diff --git a/src/ontology/go-edit.obo b/src/ontology/go-edit.obo index 3c2c84827c..77186666c7 100644 --- a/src/ontology/go-edit.obo +++ b/src/ontology/go-edit.obo @@ -31485,7 +31485,7 @@ is_a: GO:0016411 ! acylglycerol O-acyltransferase activity 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] +def: "Catalysis of the reaction: a 1-O-alkyl-2-acetyl-sn-glycero-3-phosphocholine + H2O = 1-O-alkyl-sn-glycero-3-phosphocholine + acetate + H+." [RHEA:17777] subset: goslim_chembl synonym: "1-alkyl-2-acetyl-sn-glycero-3-phosphocholine acetohydrolase activity" RELATED [EC:3.1.1.47] synonym: "1-alkyl-2-acetyl-sn-glycero-3-phosphocholine acetylhydrolase activity" RELATED [EC:3.1.1.47] @@ -31500,7 +31500,7 @@ synonym: "PAF acetylhydrolase activity" RELATED [EC:3.1.1.47] synonym: "platelet-activating factor acetylhydrolase activity" RELATED [EC:3.1.1.47] xref: EC:3.1.1.47 xref: MetaCyc:3.1.1.47-RXN -xref: RHEA:17777 +xref: RHEA:17777 {source="skos:exactMatch"} is_a: GO:0052689 ! carboxylic ester hydrolase activity [Term] @@ -35347,6 +35347,7 @@ synonym: "L-branched chain amino acid aminotransferase activity" RELATED [EC:2.6 synonym: "transaminase B activity" RELATED [EC:2.6.1.42] xref: EC:2.6.1.42 {source="skos:exactMatch"} is_a: GO:0008483 ! transaminase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0004085 @@ -46921,7 +46922,7 @@ synonym: "tyrosine-alpha-ketoglutarate aminotransferase activity" BROAD [EC:2.6. synonym: "tyrosine-alpha-ketoglutarate transaminase activity" BROAD [EC:2.6.1.5] xref: EC:2.6.1.5 {source="skos:broadMatch"} xref: MetaCyc:TYROSINE-AMINOTRANSFERASE-RXN -xref: RHEA:15093 +xref: RHEA:15093 {source="skos:exactMatch"} xref: UM-BBD_reactionID:r0297 is_a: GO:0008793 ! aromatic-amino-acid transaminase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI @@ -87507,7 +87508,7 @@ intersection_of: has_primary_output CHEBI:57762 ! L-valine zwitterion relationship: has_part GO:0003984 ! acetolactate synthase activity relationship: has_part GO:0004160 ! dihydroxy-acid dehydratase activity relationship: has_part GO:0004455 ! ketol-acid reductoisomerase activity -relationship: has_part GO:0052655 ! L-valine transaminase activity +relationship: has_part GO:0052655 ! L-valine-2-oxoglutarate transaminase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28686" xsd:anyURI [Term] @@ -120137,17 +120138,17 @@ relationship: part_of GO:0005783 ! endoplasmic reticulum [Term] id: GO:0016223 -name: beta-alanine-pyruvate transaminase activity +name: beta-alanine:pyruvate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: L-alanine + 2-oxopropanoate = pyruvate + beta-alanine." [EC:2.6.1.18] +def: "Catalysis of the reaction: L-alanine + 2-oxopropanoate = pyruvate + beta-alanine." [RHEA:14077] synonym: "beta-alanine--pyruvate aminotransferase activity" RELATED [EC:2.6.1.18] synonym: "beta-alanine-alpha-alanine transaminase activity" RELATED [EC:2.6.1.18] synonym: "beta-alanine-pyruvate aminotransferase activity" EXACT [] synonym: "L-alanine:3-oxopropanoate aminotransferase activity" RELATED [EC:2.6.1.18] synonym: "omega-amino acid--pyruvate aminotransferase activity" RELATED [EC:2.6.1.18] -xref: EC:2.6.1.18 +xref: EC:2.6.1.18 {source="skos:exactMatch"} xref: MetaