai] subset: gosubset_prok is_a: GO:0008213 ! protein amino acid alkylation is_a: GO:0043414 ! biopolymer methylation [Term] id: GO:0006480 name: N-terminal protein amino acid methylation namespace: biological_process def: "The methylation of the N-terminal amino acid of a protein." [GOC:ai] subset: gosubset_prok is_a: GO:0006479 ! protein amino acid methylation is_a: GO:0018409 ! peptide or protein amino-terminal blocking [Term] id: GO:0006481 name: C-terminal protein amino acid methylation namespace: biological_process def: "The methylation of the C-terminal amino acid of a protein." [GOC:ai] subset: gosubset_prok is_a: GO:0006479 ! protein amino acid methylation is_a: GO:0018410 ! peptide or protein carboxyl-terminal blocking [Term] id: GO:0006482 name: protein amino acid demethylation namespace: biological_process subset: gosubset_prok is_a: GO:0008214 ! protein amino acid dealkylation [Term] id: GO:0006483 name: peptidyl-aspartic acid/asparagine hydroxylation namespace: biological_process def: "OBSOLETE. The hydroxylation of peptidyl-aspartic acid or asparagine." [GOC:ai] comment: This term was made obsolete because it is a redundant grouping term. To update annotations, consider the molecular function terms 'peptidyl-aspartic acid hydroxylation ; GO:0042264', 'peptidyl-asparagine hydroxylation ; GO:0042265'. exact_synonym: "aspartic acid/asparagine hydroxylation" [] is_obsolete: true [Term] id: GO:0006484 name: protein cysteine-thiol oxidation namespace: biological_process def: "OBSOLETE. Oxidation of two cysteine sulfhydryl groups (thiols) in one protein by a disulfide bond in a second protein to form a disulfide bond in the first protein and two reduced sulfhydryls in the second. The oxidized cysteines linked by a disulfide bond is known as cystine." [http://micro.magnet.fsu.edu/aminoacids/pages/cystine.html, http://www.indstate.edu/thcme/mwking/pentose-phosphate-pathway.html, RESID:AA0025] comment: This term was made obsolete because it represents a single activity. To update annotations, consider the molecular function term 'protein disulfide isomerase activity ; GO:0003756'. subset: gosubset_prok is_obsolete: true [Term] id: GO:0006486 name: protein amino acid glycosylation namespace: biological_process def: "The addition of a sugar unit to a protein amino acid, e.g. the addition of glycan chains to proteins." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006464 ! protein modification is_a: GO:0043413 ! biopolymer glycosylation relationship: part_of GO:0009101 ! glycoprotein biosynthesis [Term] id: GO:0006487 name: protein amino acid N-linked glycosylation namespace: biological_process def: "The posttranslational glycosylation of protein via the N4 atom of peptidyl-asparagine or the N1' atom peptidyl-tryptophan." [RESID:AA0151, RESID:AA0156, RESID:AA0327] subset: gosubset_prok xref_analog: RESID:AA0151 xref_analog: RESID:AA0156 xref_analog: RESID:AA0327 is_a: GO:0006486 ! protein amino acid glycosylation [Term] id: GO:0006488 name: dolichol-linked oligosaccharide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dolichol-linked oligosaccharide, usually by a stepwise addition of glycosyl chains to endoplasmic reticulum membrane-bound dolichol-P." [GOC:jl, ISBN:0471331309] subset: gosubset_prok exact_synonym: "dolichol-linked oligosaccharide anabolism" [] exact_synonym: "dolichol-linked oligosaccharide formation" [] exact_synonym: "dolichol-linked oligosaccharide synthesis" [] exact_synonym: "oligosaccharide-PP-dolichol assembly" [] is_a: GO:0006487 ! protein amino acid N-linked glycosylation [Term] id: GO:0006489 name: dolichyl diphosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dolichyl diphosphate, a diphosphorylated dolichol derivative." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "dolichyl diphosphate anabolism" [] exact_synonym: "dolichyl diphosphate formation" [] exact_synonym: "dolichyl diphosphate synthesis" [] is_a: GO:0019408 ! dolichol biosynthesis is_a: GO:0046465 ! dolichyl diphosphate metabolism relationship: part_of GO:0006488 ! dolichol-linked oligosaccharide biosynthesis [Term] id: GO:0006490 name: oligosaccharide-lipid intermediate assembly namespace: biological_process subset: gosubset_prok relationship: part_of GO:0006488 ! dolichol-linked oligosaccharide biosynthesis [Term] id: GO:0006491 name: N-glycan processing namespace: biological_process alt_id: GO:0006492 def: "The conversion of N-linked glycan structures from the initially transferred oligosaccharide to a mature form, by the actions of glycosidases and glycosyltransferases. The early processing steps are conserved and play roles in glycoprotein folding and trafficking." [ISBN:0879695595, PMID:12736198] subset: gosubset_prok exact_synonym: "N-linked glycoprotein maturation" [] is_a: GO:0006487 ! protein amino acid N-linked glycosylation [Term] id: GO:0006493 name: protein amino acid O-linked glycosylation namespace: biological_process def: "The formation of O-glycans by addition of glycosyl groups either to the hydroxyl group of peptidyl-serine, peptidyl-threonine, peptidyl-hydroxylysine, or peptidyl-hydroxyproline, or to the phenol group of peptidyl-tyrosine." [ISBN:0879695595, RESID:AA0153, RESID:AA0154, RESID:AA0155, RESID:AA0157, RESID:AA0212] subset: gosubset_prok xref_analog: RESID:AA0153 xref_analog: RESID:AA0154 xref_analog: RESID:AA0155 xref_analog: RESID:AA0157 xref_analog: RESID:AA0212 is_a: GO:0006486 ! protein amino acid glycosylation [Term] id: GO:0006494 name: protein amino acid terminal glycosylation namespace: biological_process def: "The glycosylation of a free alpha-amino or alpha-carboxyl terminal of a peptide." [GOC:jsg] subset: gosubset_prok is_a: GO:0006486 ! protein amino acid glycosylation [Term] id: GO:0006495 name: terminal O-glycosylation namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators, GOC:jsg] comment: This term was made obsolete because there is no evidence for the existence of this process. is_obsolete: true [Term] id: GO:0006496 name: protein amino acid terminal N-glycosylation namespace: biological_process def: "The glycosylation of an N atom of a free alpha amino terminal of a peptide." [GOC:jsg] comment: Note that the only known alpha amino glycosylation is on an asparagine; see SP:P58522. However, this feature is not differentiated from normal N-glycosylation of asparagine. subset: gosubset_prok is_a: GO:0006487 ! protein amino acid N-linked glycosylation is_a: GO:0006494 ! protein amino acid terminal glycosylation [Term] id: GO:0006497 name: protein amino acid lipidation namespace: biological_process alt_id: GO:0042050 def: "The covalent or non-covalent attachment of lipid moieties to an amino acid in a protein." [GOC:jl] subset: gosubset_prok exact_synonym: "lipid:protein modification" [] exact_synonym: "protein lipidation" [] xref_analog: RESID:AA0059 xref_analog: RESID:AA0060 xref_analog: RESID:AA0077 xref_analog: RESID:AA0078 xref_analog: RESID:AA0079 xref_analog: RESID:AA0080 xref_analog: RESID:AA0102 xref_analog: RESID:AA0103 xref_analog: RESID:AA0104 xref_analog: RESID:AA0106 xref_analog: RESID:AA0107 xref_analog: RESID:AA0158 xref_analog: RESID:AA0159 xref_analog: RESID:AA0160 xref_analog: RESID:AA0161 xref_analog: RESID:AA0162 xref_analog: RESID:AA0163 xref_analog: RESID:AA0166 xref_analog: RESID:AA0223 xref_analog: RESID:AA0290 xref_analog: RESID:AA0307 xref_analog: RESID:AA0308 xref_analog: RESID:AA0309 xref_analog: RESID:AA0316 is_a: GO:0006464 ! protein modification is_a: GO:0042158 ! lipoprotein biosynthesis [Term] id: GO:0006498 name: N-terminal protein lipidation namespace: biological_process def: "The covalent or non-covalent attachment of a lipid moiety to the amino terminus of a protein." [GOC:jl] subset: gosubset_prok is_a: GO:0006497 ! protein amino acid lipidation is_a: GO:0018409 ! peptide or protein amino-terminal blocking [Term] id: GO:0006499 name: N-terminal protein myristoylation namespace: biological_process def: "The covalent or non-covalent attachment of a myristoyl moiety to the N-terminal amino acid residue of a protein." [GOC:mah] subset: gosubset_prok is_a: GO:0018319 ! protein amino acid myristoylation [Term] id: GO:0006500 name: N-terminal protein palmitoylation namespace: biological_process def: "The covalent or non-covalent attachment of a palmitoyl moiety to the N-terminal amino acid residue of a protein." [GOC:mah] subset: gosubset_prok is_a: GO:0018318 ! protein amino acid palmitoylation [Term] id: GO:0006501 name: C-terminal protein lipidation namespace: biological_process def: "The covalent or non-covalent attachment of a lipid moiety to the carboxy terminus of a protein." [GOC:jl] subset: gosubset_prok xref_analog: Reactome:163125 is_a: GO:0006497 ! protein amino acid lipidation is_a: GO:0018410 ! peptide or protein carboxyl-terminal blocking [Term] id: GO:0006502 name: C-terminal protein prenylation namespace: biological_process def: "OBSOLETE. The covalent or non-covalent attachment of a prenyl moiety to the carboxy terminus of a protein; geranyl, farnesyl, or geranylgeranyl groups may be added." [GOC:jl] comment: This term was made obsolete because the process is not exclusive to the carboxy terminus of a protein. To update annotations, use the biological process term 'protein amino acid prenylation ; GO:0018346'. is_obsolete: true [Term] id: GO:0006503 name: C-terminal protein farnesylation namespace: biological_process def: "OBSOLETE. The covalent or non-covalent attachment of a farnesyl moiety to the carboxy terminus of a protein." [GOC:jl] comment: This term was made obsolete because the process is not exclusive to the carboxy terminus of a protein. To update annotations, use the biological process term 'protein amino acid farnesylation ; GO:0018347'. is_obsolete: true [Term] id: GO:0006504 name: C-terminal protein geranylgeranylation namespace: biological_process def: "OBSOLETE. The covalent or non-covalent attachment of a geranylgeranyl moiety to the carboxy terminus of a protein." [GOC:jl] comment: This term was made obsolete because the process is not exclusive to the carboxy terminus of a protein. To update annotations, use the biological process term 'protein amino acid geranylgeranylation ; GO:0018348'. is_obsolete: true [Term] id: GO:0006505 name: GPI anchor metabolism namespace: biological_process alt_id: GO:0046472 def: "The chemical reactions and pathways involving glycosylphosphatidylinositol anchors, molecular mechanisms for attaching membrane proteins to the lipid bilayer of cell membranes. Structurally they consist of a molecule of phosphatidylinositol to which is linked, via the C-6 hydroxyl of the inositol, a carbohydrate chain. This chain is in turn linked to the protein through an ethanolamine phosphate moiety, the amino group of which is in amide linkage with the C-terminal carboxyl of the protein chain, the phosphate group being esterified to the C-6 hydroxyl of the terminal mannose of the core carbohydrate chain." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "glycosylphosphatidylinositol metabolism" [] broad_synonym: "GPI/GSI anchor metabolism" [] is_a: GO:0030384 ! phosphoinositide metabolism [Term] id: GO:0006506 name: GPI anchor biosynthesis namespace: biological_process alt_id: GO:0015998 def: "The chemical reactions and pathways resulting in the formation of a glycosylphosphatidylinositol (GPI) anchor that attaches some membrane proteins to the lipid bilayer of the cell membrane. The phosphatidylinositol moiety is linked via the C-6 hydroxyl residue of inositol to a carbohydrate chain which is itself linked to the protein via an ethanolamine phosphate moiety, its amino group forming an amide linkage with the C-terminal carboxyl of the protein. Some GPI anchors have variants on this canonical linkage." [GOC:go_curators, ISBN:0198547684] subset: gosubset_prok exact_synonym: "glycosylphosphatidylinositol biosynthesis" [] exact_synonym: "GPI anchor anabolism" [] exact_synonym: "GPI anchor formation" [] exact_synonym: "GPI anchor synthesis" [] broad_synonym: "GPI/GSI anchor biosynthesis" [] is_a: GO:0006497 ! protein amino acid lipidation is_a: GO:0006505 ! GPI anchor metabolism is_a: GO:0046489 ! phosphoinositide biosynthesis [Term] id: GO:0006507 name: GPI anchor release namespace: biological_process subset: gosubset_prok is_a: GO:0006505 ! GPI anchor metabolism [Term] id: GO:0006508 name: proteolysis namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein." [GOC:jsg] subset: gosubset_prok exact_synonym: "peptidolysis" [] xref_analog: Reactome:159782 xref_analog: Reactome:168004 xref_analog: Reactome:171961 xref_analog: Reactome:175068 xref_analog: Reactome:178516 xref_analog: Reactome:181266 is_a: GO:0044267 ! cellular protein metabolism [Term] id: GO:0006509 name: membrane protein ectodomain proteolysis namespace: biological_process def: "The proteolytic cleavage of transmembrane proteins and release of their ectodomain (extracellular domain)." [GOC:jl, http://www.copewithcytokines.de/] subset: gosubset_prok related_synonym: "membrane protein solubilization" [] related_synonym: "receptor shedding" [] is_a: GO:0006508 ! proteolysis [Term] id: GO:0006510 name: ATP-dependent proteolysis namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein using energy from the hydrolysis of ATP." [GOC:jl] subset: gosubset_prok exact_synonym: "ATP-dependent peptidolysis" [] is_a: GO:0006508 ! proteolysis [Term] id: GO:0006511 name: ubiquitin-dependent protein catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of a ubiquitin moiety, or multiple ubiquitin moieties, to the protein." [GOC:go_curators] exact_synonym: "ubiquitin-dependent protein breakdown" [] exact_synonym: "ubiquitin-dependent protein degradation" [] exact_synonym: "ubiquitin-dependent proteolysis" [] is_a: GO:0019941 ! modification-dependent protein catabolism relationship: part_of GO:0006512 ! ubiquitin cycle [Term] id: GO:0006512 name: ubiquitin cycle namespace: biological_process def: "The cyclical process by which one or more ubiquitin moieties are added to (ubiquitination) and removed from (deubiquitination) a protein." [PMID:11917093] subset: gosubset_prok is_a: GO:0006464 ! protein modification [Term] id: GO:0006513 name: protein monoubiquitination namespace: biological_process def: "Addition of a single ubiquitin moiety to a protein." [GOC:ai] subset: gosubset_prok exact_synonym: "protein monoubiquitinylation" [] exact_synonym: "protein monoubiquitylation" [] is_a: GO:0016567 ! protein ubiquitination [Term] id: GO:0006515 name: misfolded or incompletely synthesized protein catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of misfolded or attenuated proteins." [GOC:jl] subset: gosubset_prok exact_synonym: "degradation of misfolded or incompletely synthesized proteins" [] exact_synonym: "misfolded or incompletely synthesized protein breakdown" [] exact_synonym: "misfolded or incompletely synthesized protein degradation" [] is_a: GO:0051603 ! proteolysis during cellular protein catabolism [Term] id: GO:0006516 name: glycoprotein catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glycoproteins, any protein that contains covalently bound glycose (i.e. monosaccharide) residues other than as a moiety of nucleic acid; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "glycoprotein breakdown" [] exact_synonym: "glycoprotein degradation" [] is_a: GO:0009100 ! glycoprotein metabolism [Term] id: GO:0006517 name: protein deglycosylation namespace: biological_process def: "The removal of sugar residues from a glycosylated protein." [GOC:mah] subset: gosubset_prok relationship: part_of GO:0006516 ! glycoprotein catabolism [Term] id: GO:0006518 name: peptide metabolism namespace: biological_process def: "The chemical reactions and pathways involving peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another." [GOC:go_curators, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006519 name: amino acid and derivative metabolism namespace: biological_process def: "The chemical reactions and pathways involving amino acids, organic acids containing one or more amino substituents, and compounds derived from amino acids." [ISBN:0198506732] subset: goslim_generic subset: goslim_goa subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism is_a: GO:0044238 ! primary metabolism [Term] id: GO:0006520 name: amino acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving amino acids, organic acids containing one or more amino substituents." [ISBN:0198506732] subset: gosubset_prok narrow_synonym: "free L-amino acid racemization" [] is_a: GO:0006519 ! amino acid and derivative metabolism is_a: GO:0009308 ! amine metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006521 name: regulation of amino acid metabolism namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amino acids." [GOC:go_curators] subset: gosubset_prok is_a: GO:0031323 ! regulation of cellular metabolism relationship: part_of GO:0006520 ! amino acid metabolism [Term] id: GO:0006522 name: alanine metabolism namespace: biological_process def: "The chemical reactions and pathways involving alanine, 2-aminopropanoic acid." [GOC:go_curators] subset: gosubset_prok xref_analog: Reactome:70525 is_a: GO:0009078 ! pyruvate family amino acid metabolism [Term] id: GO:0006523 name: alanine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of alanine, 2-aminopropanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "alanine anabolism" [] exact_synonym: "alanine formation" [] exact_synonym: "alanine synthesis" [] is_a: GO:0006522 ! alanine metabolism is_a: GO:0009079 ! pyruvate family amino acid biosynthesis [Term] id: GO:0006524 name: alanine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of alanine, 2-aminopropanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "alanine breakdown" [] exact_synonym: "alanine degradation" [] is_a: GO:0006522 ! alanine metabolism is_a: GO:0009080 ! pyruvate family amino acid catabolism [Term] id: GO:0006525 name: arginine metabolism namespace: biological_process def: "The chemical reactions and pathways involving arginine, 2-amino-5-guanidinopentanoic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0000051 ! urea cycle intermediate metabolism is_a: GO:0009064 ! glutamine family amino acid metabolism [Term] id: GO:0006526 name: arginine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of arginine, 2-amino-5-guanidinopentanoic acid, a chiral alpha-amino acid found in peptide linkage in proteins." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "arginine anabolism" [] exact_synonym: "arginine formation" [] exact_synonym: "arginine synthesis" [] xref_analog: MetaCyc:ARGININE-SYN4-PWY xref_analog: MetaCyc:ARGSYN-PWY xref_analog: MetaCyc:ARGSYN-SHORT-PWY xref_analog: MetaCyc:ARGSYNBSUB-PWY is_a: GO:0006525 ! arginine metabolism is_a: GO:0009084 ! glutamine family amino acid biosynthesis [Term] id: GO:0006527 name: arginine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of arginine, 2-amino-5-guanidinopentanoic acid, a chiral alpha-amino acid found in peptide linkage in proteins." [GOC:go_curators] subset: gosubset_prok exact_synonym: "arginine breakdown" [] exact_synonym: "arginine degradation" [] is_a: GO:0006525 ! arginine metabolism is_a: GO:0009065 ! glutamine family amino acid catabolism [Term] id: GO:0006528 name: asparagine metabolism namespace: biological_process def: "The chemical reactions and pathways involving asparagine, 2-amino-3-carbamoylpropanoic acid." [GOC:go_curators] subset: gosubset_prok xref_analog: MetaCyc:ASPARAGINESYN-PWY is_a: GO:0009066 ! aspartate family amino acid metabolism [Term] id: GO:0006529 name: asparagine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of asparagine, 2-amino-3-carbamoylpropanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "asparagine anabolism" [] exact_synonym: "asparagine formation" [] exact_synonym: "asparagine synthesis" [] is_a: GO:0006528 ! asparagine metabolism is_a: GO:0009067 ! aspartate family amino acid biosynthesis [Term] id: GO:0006530 name: asparagine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of asparagine, 2-amino-3-carbamoylpropanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "asparagine breakdown" [] exact_synonym: "asparagine degradation" [] xref_analog: MetaCyc:ASPARAGINE-DEG1-PWY is_a: GO:0006528 ! asparagine metabolism is_a: GO:0009065 ! glutamine family amino acid catabolism is_a: GO:0009068 ! aspartate family amino acid catabolism [Term] id: GO:0006531 name: aspartate metabolism namespace: biological_process def: "The chemical reactions and pathways involving aspartate, the anion derived from aspartic acid, 2-aminobutanedioic acid." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok is_a: GO:0009066 ! aspartate family amino acid metabolism [Term] id: GO:0006532 name: aspartate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aspartate, the anion derived from aspartic acid, 2-aminobutanedioic acid." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "aspartate anabolism" [] exact_synonym: "aspartate formation" [] exact_synonym: "aspartate synthesis" [] xref_analog: MetaCyc:ASPBIO-PWY is_a: GO:0006531 ! aspartate metabolism is_a: GO:0009067 ! aspartate family amino acid biosynthesis [Term] id: GO:0006533 name: aspartate catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of aspartate, the anion derived from aspartic acid, 2-aminobutanedioic acid." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "aspartate breakdown" [] exact_synonym: "aspartate degradation" [] is_a: GO:0006531 ! aspartate metabolism is_a: GO:0009068 ! aspartate family amino acid catabolism [Term] id: GO:0006534 name: cysteine metabolism namespace: biological_process def: "The chemical reactions and pathways involving cysteine, 2-amino-3-mercaptopropanoic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0000096 ! sulfur amino acid metabolism is_a: GO:0009069 ! serine family amino acid metabolism [Term] id: GO:0006535 name: cysteine biosynthesis from serine namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cysteine from other compounds, including serine." [GOC:go_curators] subset: gosubset_prok exact_synonym: "cysteine anabolism from serine" [] exact_synonym: "cysteine formation from serine" [] exact_synonym: "cysteine synthesis from serine" [] xref_analog: MetaCyc:CYSTSYN-PWY is_a: GO:0006563 ! L-serine metabolism is_a: GO:0019344 ! cysteine biosynthesis [Term] id: GO:0006536 name: glutamate metabolism namespace: biological_process def: "The chemical reactions and pathways involving glutamate, the anion of 2-aminopentanedioic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glutamic acid metabolism" [] is_a: GO:0009064 ! glutamine family amino acid metabolism [Term] id: GO:0006537 name: glutamate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glutamate, the anion of 2-aminopentanedioic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glutamate anabolism" [] exact_synonym: "glutamate formation" [] exact_synonym: "glutamate synthesis" [] exact_synonym: "glutamic acid biosynthesis" [] narrow_synonym: "glutamate biosynthesis, using glutamate dehydrogenase (NAD(P)+)" [] narrow_synonym: "glutamate biosynthesis, using glutamate synthase (NADPH)" [] is_a: GO:0006536 ! glutamate metabolism is_a: GO:0009084 ! glutamine family amino acid biosynthesis [Term] id: GO:0006538 name: glutamate catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glutamate, the anion of 2-aminopentanedioic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glutamate breakdown" [] exact_synonym: "glutamate degradation" [] exact_synonym: "glutamic acid catabolism" [] is_a: GO:0006536 ! glutamate metabolism is_a: GO:0009065 ! glutamine family amino acid catabolism [Term] id: GO:0006539 name: glutamate catabolism via 2-oxoglutarate namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glutamate, via the intermediate 2-oxoglutarate." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glutamate breakdown via 2-oxoglutarate" [] exact_synonym: "glutamate catabolism via 2-ketoglutarate" [] exact_synonym: "glutamate catabolism via alpha-ketoglutarate" [] exact_synonym: "glutamate catabolism via alpha-oxoglutarate" [] exact_synonym: "glutamate degradation via 2-oxoglutarate" [] xref_analog: MetaCyc:GLUTAMINE-DEG1-PWY is_a: GO:0006103 ! 2-oxoglutarate metabolism is_a: GO:0006538 ! glutamate catabolism [Term] id: GO:0006540 name: glutamate decarboxylation to succinate namespace: biological_process subset: gosubset_prok xref_analog: MetaCyc:GLUDEG-I-PWY is_a: GO:0006105 ! succinate metabolism is_a: GO:0006538 ! glutamate catabolism [Term] id: GO:0006541 name: glutamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving glutamine, 2-amino-4-carbamoylbutanoic acid." [GOC:ai] subset: gosubset_prok is_a: GO:0009064 ! glutamine family amino acid metabolism [Term] id: GO:0006542 name: glutamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glutamine, 2-amino-4-carbamoylbutanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "glutamine anabolism" [] exact_synonym: "glutamine formation" [] exact_synonym: "glutamine synthesis" [] xref_analog: MetaCyc:GLNSYN-PWY xref_analog: MetaCyc:GLUTAMINE-SYN2-PWY is_a: GO:0006541 ! glutamine metabolism is_a: GO:0009084 ! glutamine family amino acid biosynthesis [Term] id: GO:0006543 name: glutamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glutamine, 2-amino-4-carbamoylbutanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "glutamine breakdown" [] exact_synonym: "glutamine degradation" [] is_a: GO:0006541 ! glutamine metabolism is_a: GO:0009065 ! glutamine family amino acid catabolism [Term] id: GO:0006544 name: glycine metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycine, aminoethanoic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0009069 ! serine family amino acid metabolism [Term] id: GO:0006545 name: glycine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycine, aminoethanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glycine anabolism" [] exact_synonym: "glycine formation" [] exact_synonym: "glycine synthesis" [] xref_analog: MetaCyc:GLYCINE-SYN2-PWY is_a: GO:0006544 ! glycine metabolism is_a: GO:0009070 ! serine family amino acid biosynthesis [Term] id: GO:0006546 name: glycine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glycine, aminoethanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glycine breakdown" [] exact_synonym: "glycine degradation" [] is_a: GO:0006544 ! glycine metabolism is_a: GO:0009071 ! serine family amino acid catabolism [Term] id: GO:0006547 name: histidine metabolism namespace: biological_process def: "The chemical reactions and pathways involving histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0009075 ! histidine family amino acid metabolism [Term] id: GO:0006548 name: histidine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "histidine breakdown" [] exact_synonym: "histidine degradation" [] xref_analog: Reactome:70921 is_a: GO:0006547 ! histidine metabolism is_a: GO:0009077 ! histidine family amino acid catabolism [Term] id: GO:0006549 name: isoleucine metabolism namespace: biological_process def: "The chemical reactions and pathways involving isoleucine, (2R*,3R*)-2-amino-3-methylpentanoic acid." [GOC:ai] subset: gosubset_prok is_a: GO:0009081 ! branched chain family amino acid metabolism [Term] id: GO:0006550 name: isoleucine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of isoleucine, (2R*,3R*)-2-amino-3-methylpentanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "isoleucine breakdown" [] exact_synonym: "isoleucine degradation" [] xref_analog: MetaCyc:ILEU-DEG2-PWY xref_analog: MetaCyc:ILEUDEG-PWY xref_analog: Reactome:70845 is_a: GO:0006549 ! isoleucine metabolism is_a: GO:0009083 ! branched chain family amino acid catabolism [Term] id: GO:0006551 name: leucine metabolism namespace: biological_process def: "The chemical reactions and pathways involving leucine, 2-amino-4-methylpentanoic acid." [GOC:ai] subset: gosubset_prok is_a: GO:0009081 ! branched chain family amino acid metabolism [Term] id: GO:0006552 name: leucine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of leucine, 2-amino-4-methylpentanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "leucine breakdown" [] exact_synonym: "leucine degradation" [] xref_analog: MetaCyc:LEU-DEG2-PWY xref_analog: MetaCyc:LEUDEG-PWY xref_analog: Reactome:70793 is_a: GO:0006551 ! leucine metabolism is_a: GO:0009083 ! branched chain family amino acid catabolism [Term] id: GO:0006553 name: lysine metabolism namespace: biological_process def: "The chemical reactions and pathways involving lysine, 2,6-diaminohexanoic acid." [GOC:go_curators] subset: gosubset_prok is_a: GO:0009066 ! aspartate family amino acid metabolism [Term] id: GO:0006554 name: lysine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of lysine, 2,6-diaminohexanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "lysine breakdown" [] exact_synonym: "lysine degradation" [] xref_analog: Reactome:71064 is_a: GO:0006553 ! lysine metabolism is_a: GO:0009068 ! aspartate family amino acid catabolism [Term] id: GO:0006555 name: methionine metabolism namespace: biological_process def: "The chemical reactions and pathways involving methionine (2-amino-4-(methylthio)butanoic acid), a sulfur-containing, essential amino acid found in peptide linkage in proteins." [GOC:jl, ISBN:0198506732] subset: gosubset_prok broad_synonym: "methionine and threonine metabolism" [] xref_analog: UM-BBD_pathwayID:met is_a: GO:0000096 ! sulfur amino acid metabolism is_a: GO:0009066 ! aspartate family amino acid metabolism [Term] id: GO:0006556 name: S-adenosylmethionine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "S-adenosyl methionine biosynthesis" [] exact_synonym: "S-adenosylmethionine anabolism" [] exact_synonym: "S-adenosylmethionine formation" [] exact_synonym: "S-adenosylmethionine synthesis" [] xref_analog: MetaCyc:PWY-802 xref_analog: MetaCyc:SAM-PWY is_a: GO:0044272 ! sulfur compound biosynthesis is_a: GO:0046500 ! S-adenosylmethionine metabolism relationship: part_of GO:0000097 ! sulfur amino acid biosynthesis relationship: part_of GO:0006730 ! one-carbon compound metabolism [Term] id: GO:0006557 name: S-adenosylmethioninamine biosynthesis namespace: biological_process alt_id: GO:0006745 def: "The chemical reactions and pathways resulting in the formation of S-adenosylmethioninamine, (5-deoxy-5-adenosyl)(3-aminopropyl) methylsulfonium salt." [GOC:mah, MetaCyc:S-ADENOSYLMETHIONINAMINE] subset: gosubset_prok exact_synonym: "S-adenosylmethioninamine anabolism" [] exact_synonym: "S-adenosylmethioninamine formation" [] exact_synonym: "S-adenosylmethioninamine synthesis" [] is_a: GO:0006743 ! ubiquinone metabolism is_a: GO:0018130 ! heterocycle biosynthesis is_a: GO:0019438 ! aromatic compound biosynthesis is_a: GO:0044272 ! sulfur compound biosynthesis is_a: GO:0046499 ! S-adenosylmethioninamine metabolism [Term] id: GO:0006558 name: L-phenylalanine metabolism namespace: biological_process def: "The chemical reactions and pathways involving L-phenylalanine, the levorotatory isomer of 2-amino-3-phenylpropanoic acid." [GOC:go_curators] subset: gosubset_prok broad_synonym: "phenylalanine metabolism" [] is_a: GO:0009072 ! aromatic amino acid family metabolism [Term] id: GO:0006559 name: L-phenylalanine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of phenylalanine, 2-amino-3-phenylpropanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "L-phenylalanine breakdown" [] exact_synonym: "L-phenylalanine degradation" [] broad_synonym: "phenylalanine catabolism" [] xref_analog: Reactome:71182 is_a: GO:0006558 ! L-phenylalanine metabolism is_a: GO:0009074 ! aromatic amino acid family catabolism [Term] id: GO:0006560 name: proline metabolism namespace: biological_process def: "The chemical reactions and pathways involving proline (pyrrolidine-2-carboxylic acid), a chiral, cyclic, nonessential alpha-amino acid found in peptide linkage in proteins." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0009064 ! glutamine family amino acid metabolism [Term] id: GO:0006561 name: proline biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of proline (pyrrolidine-2-carboxylic acid), a chiral, cyclic, nonessential alpha-amino acid found in peptide linkage in proteins." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "proline anabolism" [] exact_synonym: "proline formation" [] exact_synonym: "proline synthesis" [] xref_analog: MetaCyc:PROLINE-SYN2-PWY xref_analog: MetaCyc:PROSYN-PWY xref_analog: Reactome:70665 is_a: GO:0006560 ! proline metabolism is_a: GO:0009084 ! glutamine family amino acid biosynthesis [Term] id: GO:0006562 name: proline catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of proline (pyrrolidine-2-carboxylic acid), a chiral, cyclic, nonessential alpha-amino acid found in peptide linkage in proteins." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "proline breakdown" [] exact_synonym: "proline degradation" [] xref_analog: Reactome:70688 is_a: GO:0006560 ! proline metabolism is_a: GO:0009065 ! glutamine family amino acid catabolism [Term] id: GO:0006563 name: L-serine metabolism namespace: biological_process def: "The chemical reactions and pathways involving L-serine, the levorotatory isomer of 2-amino-3-hydroxypropanoic acid." [GOC:ai] subset: gosubset_prok is_a: GO:0009069 ! serine family amino acid metabolism [Term] id: GO:0006564 name: L-serine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of L-serine, the levorotatory isomer of 2-amino-3-hydroxypropanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "L-serine anabolism" [] exact_synonym: "L-serine formation" [] exact_synonym: "L-serine synthesis" [] xref_analog: MetaCyc:SERGLYSII-PWY xref_analog: MetaCyc:SERSYN-PWY is_a: GO:0006563 ! L-serine metabolism is_a: GO:0009070 ! serine family amino acid biosynthesis [Term] id: GO:0006565 name: L-serine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of L-serine, the levorotatory isomer of 2-amino-3-hydroxypropanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "L-serine breakdown" [] exact_synonym: "L-serine degradation" [] xref_analog: MetaCyc:SERDEG-PWY is_a: GO:0006563 ! L-serine metabolism is_a: GO:0009071 ! serine family amino acid catabolism [Term] id: GO:0006566 name: threonine metabolism namespace: biological_process def: "The chemical reactions and pathways involving threonine (2-amino-3-hydroxybutyric acid), a polar, uncharged, essential amino acid found in peptide linkage in proteins." [GOC:jl, ISBN:0198506732] subset: gosubset_prok broad_synonym: "methionine and threonine metabolism" [] xref_analog: UM-BBD_pathwayID:met is_a: GO:0009066 ! aspartate family amino acid metabolism [Term] id: GO:0006567 name: threonine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of threonine (2-amino-3-hydroxybutyric acid), a polar, uncharged, essential amino acid found in peptide linkage in proteins." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "threonine breakdown" [] exact_synonym: "threonine degradation" [] xref_analog: MetaCyc:THREOCAT-PWY xref_analog: UM-BBD_pathwayID:met is_a: GO:0006566 ! threonine metabolism is_a: GO:0009068 ! aspartate family amino acid catabolism [Term] id: GO:0006568 name: tryptophan metabolism namespace: biological_process def: "The chemical reactions and pathways involving tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0006586 ! indolalkylamine metabolism is_a: GO:0009072 ! aromatic amino acid family metabolism [Term] id: GO:0006569 name: tryptophan catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "tryptophan breakdown" [] exact_synonym: "tryptophan degradation" [] narrow_synonym: "tryptophan catabolism, using tryptophanase" [] xref_analog: Reactome:71240 is_a: GO:0006568 ! tryptophan metabolism is_a: GO:0009074 ! aromatic amino acid family catabolism is_a: GO:0046218 ! indolalkylamine catabolism [Term] id: GO:0006570 name: tyrosine metabolism namespace: biological_process def: "The chemical reactions and pathways involving tyrosine, an aromatic amino acid, 2-amino-3-(4-hydroxyphenyl)propanoic acid." [GOC:go_curators] subset: gosubset_prok xref_analog: UM-BBD_pathwayID:tyr is_a: GO:0009072 ! aromatic amino acid family metabolism [Term] id: GO:0006571 name: tyrosine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of tyrosine, an aromatic amino acid, 2-amino-3-(4-hydroxyphenyl)propanoic acid." [GOC:sm] subset: gosubset_prok exact_synonym: "tyrosine anabolism" [] exact_synonym: "tyrosine formation" [] exact_synonym: "tyrosine synthesis" [] is_a: GO:0006570 ! tyrosine metabolism is_a: GO:0009423 ! chorismate biosynthesis [Term] id: GO:0006572 name: tyrosine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of tyrosine, an aromatic amino acid, 2-amino-3-(4-hydroxyphenyl)propanoic acid." [GOC:go_curators] subset: gosubset_prok exact_synonym: "tyrosine breakdown" [] exact_synonym: "tyrosine degradation" [] is_a: GO:0006570 ! tyrosine metabolism is_a: GO:0009074 ! aromatic amino acid family catabolism [Term] id: GO:0006573 name: valine metabolism namespace: biological_process def: "The chemical reactions and pathways involving valine, 2-amino-3-methylbutanoic acid." [GOC:ai] subset: gosubset_prok is_a: GO:0009081 ! branched chain family amino acid metabolism [Term] id: GO:0006574 name: valine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of valine, 2-amino-3-methylbutanoic acid." [GOC:ai] subset: gosubset_prok exact_synonym: "valine breakdown" [] exact_synonym: "valine degradation" [] xref_analog: MetaCyc:VAL-DEG2-PWY xref_analog: MetaCyc:VALDEG-PWY xref_analog: Reactome:70894 is_a: GO:0006573 ! valine metabolism is_a: GO:0009083 ! branched chain family amino acid catabolism [Term] id: GO:0006575 name: amino acid derivative metabolism namespace: biological_process def: "The chemical reactions and pathways involving compounds derived from amino acids, organic acids containing one or more amino substituents." [GOC:ai] subset: gosubset_prok is_a: GO:0006519 ! amino acid and derivative metabolism [Term] id: GO:0006576 name: biogenic amine metabolism namespace: biological_process def: "The chemical reactions and pathways involving any of a group of naturally occurring, biologically active amines, such as norepinephrine, histamine, and serotonin, many of which act as neurotransmitters." [GOC:jl, ISBN:0395825172] subset: gosubset_prok is_a: GO:0006575 ! amino acid derivative metabolism is_a: GO:0009308 ! amine metabolism [Term] id: GO:0006577 name: betaine metabolism namespace: biological_process def: "The chemical reactions and pathways involving any betaine, the N-trimethyl derivative of an amino acid." [GOC:mah, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006576 ! biogenic amine metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006578 name: betaine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any betaine, the N-trimethyl derivative of an amino acid." [GOC:mah, ISBN:0198506732] subset: gosubset_prok exact_synonym: "betaine anabolism" [] exact_synonym: "betaine formation" [] exact_synonym: "betaine synthesis" [] is_a: GO:0006577 ! betaine metabolism is_a: GO:0042401 ! biogenic amine biosynthesis [Term] id: GO:0006579 name: betaine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of any betaine, the N-trimethyl derivative of an amino acid." [GOC:mah, ISBN:0198506732] subset: gosubset_prok exact_synonym: "betaine breakdown" [] exact_synonym: "betaine degradation" [] is_a: GO:0006577 ! betaine metabolism is_a: GO:0042402 ! biogenic amine catabolism [Term] id: GO:0006580 name: ethanolamine metabolism namespace: biological_process alt_id: GO:0006645 def: "The chemical reactions and pathways involving ethanolamine (2-aminoethanol), an important water-soluble base of phospholipid (phosphatidylethanolamine)." [GOC:jl, ISBN:01928006X] subset: gosubset_prok is_a: GO:0006066 ! alcohol metabolism is_a: GO:0042439 ! ethanolamine and derivative metabolism [Term] id: GO:0006581 name: acetylcholine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of acetylcholine, the acetic acid ester of the organic base choline." [GOC:jl, ISBN:0192800752] exact_synonym: "acetylcholine breakdown" [] exact_synonym: "acetylcholine degradation" [] is_a: GO:0008291 ! acetylcholine metabolism is_a: GO:0042135 ! neurotransmitter catabolism is_a: GO:0042402 ! biogenic amine catabolism [Term] id: GO:0006582 name: melanin metabolism namespace: biological_process def: "The chemical reactions and pathways involving melanins, pigments largely of animal origin. High molecular weight polymers of indole quinone, they are irregular polymeric structures and are divided into three groups: allomelanins in the plant kingdom and eumelanins and phaeomelanins in the animal kingdom." [GOC:go_curators] subset: gosubset_prok is_a: GO:0042440 ! pigment metabolism [Term] id: GO:0006583 name: melanin biosynthesis from tyrosine namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of melanin from other compounds, including tyrosine." [GOC:go_curators] subset: gosubset_prok exact_synonym: "melanin anabolism from tyrosine" [] exact_synonym: "melanin formation from tyrosine" [] exact_synonym: "melanin synthesis from tyrosine" [] is_a: GO:0006570 ! tyrosine metabolism is_a: GO:0042438 ! melanin biosynthesis [Term] id: GO:0006584 name: catecholamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006576 ! biogenic amine metabolism is_a: GO:0018958 ! phenol metabolism [Term] id: GO:0006585 name: dopamine biosynthesis from tyrosine namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dopamine (3,4-dihydroxyphenylethylamine) from L-tyrosine, via the metabolic precursor 3,4-dihydroxy-L-phenylalanine (L-dopa). Dopamine is a catecholamine neurotransmitter and a metabolic precursor of norepinephrine and epinephrine." [GOC:bf, GOC:jl, ISBN:0198506732] exact_synonym: "dopamine anabolism from tyrosine" [] exact_synonym: "dopamine formation from tyrosine" [] exact_synonym: "dopamine synthesis from tyrosine" [] is_a: GO:0006570 ! tyrosine metabolism is_a: GO:0042416 ! dopamine biosynthesis [Term] id: GO:0006586 name: indolalkylamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving indolalkylamines, indole or indole derivatives containing a primary, secondary, or tertiary amine group." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok broad_synonym: "indolamine metabolism" [] is_a: GO:0006576 ! biogenic amine metabolism is_a: GO:0042434 ! indole derivative metabolism [Term] id: GO:0006587 name: serotonin biosynthesis from tryptophan namespace: biological_process def: "The chemical reactions and pathways resulting in the formation from tryptophan of serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] exact_synonym: "serotonin anabolism from tryptophan" [] exact_synonym: "serotonin formation from tryptophan" [] exact_synonym: "serotonin synthesis from tryptophan" [] is_a: GO:0006568 ! tryptophan metabolism is_a: GO:0042427 ! serotonin biosynthesis [Term] id: GO:0006588 name: tryptophan hydroxylase activation namespace: biological_process relationship: part_of GO:0006587 ! serotonin biosynthesis from tryptophan [Term] id: GO:0006589 name: octopamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of octopamine, 1-(p-hydroxyphenyl)-2-aminoethanol. The D enantiomer is about one-tenth as active as norepihephrine and is found in the salivary glands of Octopus and Eledone species." [ISBN:0198506732] exact_synonym: "octopamine anabolism" [] exact_synonym: "octopamine formation" [] exact_synonym: "octopamine synthesis" [] is_a: GO:0042136 ! neurotransmitter biosynthesis is_a: GO:0042401 ! biogenic amine biosynthesis is_a: GO:0046333 ! octopamine metabolism [Term] id: GO:0006590 name: thyroid hormone generation namespace: biological_process def: "The formation of either of the compounds secreted by the thyroid gland, mainly thyroxine and triiodothyronine. This is achieved by the iodination and joining of tyrosine molecules to form the precursor thyroglobin, proteolysis of this precursor gives rise to the thyroid hormones." [GOC:jl, ISBN:0716720094] comment: Note that this term does not fall under the general GO definition for biosynthetic processes which is 'The chemical reactions and pathways resulting in the formation of... ', because thyroid hormones can only be formed by the proteolysis of a larger molecule (see term definition). The word 'generation' is therefore used in place of biosynthesis. is_a: GO:0042403 ! thyroid hormone metabolism [Term] id: GO:0006591 name: ornithine metabolism namespace: biological_process def: "The chemical reactions and pathways involving ornithine, an amino acid only rarely found in proteins, but which is important in living organisms as an intermediate in the reactions of the urea cycle and in arginine biosynthesis." [GOC:jl, ISBN:0192801023] subset: gosubset_prok xref_analog: Reactome:70693 is_a: GO:0000051 ! urea cycle intermediate metabolism is_a: GO:0019794 ! nonprotein amino acid metabolism [Term] id: GO:0006592 name: ornithine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ornithine, an amino acid only rarely found in proteins, but which is important in living organisms as an intermediate in the reactions of the urea cycle and in arginine biosynthesis." [GOC:jl, ISBN:0192801023] subset: gosubset_prok exact_synonym: "ornithine anabolism" [] exact_synonym: "ornithine formation" [] exact_synonym: "ornithine synthesis" [] xref_analog: MetaCyc:ORNSPNANA-PWY is_a: GO:0006591 ! ornithine metabolism is_a: GO:0019795 ! nonprotein amino acid biosynthesis [Term] id: GO:0006593 name: ornithine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ornithine, an amino acid only rarely found in proteins, but which is important in living organisms as an intermediate in the reactions of the urea cycle and in arginine biosynthesis." [GOC:jl, ISBN:0192801023] subset: gosubset_prok exact_synonym: "ornithine breakdown" [] exact_synonym: "ornithine degradation" [] is_a: GO:0006591 ! ornithine metabolism is_a: GO:0019796 ! nonprotein amino acid catabolism [Term] id: GO:0006595 name: polyamine metabolism namespace: biological_process def: "The chemical reactions and pathways involving polyamines, any organic compound containing two or more amino groups." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006576 ! biogenic amine metabolism [Term] id: GO:0006596 name: polyamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of polyamines, any organic compound containing two or more amino groups." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "polyamine anabolism" [] exact_synonym: "polyamine formation" [] exact_synonym: "polyamine synthesis" [] xref_analog: MetaCyc:POLYAMSYN-PWY is_a: GO:0006595 ! polyamine metabolism is_a: GO:0042401 ! biogenic amine biosynthesis [Term] id: GO:0006597 name: spermine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of spermine, a polybasic amine found in human sperm, in ribosomes and in some viruses and involved in nucleic acid packaging." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "spermine anabolism" [] exact_synonym: "spermine formation" [] exact_synonym: "spermine synthesis" [] xref_analog: MetaCyc:ORNSPNANA-PWY is_a: GO:0006596 ! polyamine biosynthesis is_a: GO:0008215 ! spermine metabolism [Term] id: GO:0006598 name: polyamine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of polyamines, any organic compound containing two or more amino groups." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "polyamine breakdown" [] exact_synonym: "polyamine degradation" [] is_a: GO:0006595 ! polyamine metabolism is_a: GO:0042402 ! biogenic amine catabolism [Term] id: GO:0006599 name: phosphagen metabolism namespace: biological_process def: "The chemical reactions and pathways involving phosphagen, any of a group of guanidine phosphates that occur in muscle and can be used to regenerate ATP from ADP during muscular contraction." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006575 ! amino acid derivative metabolism [Term] id: GO:0006600 name: creatine metabolism namespace: biological_process def: "The chemical reactions and pathways involving creatine (N-(aminoiminomethyl)-N-methylglycine), a compound synthesized from the amino acids arginine, glycine, and methionine that occurs in muscle." [GOC:jl, ISBN:0192801023] subset: gosubset_prok xref_analog: Reactome:71288 is_a: GO:0006599 ! phosphagen metabolism is_a: GO:0009308 ! amine metabolism is_a: GO:0019752 ! carboxylic acid metabolism [Term] id: GO:0006601 name: creatine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of creatine (N-(aminoiminomethyl)-N-methylglycine), a compound synthesized from the amino acids arginine, glycine, and methionine that occurs in muscle." [GOC:jl, ISBN:0192801023] subset: gosubset_prok exact_synonym: "creatine anabolism" [] exact_synonym: "creatine formation" [] exact_synonym: "creatine synthesis" [] is_a: GO:0006600 ! creatine metabolism is_a: GO:0042396 ! phosphagen biosynthesis [Term] id: GO:0006602 name: creatinine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of creatinine, 2-amino-1,5-dihydro-1-methyl-4H-imidazol-4-one, an end product of creatine metabolism and a normal constituent of urine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "creatinine breakdown" [] exact_synonym: "creatinine degradation" [] is_a: GO:0042397 ! phosphagen catabolism is_a: GO:0046449 ! creatinine metabolism [Term] id: GO:0006603 name: phosphocreatine metabolism namespace: biological_process def: "The chemical reactions and pathways involving phosphocreatine, a phosphagen of creatine present in high concentration in striated muscle which is synthesized and broken down by creatine phosphokinase to buffer ATP concentration. It acts as an immediate energy reserve for muscle." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006599 ! phosphagen metabolism [Term] id: GO:0006604 name: phosphoarginine metabolism namespace: biological_process def: "The chemical reactions and pathways involving phosphoarginine, a phosphagen of L-arginine with phosphoric acid containing the phosphoamide bond. It is a source of energy in the contraction of muscle in invertebrates, corresponding to phosphocreatine in the muscles of vertebrates." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0006599 ! phosphagen metabolism [Term] id: GO:0006605 name: protein targeting namespace: biological_process def: "The process of targeting specific proteins to particular membrane-bound subcellular organelles. Usually requires an organelle specific protein sequence motif." [GOC:ma] subset: gosubset_prok related_synonym: "nascent polypeptide association" [] is_a: GO:0006886 ! intracellular protein transport [Term] id: GO:0006606 name: protein import into nucleus namespace: biological_process def: "The directed movement of a protein from the cytoplasm to the nucleus." [GOC:jl] related_synonym: "RAN small monomeric GTPase activity" [] exact_synonym: "protein nucleus import" [] exact_synonym: "protein transport from cytoplasm to nucleus" [] is_a: GO:0006605 ! protein targeting is_a: GO:0017038 ! protein import is_a: GO:0051170 ! nuclear import [Term] id: GO:0006607 name: NLS-bearing substrate import into nucleus namespace: biological_process def: "The directed movement of a protein bearing a nuclear localization signal (NLS) from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai] exact_synonym: "NLS-bearing substrate transport from cytoplasm to nucleus" [] exact_synonym: "NLS-bearing substrate-nucleus import" [] is_a: GO:0006606 ! protein import into nucleus [Term] id: GO:0006608 name: snRNP protein import into nucleus namespace: biological_process def: "The directed movement of a small nuclear ribonucleoprotein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai] exact_synonym: "snRNP protein transport from cytoplasm to nucleus" [] exact_synonym: "snRNP protein-nucleus import" [] is_a: GO:0006606 ! protein import into nucleus [Term] id: GO:0006609 name: mRNA-binding (hnRNP) protein import into nucleus namespace: biological_process exact_synonym: "mRNA-binding (hnRNP) protein transport from cytoplasm to nucleus" [] exact_synonym: "mRNA-binding (hnRNP) protein-nucleus import" [] is_a: GO:0006606 ! protein import into nucleus [Term] id: GO:0006610 name: ribosomal protein import into nucleus namespace: biological_process def: "The directed movement of a ribosomal protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai] exact_synonym: "ribosomal protein transport from cytoplasm to nucleus" [] exact_synonym: "ribosomal protein-nucleus import" [] is_a: GO:0006606 ! protein import into nucleus [Term] id: GO:0006611 name: protein export from nucleus namespace: biological_process def: "The directed movement of a protein from the nucleus into the cytoplasm." [GOC:jl] exact_synonym: "protein export out of nucleus" [] exact_synonym: "protein transport from nucleus to cytoplasm" [] exact_synonym: "protein-nucleus export" [] is_a: GO:0006605 ! protein targeting is_a: GO:0051168 ! nuclear export [Term] id: GO:0006612 name: protein targeting to membrane namespace: biological_process def: "The process of directing proteins towards a membrane using signals contained within the protein." [http://cancerweb.ncl.ac.uk/] exact_synonym: "protein membrane targeting" [] exact_synonym: "protein-membrane targeting" [] is_a: GO:0006605 ! protein targeting [Term] id: GO:0006613 name: cotranslational protein targeting to membrane namespace: biological_process def: "The targeting of proteins to a membrane that occurs during translation. The transport of most secretory proteins, particularly those with more than 100 amino acids, into the endoplasmic reticulum lumen occurs in this manner." [ISBN:0716731363] exact_synonym: "cotranslational membrane targeting" [] exact_synonym: "cotranslational protein membrane targeting" [] exact_synonym: "cotranslational protein-membrane targeting" [] is_a: GO:0006612 ! protein targeting to membrane is_a: GO:0045047 ! protein targeting to ER [Term] id: GO:0006614 name: SRP-dependent cotranslational protein targeting to membrane namespace: biological_process def: "The targeting of proteins to a membrane that occurs during translation and is dependent upon two key components, the signal-recognition particle (SRP) and the SRP receptor. SRP is a cytosolic particle that transiently binds to the endoplasmic reticulum (ER) signal sequence in a nascent protein, to the large ribosomal unit, and to the SRP receptor in the ER membrane." [ISBN:0716731363] exact_synonym: "SRP-dependent cotranslational membrane targeting" [] exact_synonym: "SRP-dependent cotranslational protein-membrane targeting" [] broad_synonym: "ER translocation" [] is_a: GO:0006613 ! cotranslational protein targeting to membrane [Term] id: GO:0006615 name: SRP-dependent cotranslational protein targeting to membrane, docking namespace: biological_process def: "The process by which an SRP-bound ribosome forms a complex with the SRP receptor in the ER membrane, allowing the ribosome to bind to the membrane, during cotranslational membrane targeting." [ISBN:0815316194] exact_synonym: "protein docking during SRP-dependent cotranslational protein targeting to membrane" [] exact_synonym: "SRP-dependent cotranslational membrane targeting, docking" [] exact_synonym: "SRP-dependent cotranslational protein-membrane targeting, docking" [] relationship: part_of GO:0006614 ! SRP-dependent cotranslational protein targeting to membrane [Term] id: GO:0006616 name: SRP-dependent cotranslational protein targeting to membrane, translocation namespace: biological_process def: "The process during cotranslational membrane targeting wherein proteins move across a membrane. SRP and its receptor initiate the transfer of the nascent chain across the endoplasmic reticulum (ER) membrane; they then dissociate from the chain, which is transferred to a set of transmembrane proteins, collectively called the translocon. Once the nascent chain translocon complex is assembled, the elongating chain passes directly from the large ribosomal subunit into the centers of the translocon, a protein-lined channel within the membrane. The growing chain is never exposed to the cytosol and does not fold until it reaches the ER lumen." [ISBN:0716731363] exact_synonym: "SRP-dependent cotranslational membrane targeting, translocation" [] exact_synonym: "SRP-dependent cotranslational protein-membrane targeting, translocation" [] exact_synonym: "translocation during SRP-dependent cotranslational protein targeting to membrane" [] broad_synonym: "ER translocation" [] relationship: part_of GO:0006614 ! SRP-dependent cotranslational protein targeting to membrane [Term] id: GO:0006617 name: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition namespace: biological_process def: "The process by which SRP binds to the signal peptide in a nascent protein, causing protein elongation to pause, during cotranslational membrane targeting." [ISBN:0815316194] exact_synonym: "signal sequence recognition during SRP-dependent cotranslational protein targeting to membrane" [] exact_synonym: "SRP-dependent cotranslational membrane targeting, signal sequence recognition" [] exact_synonym: "SRP-dependent cotranslational protein-membrane targeting, signal sequence recognition" [] relationship: part_of GO:0006614 ! SRP-dependent cotranslational protein targeting to membrane [Term] id: GO:0006618 name: SRP-dependent cotranslational protein targeting to membrane, signal sequence processing namespace: biological_process def: "The removal of the signal peptide from a nascent protein during cotranslational membrane targeting." [ISBN:0815316194] exact_synonym: "signal sequence processing during SRP-dependent cotranslational protein targeting to membrane" [] exact_synonym: "SRP-dependent cotranslational membrane targeting, signal sequence processing" [] exact_synonym: "SRP-dependent cotranslational protein-membrane targeting, signal sequence processing" [] relationship: part_of GO:0006614 ! SRP-dependent cotranslational protein targeting to membrane [Term] id: GO:0006619 name: SRP-independent cotranslational protein-membrane targeting namespace: biological_process def: "OBSOLETE. The targeting of proteins to a membrane that occurs during translation and is independent of SRP and signal recognition." [GOC:ai, PMID:11101515] comment: This term was made obsolete because there is no evidence for the existence of this process. exact_synonym: "SRP-independent cotranslational membrane targeting" [] broad_synonym: "ER translocation" [] is_obsolete: true [Term] id: GO:0006620 name: posttranslational protein targeting to membrane namespace: biological_process def: "The targeting of proteins to a membrane that occurs after their translation. Some secretory proteins exhibit posttranslational transport into the endoplasmic reticulum (ER) lumen: they are synthesized in their entirety on free cytosolic ribosomes and then released into the cytosol, where they are bound by chaperones which keep them in an unfolded state, and subsequently are translocated across the ER membrane." [ISBN:0716731363] exact_synonym: "posttranslational membrane targeting" [] exact_synonym: "posttranslational protein membrane targeting" [] exact_synonym: "posttranslational protein-membrane targeting" [] exact_synonym: "SRP-independent protein-membrane targeting" [] is_a: GO:0006612 ! protein targeting to membrane is_a: GO:0045047 ! protein targeting to ER [Term] id: GO:0006621 name: protein retention in ER namespace: biological_process def: "The retention in the endoplasmic reticulum (ER) lumen of soluble resident proteins. Sorting receptors retrieve proteins with ER localization signals, such as KDEL and HDEL sequences or some transmembrane domains, that have escaped to the cis-Golgi network and return them to the ER. Abnormally folded proteins and unassembled subunits are also selectively retained in the ER." [ISBN:0716731363, PMID:12972550] exact_synonym: "protein-endoplasmic reticulum retention" [] exact_synonym: "protein-ER retention" [] exact_synonym: "retention of protein in endoplasmic reticulum" [] exact_synonym: "retention of protein in ER" [] is_a: GO:0045185 ! maintenance of protein localization [Term] id: GO:0006622 name: protein targeting to lysosome namespace: biological_process def: "The process of directing proteins towards the lysosome using signals contained within the protein." [http://cancerweb.ncl.ac.uk/] exact_synonym: "protein-lysosome targeting" [] is_a: GO:0006605 ! protein targeting [Term] id: GO:0006623 name: protein targeting to vacuole namespace: biological_process def: "The process of directing proteins towards the vacuole using signals contained within the protein." [http://cancerweb.ncl.ac.uk/] exact_synonym: "protein vacuolar targeting" [] exact_synonym: "protein-vacuolar targeting" [] exact_synonym: "protein-vacuole targeting" [] is_a: GO:0006605 ! protein targeting [Term] id: GO:0006624 name: vacuolar protein processing or maturation namespace: biological_process is_a: GO:0016485 ! protein processing [Term] id: GO:0006625 name: protein targeting to peroxisome namespace: biological_process def: "The process of directing proteins towards the peroxisome using signals contained within the protein." [GOC:ai] exact_synonym: "protein-peroxisome targeting" [] is_a: GO:0006605 ! protein targeting relationship: part_of GO:0007031 ! peroxisome organization and biogenesis [Term] id: GO:0006626 name: protein targeting to mitochondrion namespace: biological_process def: "The process of directing proteins towards and into the mitochondrion, mediated by mitochondrial proteins that recognize signals contained within the imported protein." [GOC:mcc, ISBN:0716731363] related_synonym: "mitochondrial protein import" [] related_synonym: "mitochondrial translocation" [] exact_synonym: "protein targeting to mitochondria" [] exact_synonym: "protein-mitochondrial targeting" [] is_a: GO:0006605 ! protein targeting [Term] id: GO:0006627 name: mitochondrial protein processing namespace: biological_process def: "The cleavage of proteins, usually near the N terminus, during the process of import into the mitochondrion; several different peptidases mediate cleavage of proteins destined for different mitochondrial compartments." [GOC:mcc, PMID:12191769] exact_synonym: "mitochondrial processing" [] is_a: GO:0016485 ! protein processing relationship: part_of GO:0006626 ! protein targeting to mitochondrion [Term] id: GO:0006628 name: mitochondrial translocation namespace: biological_process def: "OBSOLETE. The translocation of proteins across the mitochondrial membrane. In the presence of a translocating chain, the outer membrane import machinery (MOM complex) and the inner membrane import machinery (MIM complex) form translocation contact sites as a part of the membrane preprotein import machinery." [PMID:7600576] comment: This term was made obsolete because its definition was equivalent to that of the biological process term 'mitochondrial matrix protein import ; GO:0030150' while the mitochondrial translocation has a broader meaning; this led to mis-annotation. To update annotations, consider the biological process term 'protein targeting to mitochondrion ; GO:0006626' and its children. is_obsolete: true [Term] id: GO:0006629 name: lipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma] subset: goslim_generic subset: goslim_plant subset: goslim_yeast subset: gosubset_prok is_a: GO:0044238 ! primary metabolism [Term] id: GO:0006630 name: lipid binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, consider the molecular function term 'lipid binding ; GO:0008289'. is_obsolete: true [Term] id: GO:0006631 name: fatty acid metabolism namespace: biological_process def: "The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis." [ISBN:0198547684] subset: gosubset_prok xref_analog: Reactome:166423 xref_analog: Reactome:170442 xref_analog: Reactome:173948 xref_analog: Reactome:177147 xref_analog: Reactome:76466 is_a: GO:0019752 ! carboxylic acid metabolism is_a: GO:0044255 ! cellular lipid metabolism [Term] id: GO:0006633 name: fatty acid biosynthesis namespace: biological_process alt_id: GO:0000037 def: "The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes." [GOC:mah, ISBN:0198506732] subset: gosubset_prok exact_synonym: "fatty acid anabolism" [] exact_synonym: "fatty acid formation" [] exact_synonym: "fatty acid synthesis" [] xref_analog: MetaCyc:FASYN-INITIAL-PWY is_a: GO:0006631 ! fatty acid metabolism is_a: GO:0008610 ! lipid biosynthesis is_a: GO:0046394 ! carboxylic acid biosynthesis [Term] id: GO:0006634 name: hexadecanal biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of hexadecanal, the C16 straight chain aldehyde." [http://chemfinder.cambridgesoft.com/] subset: gosubset_prok exact_synonym: "hexadecanal anabolism" [] exact_synonym: "hexadecanal formation" [] exact_synonym: "hexadecanal synthesis" [] exact_synonym: "palmitaldehyde biosynthesis" [] is_a: GO:0046184 ! aldehyde biosynthesis is_a: GO:0046458 ! hexadecanal metabolism [Term] id: GO:0006635 name: fatty acid beta-oxidation namespace: biological_process def: "The metabolic oxidation of a long-chain fatty acid by successive cycles of reactions during each of which the fatty acid is shortened by a two-carbon fragment removed as acetyl coenzyme A." [ISBN:0198506732] subset: gosubset_prok xref_analog: Reactome:109339 xref_analog: Reactome:109341 xref_analog: Reactome:109342 xref_analog: Reactome:109343 xref_analog: Reactome:109998 xref_analog: Reactome:115314 xref_analog: Reactome:115737 xref_analog: Reactome:117841 xref_analog: Reactome:118350 xref_analog: Reactome:118716 xref_analog: Reactome:118727 xref_analog: Reactome:118728 xref_analog: Reactome:120470 xref_analog: Reactome:120960 xref_analog: Reactome:121340 xref_analog: Reactome:121353 xref_analog: Reactome:121354 xref_analog: Reactome:122800 xref_analog: Reactome:123147 xref_analog: Reactome:123415 xref_analog: Reactome:123424 xref_analog: Reactome:123425 xref_analog: Reactome:125213 xref_analog: Reactome:125527 xref_analog: Reactome:125541 xref_analog: Reactome:125542 xref_analog: Reactome:166215 xref_analog: Reactome:167189 xref_analog: Reactome:170279 xref_analog: Reactome:171203 xref_analog: Reactome:171930 xref_analog: Reactome:171960 xref_analog: Reactome:171964 xref_analog: Reactome:174519 xref_analog: Reactome:175031 xref_analog: Reactome:175067 xref_analog: Reactome:175069 xref_analog: Reactome:176980 xref_analog: Reactome:177841 xref_analog: Reactome:178470 xref_analog: Reactome:178515 xref_analog: Reactome:178517 xref_analog: Reactome:180262 xref_analog: Reactome:180816 xref_analog: Reactome:181249 xref_analog: Reactome:77288 xref_analog: Reactome:77289 is_a: GO:0019395 ! fatty acid oxidation [Term] id: GO:0006636 name: fatty acid desaturation namespace: biological_process def: "The process by which a fatty acid becomes unsaturated (containing double bonds), for example by removal of two hydrogen atoms, or a hydrogen atom and a hydroxyl group, from adjacent carbon atoms." [ISBN:0198506732] subset: gosubset_prok xref_analog: MetaCyc:PWY-762 xref_analog: MetaCyc:PWY-782 is_a: GO:0006631 ! fatty acid metabolism [Term] id: GO:0006637 name: acyl-CoA metabolism namespace: biological_process def: "The chemical reactions and pathways involving acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in thiolester linkage with a fatty-acyl group." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006631 ! fatty acid metabolism is_a: GO:0006732 ! coenzyme metabolism [Term] id: GO:0006638 name: neutral lipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving neutral lipids, lipids only soluble in solvents of very low polarity." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0044255 ! cellular lipid metabolism [Term] id: GO:0006639 name: acylglycerol metabolism namespace: biological_process def: "The chemical reactions and pathways involving acylglycerol, any mono-, di- or triester of glycerol with (one or more) fatty acids." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "glyceride metabolism" [] is_a: GO:0006638 ! neutral lipid metabolism is_a: GO:0006662 ! glycerol ether metabolism is_a: GO:0046486 ! glycerolipid metabolism [Term] id: GO:0006640 name: monoacylglycerol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of monoacylglycerol, any ester of glycerol in which any one of its hydroxyl groups has been acylated with a fatty acid, the other being non-esterified." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "monoacylglycerol anabolism" [] exact_synonym: "monoacylglycerol formation" [] exact_synonym: "monoacylglycerol synthesis" [] exact_synonym: "monoglyceride biosynthesis" [] is_a: GO:0046462 ! monoacylglycerol metabolism is_a: GO:0046463 ! acylglycerol biosynthesis [Term] id: GO:0006641 name: triacylglycerol metabolism namespace: biological_process def: "The chemical reactions and pathways involving triacylglycerol, any triester of glycerol. The three fatty acid residues may all be the same or differ in any permutation. Triacylglycerols are important components of plant oils, animal fats and animal plasma lipoproteins." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "triglyceride metabolism" [] is_a: GO:0006639 ! acylglycerol metabolism [Term] id: GO:0006642 name: triacylglycerol mobilization namespace: biological_process subset: gosubset_prok exact_synonym: "triglyceride mobilization" [] is_a: GO:0006641 ! triacylglycerol metabolism [Term] id: GO:0006643 name: membrane lipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving membrane lipids, any lipid found in or associated with a biological membrane." [GOC:ai] subset: gosubset_prok is_a: GO:0044255 ! cellular lipid metabolism [Term] id: GO:0006644 name: phospholipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving phospholipids, any lipid containing phosphoric acid as a mono- or diester." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006643 ! membrane lipid metabolism [Term] id: GO:0006646 name: phosphatidylethanolamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidylethanolamine, any of a class of glycerophospholipids in which a phosphatidyl group is esterified to the hydroxyl group of ethanolamine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylethanolamine anabolism" [] exact_synonym: "phosphatidylethanolamine formation" [] exact_synonym: "phosphatidylethanolamine synthesis" [] is_a: GO:0008654 ! phospholipid biosynthesis is_a: GO:0046335 ! ethanolamine biosynthesis is_a: GO:0046337 ! phosphatidylethanolamine metabolism [Term] id: GO:0006647 name: phosphatidyl-N-monomethylethanolamine biosynthesis namespace: biological_process def: "The chemical reactions and pathways involving phosphatidyl-N-monomethylethanolamine (PMME), a derivative of phosphatidylethanolamine with a methylated amine group." [GOC:ai] subset: gosubset_prok exact_synonym: "phosphatidyl-N-monomethylethanolamine anabolism" [] exact_synonym: "phosphatidyl-N-monomethylethanolamine formation" [] exact_synonym: "phosphatidyl-N-monomethylethanolamine synthesis" [] exact_synonym: "PMME biosynthesis" [] is_a: GO:0006646 ! phosphatidylethanolamine biosynthesis is_a: GO:0046468 ! phosphatidyl-N-monomethylethanolamine metabolism [Term] id: GO:0006648 name: dihydrosphingosine-1-P pathway namespace: biological_process subset: gosubset_prok is_a: GO:0006646 ! phosphatidylethanolamine biosynthesis [Term] id: GO:0006649 name: phospholipid transfer to membrane namespace: biological_process def: "The transfer of a phospholipid from its site of synthesis to the plasma membrane." [GOC:go_curators] subset: gosubset_prok is_a: GO:0006644 ! phospholipid metabolism [Term] id: GO:0006650 name: glycerophospholipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycerophospholipids, any derivative of glycerophosphate that contains at least one O-acyl, O-alkyl, or O-alkenyl group attached to the glycerol residue." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphoglyceride metabolism" [] is_a: GO:0006644 ! phospholipid metabolism [Term] id: GO:0006651 name: diacylglycerol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of diacylglycerol, a glycerol molecule substituted on the 1 and 2 hydroxyl groups with long chain fatty acyl residues." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "diacylglycerol anabolism" [] exact_synonym: "diacylglycerol formation" [] exact_synonym: "diacylglycerol synthesis" [] is_a: GO:0046339 ! diacylglycerol metabolism is_a: GO:0046463 ! acylglycerol biosynthesis [Term] id: GO:0006652 name: alpha-glycerophosphate pathway namespace: biological_process subset: gosubset_prok is_a: GO:0006650 ! glycerophospholipid metabolism [Term] id: GO:0006653 name: lecithin metabolism namespace: biological_process def: "The chemical reactions and pathways involving lecithin, any 3-sn-phosphatidylcholine." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0046470 ! phosphatidylcholine metabolism [Term] id: GO:0006654 name: phosphatidic acid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidic acid, any derivative of glycerol phosphate in which both the remaining hydroxyl groups of the glycerol moiety are esterified with fatty acids." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidic acid anabolism" [] exact_synonym: "phosphatidic acid formation" [] exact_synonym: "phosphatidic acid synthesis" [] xref_analog: MetaCyc:PHOSACIDSYN-PWY is_a: GO:0046394 ! carboxylic acid biosynthesis is_a: GO:0046473 ! phosphatidic acid metabolism is_a: GO:0046474 ! glycerophospholipid biosynthesis [Term] id: GO:0006655 name: phosphatidylglycerol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidylglycerols, any of a class of phospholipids in which the phosphatidyl group is esterified to the hydroxyl group of glycerol." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylglycerol anabolism" [] exact_synonym: "phosphatidylglycerol formation" [] exact_synonym: "phosphatidylglycerol synthesis" [] is_a: GO:0046471 ! phosphatidylglycerol metabolism is_a: GO:0046474 ! glycerophospholipid biosynthesis [Term] id: GO:0006656 name: phosphatidylcholine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidylcholines, any of a class of glycerophospholipids in which the phosphatidyl group is esterified to the hydroxyl group of choline." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylcholine anabolism" [] exact_synonym: "phosphatidylcholine formation" [] exact_synonym: "phosphatidylcholine synthesis" [] is_a: GO:0046470 ! phosphatidylcholine metabolism is_a: GO:0046474 ! glycerophospholipid biosynthesis [Term] id: GO:0006657 name: CDP-choline pathway namespace: biological_process def: "The formation of phosphatidylcholines via the combination of CDP-choline with diacylglycerol." [ISBN:0471331309] subset: gosubset_prok is_a: GO:0006656 ! phosphatidylcholine biosynthesis [Term] id: GO:0006658 name: phosphatidylserine metabolism namespace: biological_process def: "The chemical reactions and pathways involving phosphatidylserines, any of a class of glycerophospholipids in which the phosphatidyl group is esterified to the hydroxyl group of L-serine. They are important constituents of cell membranes." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006650 ! glycerophospholipid metabolism [Term] id: GO:0006659 name: phosphatidylserine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidylserines, any of a class of glycerophospholipids in which the phosphatidyl group is esterified to the hydroxyl group of L-serine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylserine anabolism" [] exact_synonym: "phosphatidylserine formation" [] exact_synonym: "phosphatidylserine synthesis" [] is_a: GO:0006658 ! phosphatidylserine metabolism is_a: GO:0046474 ! glycerophospholipid biosynthesis [Term] id: GO:0006660 name: phosphatidylserine catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of phosphatidylserines, any of a class of glycerophospholipids in which the phosphatidyl group is esterified to the hydroxyl group of L-serine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylserine breakdown" [] exact_synonym: "phosphatidylserine degradation" [] is_a: GO:0006658 ! phosphatidylserine metabolism is_a: GO:0046475 ! glycerophospholipid catabolism [Term] id: GO:0006661 name: phosphatidylinositol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of phosphatidylinositol, any glycophospholipid with its sn-glycerol 3-phosphate residue is esterified to the 1-hydroxyl group of 1D-myo-inositol." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "phosphatidylinositol anabolism" [] exact_synonym: "phosphatidylinositol formation" [] exact_synonym: "phosphatidylinositol synthesis" [] is_a: GO:0046488 ! phosphatidylinositol metabolism is_a: GO:0046489 ! phosphoinositide biosynthesis [Term] id: GO:0006662 name: glycerol ether metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycerol ethers, any anhydride formed between two organic hydroxy compounds, one of which is glycerol." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006663 name: platelet activating factor biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of platelet activating factor, 1-O-alkyl-2-acetyl-sn-glycerol 3-phosphocholine, where alkyl = hexadecyl or octadecyl. Platelet activating factor is an inflammatory mediator released from a variety of cells in response to various stimuli." [ISBN:0198547684] exact_synonym: "PAF biosynthesis" [] exact_synonym: "platelet activating factor anabolism" [] exact_synonym: "platelet activating factor formation" [] exact_synonym: "platelet activating factor synthesis" [] is_a: GO:0008654 ! phospholipid biosynthesis is_a: GO:0046469 ! platelet activating factor metabolism [Term] id: GO:0006664 name: glycolipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycolipids, compounds containing (usually) 1-4 linked monosaccharide residues joined by a glycosyl linkage to a lipid." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0006643 ! membrane lipid metabolism [Term] id: GO:0006665 name: sphingolipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving sphingolipids, any of a class of lipids containing the long-chain amine diol sphingosine or a closely related base (a sphingoid)." [GOC:mah, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006643 ! membrane lipid metabolism [Term] id: GO:0006666 name: 3-keto-sphinganine metabolism namespace: biological_process def: "The chemical reactions and pathways involving 3-keto-sphinganine, a derivative of sphinganine with a ketone group at C3. It is an intermediate in the synthesis of sphingosine." [GOC:ai] subset: gosubset_prok exact_synonym: "3-keto-dihydrosphingosine metabolism" [] is_a: GO:0009308 ! amine metabolism is_a: GO:0042180 ! ketone metabolism is_a: GO:0046519 ! sphingoid metabolism [Term] id: GO:0006667 name: sphinganine metabolism namespace: biological_process def: "The chemical reactions and pathways involving sphinganine, D-erythro-2-amino-1,3-octadecanediol." [http://www.chem.qmul.ac.uk/iupac/lipid/lip1n2.html#p18] subset: gosubset_prok exact_synonym: "dihydrosphingosine metabolism" [] is_a: GO:0046519 ! sphingoid metabolism [Term] id: GO:0006668 name: sphinganine-1-phosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving sphinganine-1-phosphate, the phosphorylated derivative of D-erythro-2-amino-1,3-octadecanediol." [GOC:ai] subset: gosubset_prok exact_synonym: "dihydrosphingosine-1-phosphate metabolism" [] is_a: GO:0006667 ! sphinganine metabolism [Term] id: GO:0006669 name: sphinganine-1-phosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of sphinganine-1-phosphate, the phosphorylated derivative of D-erythro-2-amino-1,3-octadecanediol." [GOC:ai] subset: gosubset_prok exact_synonym: "dihydrosphingosine-1-phosphate biosynthesis" [] exact_synonym: "sphinganine-1-phosphate anabolism" [] exact_synonym: "sphinganine-1-phosphate formation" [] exact_synonym: "sphinganine-1-phosphate synthesis" [] is_a: GO:0006668 ! sphinganine-1-phosphate metabolism is_a: GO:0046511 ! sphinganine biosynthesis [Term] id: GO:0006670 name: sphingosine metabolism namespace: biological_process def: "The chemical reactions and pathways involving sphingosine (sphing-4-enine), trans-D-erytho-2-amino-octadec-4-ene-1,3-diol, a long chain amino diol sphingoid base that occurs in most sphingolipids in animal tissues." [GOC:ma, ISBN:0198506732] subset: gosubset_prok exact_synonym: "(4E)-sphing-4-enine metabolism" [] exact_synonym: "sphing-4-enine metabolism" [] is_a: GO:0006066 ! alcohol metabolism is_a: GO:0009308 ! amine metabolism is_a: GO:0046519 ! sphingoid metabolism [Term] id: GO:0006671 name: phytosphingosine metabolism namespace: biological_process def: "The chemical reactions and pathways involving phytosphingosine, (2S,3S,4R)-2-amino-1,3,4-octadecanetriol, a constituent of many plant sphingolipids." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0046519 ! sphingoid metabolism [Term] id: GO:0006672 name: ceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving ceramides, any N-acylated sphingoid." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0046519 ! sphingoid metabolism [Term] id: GO:0006673 name: inositolphosphoceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving inositolphosphoceramides, any lipid with a phosphodiester bridge between an inositol residue and the ceramide moiety." [http://www.chem.qmul.ac.uk/iupac/misc/glylp.html] subset: gosubset_prok is_a: GO:0006644 ! phospholipid metabolism is_a: GO:0006672 ! ceramide metabolism [Term] id: GO:0006674 name: inositol phosphorylceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving inositol phosphorylceramides, any lipid with a phosphodiester bridge between an inositol residue and the ceramide moiety. The phosphate-containing moiety is the trivalent -P(O)= and the ceramide moiety of this lipid consists of phytosphingosine and a hydroxy C26 fatty acid." [http://www.cyberlipid.org/] subset: gosubset_prok is_a: GO:0006673 ! inositolphosphoceramide metabolism [Term] id: GO:0006675 name: mannose inositol phosphoceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannose inositol phosphoceramide, any lipid with a phosphodiester bridge between an inositol residue and the ceramide moiety which contains a phosphoryl (-P(O)=) groups and a mannose derivative." [GOC:ai] subset: gosubset_prok exact_synonym: "mannose-inositol-P-ceramide (MIPC) metabolism" [] exact_synonym: "MIPC metabolism" [] is_a: GO:0006673 ! inositolphosphoceramide metabolism [Term] id: GO:0006676 name: mannosyl diphosphorylinositol ceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving mannosyl diphosphorylinositol ceramide, any lipid with a phosphodiester bridge between an inositol residue and the ceramide moiety which contains two phosphoryl (-P(O)=) groups and a mannose derivative." [GOC:ai] subset: gosubset_prok exact_synonym: "M(IP)2C metabolism" [] is_a: GO:0006673 ! inositolphosphoceramide metabolism [Term] id: GO:0006677 name: glycosylceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of a monosaccharide (or derivative) by a ceramide group." [GOC:ai, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006664 ! glycolipid metabolism is_a: GO:0006672 ! ceramide metabolism [Term] id: GO:0006678 name: glucosylceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving glucosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of glucose by a ceramide group. They are neutral glycolipids containing equimolar amounts of fatty acid, glucose, and sphingosine or a sphingosine derivative." [http://cancerweb.ncl.ac.uk/, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006677 ! glycosylceramide metabolism [Term] id: GO:0006679 name: glucosylceramide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glucosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of glucose by a ceramide group." [GOC:ai] subset: gosubset_prok exact_synonym: "glucosylceramide anabolism" [] exact_synonym: "glucosylceramide formation" [] exact_synonym: "glucosylceramide synthesis" [] is_a: GO:0006678 ! glucosylceramide metabolism is_a: GO:0046476 ! glycosylceramide biosynthesis [Term] id: GO:0006680 name: glucosylceramide catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glucosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of glucose by a ceramide group." [GOC:ai] subset: gosubset_prok exact_synonym: "glucosylceramide breakdown" [] exact_synonym: "glucosylceramide degradation" [] is_a: GO:0006678 ! glucosylceramide metabolism is_a: GO:0046477 ! glycosylceramide catabolism [Term] id: GO:0006681 name: galactosylceramide metabolism namespace: biological_process def: "The chemical reactions and pathways involving galactosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of galactose by a ceramide group." [GOC:ai] subset: gosubset_prok is_a: GO:0006677 ! glycosylceramide metabolism is_a: GO:0019374 ! galactolipid metabolism [Term] id: GO:0006682 name: galactosylceramide biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of galactosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of galactose by a ceramide group." [GOC:ai] subset: gosubset_prok exact_synonym: "galactosylceramide anabolism" [] exact_synonym: "galactosylceramide formation" [] exact_synonym: "galactosylceramide synthesis" [] is_a: GO:0006681 ! galactosylceramide metabolism is_a: GO:0019375 ! galactolipid biosynthesis is_a: GO:0046476 ! glycosylceramide biosynthesis [Term] id: GO:0006683 name: galactosylceramide catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of galactosylceramides, any compound formed by the replacement of the glycosidic hydroxyl group of a cyclic form of galactose by a ceramide group." [GOC:ai] subset: gosubset_prok exact_synonym: "galactosylceramide breakdown" [] exact_synonym: "galactosylceramide degradation" [] is_a: GO:0006681 ! galactosylceramide metabolism is_a: GO:0019376 ! galactolipid catabolism is_a: GO:0046477 ! glycosylceramide catabolism [Term] id: GO:0006684 name: sphingomyelin metabolism namespace: biological_process def: "The chemical reactions and pathways involving sphingomyelin, N-acyl-4-sphingenyl-1-O-phosphorylcholine, any of a class of phospholipids in which the amino group of sphingosine is in amide linkage with one of several fatty acids, while the terminal hydroxyl group of sphingosine is esterified to phosphorylcholine." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006644 ! phospholipid metabolism is_a: GO:0006665 ! sphingolipid metabolism [Term] id: GO:0006685 name: sphingomyelin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of sphingomyelin, N-acyl-4-sphingenyl-1-O-phosphorylcholine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sphingomyelin breakdown" [] exact_synonym: "sphingomyelin degradation" [] is_a: GO:0006684 ! sphingomyelin metabolism is_a: GO:0009395 ! phospholipid catabolism is_a: GO:0030149 ! sphingolipid catabolism [Term] id: GO:0006686 name: sphingomyelin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of sphingomyelin, N-acyl-4-sphingenyl-1-O-phosphorylcholine." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "sphingomyelin anabolism" [] exact_synonym: "sphingomyelin formation" [] exact_synonym: "sphingomyelin synthesis" [] is_a: GO:0006684 ! sphingomyelin metabolism is_a: GO:0008654 ! phospholipid biosynthesis is_a: GO:0030148 ! sphingolipid biosynthesis [Term] id: GO:0006687 name: glycosphingolipid metabolism namespace: biological_process def: "The chemical reactions and pathways involving glycosphingolipids, any compound with residues of sphingoid and at least one monosaccharide." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0006664 ! glycolipid metabolism is_a: GO:0006665 ! sphingolipid metabolism [Term] id: GO:0006688 name: glycosphingolipid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycosphingolipid, a compound with residues of sphingoid and at least one monosaccharide." [GOC:go_curators] subset: gosubset_prok exact_synonym: "glycosphingolipid anabolism" [] exact_synonym: "glycosphingolipid formation" [] exact_synonym: "glycosphingolipid synthesis" [] is_a: GO:0006687 ! glycosphingolipid metabolism is_a: GO:0009247 ! glycolipid biosynthesis is_a: GO:0030148 ! sphingolipid biosynthesis [Term] id: GO:0006689 name: ganglioside catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ganglioside, a ceramide oligosaccharide carrying, in addition to other sugar residues, one or more sialic residues." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "ganglioside breakdown" [] exact_synonym: "ganglioside degradation" [] is_a: GO:0001573 ! ganglioside metabolism is_a: GO:0046479 ! glycosphingolipid catabolism [Term] id: GO:0006690 name: icosanoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving icosanoids, any of a group of C20 polyunsaturated fatty acids." [GOC:ma] subset: gosubset_prok exact_synonym: "eicosanoid metabolism" [] is_a: GO:0006631 ! fatty acid metabolism [Term] id: GO:0006691 name: leukotriene metabolism namespace: biological_process def: "The chemical reactions and pathways involving leukotriene, a pharmacologically active substance derived from a polyunsaturated fatty acid, such as arachidonic acid." [GOC:ma] subset: gosubset_prok is_a: GO:0006690 ! icosanoid metabolism is_a: GO:0043449 ! alkene metabolism [Term] id: GO:0006692 name: prostanoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving prostanoids, any compound based on or derived from the prostanoate structure." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006690 ! icosanoid metabolism [Term] id: GO:0006693 name: prostaglandin metabolism namespace: biological_process def: "The chemical reactions and pathways involving prostaglandins, any of a group of biologically active metabolites which contain a cyclopentane ring due to the formation of a bond between two carbons of a fatty acid. They have a wide range of biological activities." [ISBN:0198506732] subset: gosubset_prok is_a: GO:0006692 ! prostanoid metabolism [Term] id: GO:0006694 name: steroid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification." [GOC:go_curators] subset: gosubset_prok exact_synonym: "steroid anabolism" [] exact_synonym: "steroid formation" [] exact_synonym: "steroid synthesis" [] exact_synonym: "steroidogenesis" [] is_a: GO:0008202 ! steroid metabolism is_a: GO:0008610 ! lipid biosynthesis [Term] id: GO:0006695 name: cholesterol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of cholesterol, cholest-5-en-3 beta-ol, the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones." [GOC:ai] exact_synonym: "cholesterol anabolism" [] exact_synonym: "cholesterol formation" [] exact_synonym: "cholesterol synthesis" [] is_a: GO:0008203 ! cholesterol metabolism is_a: GO:0016126 ! sterol biosynthesis [Term] id: GO:0006696 name: ergosterol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ergosterol, (22E)-ergosta-5,7,22-trien-3-beta-ol, a sterol found in ergot, yeast and moulds." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "ergosterol anabolism" [] exact_synonym: "ergosterol formation" [] exact_synonym: "ergosterol synthesis" [] is_a: GO:0008204 ! ergosterol metabolism is_a: GO:0016126 ! sterol biosynthesis [Term] id: GO:0006697 name: ecdysone biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ecdysone, (22R)-2-beta,3-beta,14,22,25-pentahydroxycholest-7-en-6-one, an ecdysteroid found in insects." [ISBN:0198506732] exact_synonym: "ecdysone anabolism" [] exact_synonym: "ecdysone formation" [] exact_synonym: "ecdysone synthesis" [] is_a: GO:0008205 ! ecdysone metabolism is_a: GO:0016126 ! sterol biosynthesis is_a: GO:0045456 ! ecdysteroid biosynthesis [Term] id: GO:0006698 name: ecdysone modification namespace: biological_process def: "OBSOLETE. The covalent or conformational alteration of ecdysone, resulting in a change in its properties." [GOC:jl] comment: This term was made obsolete because it was created to cover the conversion of ecdysone to its active form ecdysterone (20-hydroxyecdysone), but this reaction is carried out in a single step by ecdysone 20-monooxygenase (EC 1.14.99.22) and so is a function rather than a process. To update annotations, use the molecular function term 'ecdysone 20-monooxygenase activity ; GO:0004501'. is_obsolete: true [Term] id: GO:0006699 name: bile acid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of bile acids, any of a group of steroid carboxylic acids occurring in bile." [GOC:go_curators] exact_synonym: "bile acid anabolism" [] exact_synonym: "bile acid formation" [] exact_synonym: "bile acid synthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008206 ! bile acid metabolism is_a: GO:0046394 ! carboxylic acid biosynthesis [Term] id: GO:0006700 name: C21-steroid hormone biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of C21-steroid hormones, steroid compounds containing 21 carbons which function as hormones." [GOC:ai] exact_synonym: "C21-steroid hormone anabolism" [] exact_synonym: "C21-steroid hormone formation" [] exact_synonym: "C21-steroid hormone synthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008207 ! C21-steroid hormone metabolism is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006701 name: progesterone biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of progesterone, a steroid hormone produced in the ovary which prepares and maintains the uterus for pregnancy. Also found in plants." [GOC:jl, http://www.cogsci.princeton.edu/] exact_synonym: "progesterone anabolism" [] exact_synonym: "progesterone formation" [] exact_synonym: "progesterone synthesis" [] is_a: GO:0006700 ! C21-steroid hormone biosynthesis is_a: GO:0042448 ! progesterone metabolism [Term] id: GO:0006702 name: androgen biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of androgens, C19 steroid hormones that can stimulate the development of male sexual characteristics." [ISBN:0198506732] exact_synonym: "androgen anabolism" [] exact_synonym: "androgen formation" [] exact_synonym: "androgen synthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008209 ! androgen metabolism is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006703 name: estrogen biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of estrogens, C18 steroid hormones that can stimulate the development of female sexual characteristics. Also found in plants." [ISBN:0198506732] exact_synonym: "estrogen anabolism" [] exact_synonym: "estrogen formation" [] exact_synonym: "estrogen synthesis" [] exact_synonym: "oestrogen biosynthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008210 ! estrogen metabolism is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006704 name: glucocorticoid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glucocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] exact_synonym: "glucocorticoid anabolism" [] exact_synonym: "glucocorticoid formation" [] exact_synonym: "glucocorticoid synthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008211 ! glucocorticoid metabolism is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006705 name: mineralocorticoid biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] exact_synonym: "mineralocorticoid anabolism" [] exact_synonym: "mineralocorticoid formation" [] exact_synonym: "mineralocorticoid synthesis" [] is_a: GO:0006694 ! steroid biosynthesis is_a: GO:0008212 ! mineralocorticoid metabolism is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006706 name: steroid catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [GOC:go_curators] subset: gosubset_prok exact_synonym: "steroid breakdown" [] exact_synonym: "steroid degradation" [] is_a: GO:0008202 ! steroid metabolism is_a: GO:0044242 ! cellular lipid catabolism [Term] id: GO:0006707 name: cholesterol catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of cholesterol, cholest-5-en-3 beta-ol, the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones." [GOC:ai] exact_synonym: "cholesterol breakdown" [] exact_synonym: "cholesterol degradation" [] is_a: GO:0008203 ! cholesterol metabolism is_a: GO:0016127 ! sterol catabolism [Term] id: GO:0006708 name: ecdysone catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of ecdysone, (22R)-2-beta,3-beta,14,22,25-pentahydroxycholest-7-en-6-one, an ecdysteroid found in insects." [ISBN:0198506732] exact_synonym: "ecdysone breakdown" [] exact_synonym: "ecdysone degradation" [] is_a: GO:0008205 ! ecdysone metabolism is_a: GO:0016127 ! sterol catabolism is_a: GO:0046344 ! ecdysteroid catabolism [Term] id: GO:0006709 name: progesterone catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of progesterone, a steroid hormone produced in the ovary which prepares and maintains the uterus for pregnancy. Also found in plants." [GOC:jl, http://www.cogsci.princeton.edu/] exact_synonym: "progesterone breakdown" [] exact_synonym: "progesterone degradation" [] is_a: GO:0008208 ! C21-steroid hormone catabolism is_a: GO:0042448 ! progesterone metabolism [Term] id: GO:0006710 name: androgen catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of androgens, C19 steroid hormones that can stimulate the development of male sexual characteristics." [ISBN:0198506732] exact_synonym: "androgen breakdown" [] exact_synonym: "androgen degradation" [] is_a: GO:0006706 ! steroid catabolism is_a: GO:0008209 ! androgen metabolism is_a: GO:0042447 ! hormone catabolism [Term] id: GO:0006711 name: estrogen catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of estrogens, C18 steroid hormones that can stimulate the development of female sexual characteristics. Also found in plants." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "estrogen breakdown" [] exact_synonym: "estrogen degradation" [] exact_synonym: "oestrogen catabolism" [] is_a: GO:0006706 ! steroid catabolism is_a: GO:0008210 ! estrogen metabolism is_a: GO:0042447 ! hormone catabolism [Term] id: GO:0006712 name: mineralocorticoid catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] exact_synonym: "mineralocorticoid breakdown" [] exact_synonym: "mineralocorticoid degradation" [] is_a: GO:0006706 ! steroid catabolism is_a: GO:0008212 ! mineralocorticoid metabolism is_a: GO:0042447 ! hormone catabolism [Term] id: GO:0006713 name: glucocorticoid catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glucocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] exact_synonym: "glucocorticoid breakdown" [] exact_synonym: "glucocorticoid degradation" [] is_a: GO:0006706 ! steroid catabolism is_a: GO:0008211 ! glucocorticoid metabolism is_a: GO:0042447 ! hormone catabolism [Term] id: GO:0006714 name: sesquiterpenoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving sesquiterpenoid compounds, terpenoids with three isoprene units." [ISBN:0198547684] subset: gosubset_prok narrow_synonym: "sesquiterpene metabolism" [] is_a: GO:0006721 ! terpenoid metabolism is_a: GO:0051761 ! sesquiterpene metabolism [Term] id: GO:0006715 name: farnesol biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the sesquiterpenoid alcohol farnesol, 3,7,11-trimethyl-2,6,10,dodecatrien-1-ol." [ISBN:0198547684] subset: gosubset_prok exact_synonym: "farnesol anabolism" [] exact_synonym: "farnesol formation" [] exact_synonym: "farnesol synthesis" [] is_a: GO:0016106 ! sesquiterpenoid biosynthesis is_a: GO:0016487 ! farnesol metabolism is_a: GO:0046165 ! alcohol biosynthesis [Term] id: GO:0006716 name: juvenile hormone metabolism namespace: biological_process def: "The chemical reactions and pathways involving juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:go_curators, ISBN:0198547684] is_a: GO:0006714 ! sesquiterpenoid metabolism is_a: GO:0042445 ! hormone metabolism [Term] id: GO:0006717 name: juvenile hormone binding namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:go_curators] comment: This term was made obsolete because it represents a molecular function and not a biological process. To update annotations, consider the molecular function term 'juvenile hormone binding ; GO:0005500'. is_obsolete: true [Term] id: GO:0006718 name: juvenile hormone biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:go_curators, ISBN:0198547684] exact_synonym: "juvenile hormone anabolism" [] exact_synonym: "juvenile hormone formation" [] exact_synonym: "juvenile hormone synthesis" [] is_a: GO:0006716 ! juvenile hormone metabolism is_a: GO:0016106 ! sesquiterpenoid biosynthesis is_a: GO:0042446 ! hormone biosynthesis [Term] id: GO:0006719 name: juvenile hormone catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:go_curators, ISBN:0198547684] exact_synonym: "juvenile hormone breakdown" [] exact_synonym: "juvenile hormone degradation" [] is_a: GO:0006716 ! juvenile hormone metabolism is_a: GO:0016107 ! sesquiterpenoid catabolism is_a: GO:0042447 ! hormone catabolism [Term] id: GO:0006720 name: isoprenoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving isoprenoid compounds, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues." [ISBN:0198547684] subset: gosubset_prok is_a: GO:0044255 ! cellular lipid metabolism [Term] id: GO:0006721 name: terpenoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving terpenoids, any member of a class of compounds characterized by an isoprenoid chemical structure and including derivatives with various functional groups." [ISBN:0198506732] subset: gosubset_prok narrow_synonym: "terpene metabolism" [] is_a: GO:0016096 ! polyisoprenoid metabolism is_a: GO:0019748 ! secondary metabolism is_a: GO:0042214 ! terpene metabolism [Term] id: GO:0006722 name: triterpenoid metabolism namespace: biological_process def: "The chemical reactions and pathways involving triterpenoid compounds, terpenoids with six isoprene units." [ISBN:0198547684] subset: gosubset_prok narrow_synonym: "triterpene metabolism" [] is_a: GO:0006721 ! terpenoid metabolism [Term] id: GO:0006723 name: cuticle hydrocarbon biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of hydrocarbons that make up the cuticle, the outer layer of some animals and plants, which acts to prevent water loss." [GOC:ai] exact_synonym: "cuticle hydrocarbon anabolism" [] exact_synonym: "cuticle hydrocarbon formation" [] exact_synonym: "cuticle hydrocarbon synthesis" [] is_a: GO:0009058 ! biosynthesis relationship: part_of GO:0042335 ! cuticle biosynthesis [Term] id: GO:0006725 name: aromatic compound metabolism namespace: biological_process def: "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons." [GOC:ai, ISBN:0198506732] subset: gosubset_prok narrow_synonym: "aromatic hydrocarbon metabolism" [] is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006726 name: eye pigment biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of eye pigments, any general or particular coloring matter in living organisms, found or utilized in the eye." [GOC:ai] exact_synonym: "eye pigment anabolism" [] exact_synonym: "eye pigment formation" [] exact_synonym: "eye pigment synthesis" [] is_a: GO:0042441 ! eye pigment metabolism is_a: GO:0046148 ! pigment biosynthesis [Term] id: GO:0006727 name: ommochrome biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ommochromes, any of a large group of natural polycyclic pigments commonly found in the Arthropoda, particularly in the ommatidia of the compound eye." [ISBN:0198506732] exact_synonym: "ommochrome anabolism" [] exact_synonym: "ommochrome formation" [] exact_synonym: "ommochrome synthesis" [] is_a: GO:0006726 ! eye pigment biosynthesis is_a: GO:0008055 ! ocellus pigment biosynthesis is_a: GO:0046152 ! ommochrome metabolism [Term] id: GO:0006728 name: pteridine biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of pteridine, pyrazino(2,3-dipyrimidine), the parent structure of pterins and the pteroyl group." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "pteridine anabolism" [] exact_synonym: "pteridine formation" [] exact_synonym: "pteridine synthesis" [] narrow_synonym: "pterin biosynthesis" [] is_a: GO:0019889 ! pteridine metabolism is_a: GO:0042559 ! pteridine and derivative biosynthesis is_a: GO:0046148 ! pigment biosynthesis [Term] id: GO:0006729 name: tetrahydrobiopterin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of tetrahydrobiopterin, the reduced form of biopterin (2-amino-4-hydroxy-6-(1,2-dihydroxypropyl)-pteridine). It functions as a hydroxylation coenzyme, e.g. in the conversion of phenylalanine to tyrosine." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "tetrahydrobiopterin anabolism" [] exact_synonym: "tetrahydrobiopterin formation" [] exact_synonym: "tetrahydrobiopterin synthesis" [] is_a: GO:0042559 ! pteridine and derivative biosynthesis is_a: GO:0046146 ! tetrahydrobiopterin metabolism [Term] id: GO:0006730 name: one-carbon compound metabolism namespace: biological_process def: "The chemical reactions and pathways involving compounds containing a single carbon atom." [GOC:ai] subset: gosubset_prok exact_synonym: "one carbon compound metabolism" [] xref_analog: UM-BBD_pathwayID:C1cyc is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006731 name: coenzyme and prosthetic group metabolism namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways involving coenzymes and prosthetic groups." [GOC:ai] comment: This term was made obsolete because it was replaced by more specific terms. To update annotations, consider the biological process terms 'coenzyme metabolism ; GO:0006732' and 'prosthetic group metabolism ; GO:0051189'. is_obsolete: true [Term] id: GO:0006732 name: coenzyme metabolism namespace: biological_process def: "The chemical reactions and pathways involving coenzymes, any of various nonprotein organic cofactors that are required, in addition to an enzyme and a substrate, for an enzymatic reaction to proceed." [ISBN:0198506732] subset: gosubset_prok broad_synonym: "coenzyme and prosthetic group metabolism" [] is_a: GO:0051186 ! cofactor metabolism [Term] id: GO:0006733 name: oxidoreduction coenzyme metabolism namespace: biological_process subset: gosubset_prok is_a: GO:0006732 ! coenzyme metabolism [Term] id: GO:0006734 name: NADH metabolism namespace: biological_process def: "The chemical reactions and pathways involving reduced nicotinamide adenine dinucleotide (NADH), a coenzyme present in most living cells and derived from the B vitamin nicotinic acid." [GOC:jl, ISBN:0618254153] subset: gosubset_prok exact_synonym: "NAD (reduced) metabolism" [] exact_synonym: "reduced NAD metabolism" [] exact_synonym: "reduced nicotinamide adenine dinucleotide metabolism" [] is_a: GO:0006769 ! nicotinamide metabolism [Term] id: GO:0006735 name: NADH regeneration namespace: biological_process subset: gosubset_prok exact_synonym: "NAD (reduced) regeneration" [] exact_synonym: "reduced NAD regeneration" [] exact_synonym: "reduced nicotinamide adenine dinucleotide regeneration" [] is_a: GO:0006734 ! NADH metabolism [Term] id: GO:0006738 name: nicotinamide riboside catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of nicotinamide riboside, the product of the formation of a glycosidic bond between ribose and nicotinamide." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "nicotinamide riboside breakdown" [] exact_synonym: "nicotinamide riboside degradation" [] xref_analog: MetaCyc:RIBOSYLNICOTINAMIDE+DEGRADATION is_a: GO:0006734 ! NADH metabolism is_a: GO:0019364 ! pyridine nucleotide catabolism is_a: GO:0046495 ! nicotinamide riboside metabolism [Term] id: GO:0006739 name: NADP metabolism namespace: biological_process def: "The chemical reactions and pathways involving nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; metabolism may be of either the oxidized form, NADP, or the reduced form, NADPH." [GOC:mah] subset: gosubset_prok related_synonym: "NAD phosphorylation and dephosphorylation" [] exact_synonym: "NADP (oxidized) metabolism" [] exact_synonym: "NADP (reduced) metabolism" [] exact_synonym: "NADPH metabolism" [] exact_synonym: "nicotinamide adenine dinucleotide phosphate metabolism" [] exact_synonym: "oxidized NADP metabolism" [] exact_synonym: "oxidized nicotinamide adenine dinucleotide phosphate metabolism" [] exact_synonym: "reduced NADP metabolism" [] exact_synonym: "reduced nicotinamide adenine dinucleotide phosphate metabolism" [] is_a: GO:0006769 ! nicotinamide metabolism [Term] id: GO:0006740 name: NADPH regeneration namespace: biological_process subset: gosubset_prok exact_synonym: "NADP (reduced) regeneration" [] exact_synonym: "reduced NADP regeneration" [] exact_synonym: "reduced nicotinamide adenine dinucleotide phosphate regeneration" [] is_a: GO:0006739 ! NADP metabolism [Term] id: GO:0006741 name: NADP biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; biosynthesis may be of either the oxidized form, NADP, or the reduced form, NADPH." [GOC:mah] subset: gosubset_prok exact_synonym: "NADP (oxidized) biosynthesis" [] exact_synonym: "NADP (reduced) biosynthesis" [] exact_synonym: "NADP anabolism" [] exact_synonym: "NADP formation" [] exact_synonym: "NADP synthesis" [] exact_synonym: "NADPH biosynthesis" [] exact_synonym: "nicotinamide adenine dinucleotide phosphate biosynthesis" [] exact_synonym: "oxidized NADP biosynthesis" [] exact_synonym: "oxidized nicotinamide adenine dinucleotide phosphate biosynthesis" [] exact_synonym: "reduced NADP biosynthesis" [] exact_synonym: "reduced nicotinamide adenine dinucleotide phosphate biosynthesis" [] is_a: GO:0006739 ! NADP metabolism is_a: GO:0019363 ! pyridine nucleotide biosynthesis [Term] id: GO:0006742 name: NADP catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; catabolism may be of either the oxidized form, NADP, or the reduced form, NADPH." [GOC:mah] subset: gosubset_prok exact_synonym: "NADP (oxidized) catabolism" [] exact_synonym: "NADP (reduced) catabolism" [] exact_synonym: "NADP breakdown" [] exact_synonym: "NADP degradation" [] exact_synonym: "NADPH catabolism" [] exact_synonym: "nicotinamide adenine dinucleotide phosphate catabolism" [] exact_synonym: "oxidized NADP catabolism" [] exact_synonym: "oxidized nicotinamide adenine dinucleotide phosphate catabolism" [] exact_synonym: "reduced NADP catabolism" [] exact_synonym: "reduced nicotinamide adenine dinucleotide phosphate catabolism" [] is_a: GO:0006739 ! NADP metabolism is_a: GO:0019364 ! pyridine nucleotide catabolism [Term] id: GO:0006743 name: ubiquinone metabolism namespace: biological_process def: "The chemical reactions and pathways involving ubiquinone, a lipid-soluble electron-transporting coenzyme." [GOC:mah] subset: gosubset_prok exact_synonym: "coenzyme Q metabolism" [] narrow_synonym: "coenzyme Q6 metabolism" [] is_a: GO:0006733 ! oxidoreduction coenzyme metabolism [Term] id: GO:0006744 name: ubiquinone biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ubiquinone, a lipid-soluble electron-transporting coenzyme." [GOC:mah] subset: gosubset_prok exact_synonym: "coenzyme Q biosynthesis" [] exact_synonym: "ubiquinone anabolism" [] exact_synonym: "ubiquinone formation" [] exact_synonym: "ubiquinone synthesis" [] narrow_synonym: "coenzyme Q10 biosynthesis" [] narrow_synonym: "coenzyme Q6 biosynthesis" [] narrow_synonym: "coenzyme Q8 biosynthesis" [] narrow_synonym: "coenzyme Q9 biosynthesis" [] xref_analog: MetaCyc:UBISYN-PWY is_a: GO:0006743 ! ubiquinone metabolism is_a: GO:0045426 ! quinone cofactor biosynthesis [Term] id: GO:0006746 name: FADH2 metabolism namespace: biological_process def: "The chemical reactions and pathways involving the reduced form of flavin-adenine dinucleotide." [GOC:ai] subset: gosubset_prok is_a: GO:0006733 ! oxidoreduction coenzyme metabolism [Term] id: GO:0006747 name: FAD biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes." [GOC:ai, ISBN:0198506732] subset: gosubset_prok exact_synonym: "FAD anabolism" [] exact_synonym: "FAD formation" [] exact_synonym: "FAD synthesis" [] exact_synonym: "flavin adenine dinucleotide biosynthesis" [] exact_synonym: "flavin-adenine dinucleotide biosynthesis" [] xref_analog: MetaCyc:RIBOSYN2-PWYRI is_a: GO:0006746 ! FADH2 metabolism is_a: GO:0009108 ! coenzyme biosynthesis is_a: GO:0042727 ! riboflavin and derivative biosynthesis is_a: GO:0046443 ! FAD metabolism [Term] id: GO:0006748 name: lipoamide metabolism namespace: biological_process def: "The chemical reactions and pathways involving lipoamide, the functional form of lipoic acid in which the carboxyl group is attached to protein by an amide linkage to a lysine amino group." [GOC:go_curators, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok is_a: GO:0000273 ! lipoic acid metabolism [Term] id: GO:0006749 name: glutathione metabolism namespace: biological_process def: "The chemical reactions and pathways involving glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins; it has a specific role in the reduction of hydrogen peroxide (H2O2) and oxidized ascorbate, and it participates in the gamma-glutamyl cycle." [http://cancerweb.ncl.ac.uk/, ISBN:0198506732] subset: gosubset_prok narrow_synonym: "oxidized glutathione reduction" [] is_a: GO:0006732 ! coenzyme metabolism is_a: GO:0006790 ! sulfur metabolism [Term] id: GO:0006750 name: glutathione biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins." [GOC:ai, http://cancerweb.ncl.ac.uk/, ISBN:0198506732] subset: gosubset_prok exact_synonym: "glutathione anabolism" [] exact_synonym: "glutathione formation" [] exact_synonym: "glutathione synthesis" [] xref_analog: MetaCyc:GLUTATHIONESYN-PWY is_a: GO:0006749 ! glutathione metabolism is_a: GO:0009108 ! coenzyme biosynthesis is_a: GO:0044272 ! sulfur compound biosynthesis [Term] id: GO:0006751 name: glutathione catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins." [GOC:ai, http://cancerweb.ncl.ac.uk/, ISBN:0198506732] subset: gosubset_prok exact_synonym: "glutathione breakdown" [] exact_synonym: "glutathione degradation" [] is_a: GO:0006749 ! glutathione metabolism is_a: GO:0009109 ! coenzyme catabolism is_a: GO:0044273 ! sulfur compound catabolism [Term] id: GO:0006752 name: group transfer coenzyme metabolism namespace: biological_process subset: gosubset_prok is_a: GO:0006732 ! coenzyme metabolism [Term] id: GO:0006753 name: nucleoside phosphate metabolism namespace: biological_process subset: gosubset_prok is_a: GO:0006752 ! group transfer coenzyme metabolism [Term] id: GO:0006754 name: ATP biosynthesis namespace: biological_process alt_id: GO:0006758 def: "The chemical reactions and pathways resulting in the formation of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "ATP anabolism" [] exact_synonym: "ATP formation" [] exact_synonym: "ATP synthesis" [] is_a: GO:0006753 ! nucleoside phosphate metabolism is_a: GO:0009108 ! coenzyme biosynthesis is_a: GO:0009206 ! purine ribonucleoside triphosphate biosynthesis is_a: GO:0046034 ! ATP metabolism [Term] id: GO:0006755 name: carbamoyl phosphate-ADP transphosphorylation namespace: biological_process subset: gosubset_prok is_a: GO:0006754 ! ATP biosynthesis is_a: GO:0016310 ! phosphorylation [Term] id: GO:0006756 name: AMP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into AMP, adenosine monophosphate, to produce ADP. Addition of two phosphoric groups produces ATP." [GOC:ai] subset: gosubset_prok is_a: GO:0006754 ! ATP biosynthesis is_a: GO:0046033 ! AMP metabolism is_a: GO:0046940 ! nucleoside monophosphate phosphorylation [Term] id: GO:0006757 name: ADP phosphorylation namespace: biological_process def: "The process of introducing a phosphoric group into ADP, adenosine diphosphate, to produce ATP." [GOC:ai] subset: gosubset_prok is_a: GO:0006165 ! nucleoside diphosphate phosphorylation is_a: GO:0006754 ! ATP biosynthesis is_a: GO:0046031 ! ADP metabolism [Term] id: GO:0006759 name: ATP regeneration namespace: biological_process subset: gosubset_prok is_a: GO:0006754 ! ATP biosynthesis [Term] id: GO:0006760 name: folic acid and derivative metabolism namespace: biological_process def: "The chemical reactions and pathways involving folic acid and its derivatives." [GOC:ai] subset: gosubset_prok exact_synonym: "folate and derivative metabolism" [] exact_synonym: "vitamin B9 and derivative metabolism" [] exact_synonym: "vitamin M and derivative metabolism" [] is_a: GO:0006725 ! aromatic compound metabolism is_a: GO:0006752 ! group transfer coenzyme metabolism is_a: GO:0019752 ! carboxylic acid metabolism is_a: GO:0046483 ! heterocycle metabolism [Term] id: GO:0006761 name: dihydrofolate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of dihydrofolate, the dihydroxylated derivative of folate." [GOC:ai] subset: gosubset_prok exact_synonym: "7,8-dihydrofolate biosynthesis" [] exact_synonym: "dihydrofolate anabolism" [] exact_synonym: "dihydrofolate formation" [] exact_synonym: "dihydrofolate synthesis" [] is_a: GO:0009396 ! folic acid and derivative biosynthesis is_a: GO:0046452 ! dihydrofolate metabolism [Term] id: GO:0006762 name: dihydrofolate reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'dihydrofolate reductase activity ; GO:0004146' and the biological process term 'dihydrofolate metabolism ; GO:0046452'. is_obsolete: true [Term] id: GO:0006766 name: vitamin metabolism namespace: biological_process def: "The chemical reactions and pathways involving vitamins. Vitamin is a general term for a number of unrelated organic substances that occur in many foods in small amounts and that are necessary in trace amounts for the normal metabolic functioning of the body. Vitamins may be water-soluble or fat-soluble and usually serve as components of coenzyme systems." [GOC:ai] subset: goslim_yeast subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006767 name: water-soluble vitamin metabolism namespace: biological_process def: "The chemical reactions and pathways involving any of a diverse group of vitamins that are soluble in water." [GOC:jl] subset: gosubset_prok is_a: GO:0006766 ! vitamin metabolism [Term] id: GO:0006768 name: biotin metabolism namespace: biological_process def: "The chemical reactions and pathways involving biotin, cis-tetrahydro-2-oxothieno(3,4-d)imidazoline-4-valeric acid; the (+) enantiomer is very widely distributed in cells and serves as a carrier in a number of enzymatic beta-carboxylation reactions." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "vitamin B7 metabolism" [] exact_synonym: "vitamin H metabolism" [] is_a: GO:0006767 ! water-soluble vitamin metabolism is_a: GO:0006790 ! sulfur metabolism is_a: GO:0019752 ! carboxylic acid metabolism is_a: GO:0046483 ! heterocycle metabolism is_a: GO:0051186 ! cofactor metabolism [Term] id: GO:0006769 name: nicotinamide metabolism namespace: biological_process def: "The chemical reactions and pathways involving nicotinamide, pyridine-3-carboxamide, the amide of nicotinic acid. It is a member of the B complex of vitamins and occurs widely in living organisms." [ISBN:0198506732] subset: gosubset_prok broad_synonym: "niacin metabolism" [] broad_synonym: "vitamin B3 metabolism" [] is_a: GO:0019362 ! pyridine nucleotide metabolism [Term] id: GO:0006771 name: riboflavin metabolism namespace: biological_process def: "The chemical reactions and pathways involving riboflavin (vitamin B2), the precursor for the coenzymes flavin mononucleotide (FMN) and flavin adenine dinucleotide (FAD)." [GOC:jl, http://www.indstate.edu/thcme/mwking/vitamins.html] subset: gosubset_prok exact_synonym: "vitamin B2 metabolism" [] exact_synonym: "vitamin G metabolism" [] is_a: GO:0042726 ! riboflavin and derivative metabolism [Term] id: GO:0006772 name: thiamin metabolism namespace: biological_process def: "The chemical reactions and pathways involving thiamin (vitamin B1), a water soluble vitamin present in fresh vegetables and meats, especially liver." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "thiamine metabolism" [] exact_synonym: "vitamin B1 metabolism" [] is_a: GO:0042723 ! thiamin and derivative metabolism [Term] id: GO:0006774 name: vitamin B12 reduction namespace: biological_process def: "OBSOLETE (was not defined before being made obsolete)." [GOC:ai] comment: This term was made obsolete because it represents a molecular function rather than a biological process. To update annotations, consider the molecular function term 'cob(II)alamin reductase activity ; GO:0050453' and the biological process term 'cobalamin metabolism ; GO:0009235'. is_obsolete: true [Term] id: GO:0006775 name: fat-soluble vitamin metabolism namespace: biological_process def: "The chemical reactions and pathways involving of any of a diverse group of vitamins that are soluble in organic solvents and relatively insoluble in water." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006766 ! vitamin metabolism [Term] id: GO:0006776 name: vitamin A metabolism namespace: biological_process def: "The chemical reactions and pathways involving any of the vitamin A compounds, retinol, retinal (retinaldehyde) and retinoic acid, all of which are derivatives of beta-carotene." [GOC:jl, http://www.dentistry.leeds.ac.uk/biochem/thcme/vitamins.html#k] subset: gosubset_prok is_a: GO:0006775 ! fat-soluble vitamin metabolism [Term] id: GO:0006777 name: Mo-molybdopterin cofactor biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of the Mo-molybdopterin cofactor, essential for the catalytic activity of some enzymes. The cofactor consists of a mononuclear molybdenum (Mo) ion coordinated by one or two molybdopterin ligands." [http://www.sunysb.edu/biochem/BIOCHEM/facultypages/schindelin/, ISSN:09498257] subset: gosubset_prok exact_synonym: "Mo-molybdopterin cofactor anabolism" [] exact_synonym: "Mo-molybdopterin cofactor formation" [] exact_synonym: "Mo-molybdopterin cofactor synthesis" [] exact_synonym: "Moco biosynthesis" [] exact_synonym: "molybdopterin cofactor biosynthesis" [] is_a: GO:0009108 ! coenzyme biosynthesis is_a: GO:0019720 ! Mo-molybdopterin cofactor metabolism is_a: GO:0042559 ! pteridine and derivative biosynthesis [Term] id: GO:0006778 name: porphyrin metabolism namespace: biological_process def: "The chemical reactions and pathways involving any member of a large group of derivatives or analogs of porphyrin. Porphyrins consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group." [GOC:jl, ISBN:0198506732] subset: gosubset_prok is_a: GO:0046483 ! heterocycle metabolism is_a: GO:0051186 ! cofactor metabolism [Term] id: GO:0006779 name: porphyrin biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any member of a large group of derivatives or analogs of porphyrin. Porphyrin consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "porphyrin anabolism" [] exact_synonym: "porphyrin formation" [] exact_synonym: "porphyrin synthesis" [] is_a: GO:0006778 ! porphyrin metabolism is_a: GO:0051188 ! cofactor biosynthesis [Term] id: GO:0006780 name: uroporphyrinogen III biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of uroporphyrinogen III." [GOC:ai] subset: gosubset_prok exact_synonym: "uroporphyrinogen III anabolism" [] exact_synonym: "uroporphyrinogen III formation" [] exact_synonym: "uroporphyrinogen III synthesis" [] is_a: GO:0046502 ! uroporphyrinogen III metabolism relationship: part_of GO:0006779 ! porphyrin biosynthesis [Term] id: GO:0006781 name: succinyl-CoA pathway namespace: biological_process subset: gosubset_prok relationship: part_of GO:0006780 ! uroporphyrinogen III biosynthesis [Term] id: GO:0006782 name: protoporphyrinogen IX biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of protoporphyrinogen IX." [GOC:go_curators] subset: gosubset_prok exact_synonym: "protoporphyrinogen IX anabolism" [] exact_synonym: "protoporphyrinogen IX formation" [] exact_synonym: "protoporphyrinogen IX synthesis" [] is_a: GO:0006779 ! porphyrin biosynthesis is_a: GO:0046501 ! protoporphyrinogen IX metabolism relationship: part_of GO:0006783 ! heme biosynthesis [Term] id: GO:0006783 name: heme biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring, from less complex precursors." [GOC:jl] subset: gosubset_prok exact_synonym: "haem biosynthesis" [] exact_synonym: "heme anabolism" [] exact_synonym: "heme formation" [] exact_synonym: "heme synthesis" [] is_a: GO:0006779 ! porphyrin biosynthesis is_a: GO:0042168 ! heme metabolism is_a: GO:0046148 ! pigment biosynthesis [Term] id: GO:0006784 name: heme a biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heme a, a derivative of heme found in cytochrome aa3." [GOC:ai, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "haem a biosynthesis" [] exact_synonym: "heme a anabolism" [] exact_synonym: "heme a formation" [] exact_synonym: "heme a synthesis" [] is_a: GO:0006783 ! heme biosynthesis is_a: GO:0046160 ! heme a metabolism [Term] id: GO:0006785 name: heme b biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heme b, a Fe(II) porphyrin complex readily isolated from the hemoglobin of beef blood, but also found in other proteins including other hemoglobins, myoglobins, cytochromes P-450, catalases, peroxidases as well as b type cytochromes." [http://www.chem.qmul.ac.uk/iupac/bioinorg/PR.html#25] subset: gosubset_prok exact_synonym: "haem b biosynthesis" [] exact_synonym: "heme b anabolism" [] exact_synonym: "heme b formation" [] exact_synonym: "heme b synthesis" [] is_a: GO:0006783 ! heme biosynthesis is_a: GO:0046492 ! heme b metabolism [Term] id: GO:0006786 name: heme c biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heme c, a derivative of heme found in cytochromes c, b4, and f." [http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "haem c biosynthesis" [] exact_synonym: "heme c anabolism" [] exact_synonym: "heme c formation" [] exact_synonym: "heme c synthesis" [] is_a: GO:0006783 ! heme biosynthesis is_a: GO:0046162 ! heme c metabolism [Term] id: GO:0006787 name: porphyrin catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of any member of a large group of derivatives or analogs of porphyrin. Porphyrin consists of a ring of four pyrrole nuclei linked each to the next at their alpha positions through a methine group." [GOC:jl, ISBN:0198506732] subset: gosubset_prok exact_synonym: "porphyrin breakdown" [] exact_synonym: "porphyrin degradation" [] is_a: GO:0006778 ! porphyrin metabolism is_a: GO:0051187 ! cofactor catabolism [Term] id: GO:0006788 name: heme oxidation namespace: biological_process subset: gosubset_prok exact_synonym: "haem oxidation" [] is_a: GO:0042168 ! heme metabolism relationship: part_of GO:0006787 ! porphyrin catabolism [Term] id: GO:0006789 name: bilirubin conjugation namespace: biological_process subset: gosubset_prok is_a: GO:0006787 ! porphyrin catabolism [Term] id: GO:0006790 name: sulfur metabolism namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element sulfur or compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione." [GOC:ai] subset: gosubset_prok exact_synonym: "sulphur metabolism" [] narrow_synonym: "proteoglycan sulfate transfer" [] is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006791 name: sulfur utilization namespace: biological_process subset: gosubset_prok exact_synonym: "sulphur utilization" [] is_a: GO:0006790 ! sulfur metabolism [Term] id: GO:0006792 name: regulation of sulfur utilization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sulfur utilization." [GOC:go_curators] subset: gosubset_prok exact_synonym: "regulation of sulphur utilization" [] is_a: GO:0042762 ! regulation of sulfur metabolism relationship: part_of GO:0006791 ! sulfur utilization [Term] id: GO:0006793 name: phosphorus metabolism namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4)." [GOC:ai] subset: gosubset_prok is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006794 name: phosphorus utilization namespace: biological_process subset: gosubset_prok is_a: GO:0006793 ! phosphorus metabolism [Term] id: GO:0006795 name: regulation of phosphorus utilization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of phosphorus utilization." [GOC:go_curators] subset: gosubset_prok is_a: GO:0019220 ! regulation of phosphate metabolism relationship: part_of GO:0006794 ! phosphorus utilization [Term] id: GO:0006796 name: phosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai] subset: gosubset_prok is_a: GO:0006793 ! phosphorus metabolism [Term] id: GO:0006797 name: polyphosphate metabolism namespace: biological_process def: "The chemical reactions and pathways involving a polyphosphate, the anion or salt of polyphosphoric acid." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok is_a: GO:0006796 ! phosphate metabolism [Term] id: GO:0006798 name: polyphosphate catabolism namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of a polyphosphate, the anion or salt of polyphosphoric acid." [GOC:go_curators, ISBN:0198506732] subset: gosubset_prok exact_synonym: "polyphosphate breakdown" [] exact_synonym: "polyphosphate degradation" [] is_a: GO:0006797 ! polyphosphate metabolism is_a: GO:0044248 ! cellular catabolism [Term] id: GO:0006799 name: polyphosphate biosynthesis namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a polyphosphate, the anion or salt of polyphosphoric acid." [ISBN:0198506732] subset: gosubset_prok exact_synonym: "polyphosphate anabolism" [] exact_synonym: "polyphosphate formation" [] exact_synonym: "polyphosphate synthesis" [] is_a: GO:0006797 ! polyphosphate metabolism is_a: GO:0044249 ! cellular biosynthesis [Term] id: GO:0006800 name: oxygen and reactive oxygen species metabolism namespace: biological_process def: "The chemical reactions and pathways involving dioxygen (O2), or any of the reactive oxygen species, e.g. superoxide anions (O2-), hydrogen peroxide (H2O2), and hydroxyl radicals (-OH)." [GOC:jl, PMID:12115731] subset: gosubset_prok exact_synonym: "oxygen and ROS metabolism" [] is_a: GO:0044237 ! cellular metabolism [Term] id: GO:0006801 name: superoxide metabolism namespace: biological_process def: "The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species." [GOC:jl, http://cancerweb.ncl.ac.uk/] subset: gosubset_prok exact_synonym: "oxygen free radical metabolism" [] exact_synonym: "superoxide free radical metabolism" [] is_a: GO:0006800 ! oxygen and reactive oxygen species metabolism [Term] id: GO:0006802 name: catalase reaction namespace: biological_process def: "OBSOLETE. The processes involved in the induction or activation of catalase, an enzyme that catalyzes the conversion of H2O2 into H2O." [GOC:jl, PMID:11245904] comment: This term was made obsolete because it represents a molecular function. To update annotations, consider the molecular function term 'catalase activity ; GO:0004096'. related_synonym: "hydroperoxidase reaction" [] is_obsolete: true [Term] id: GO: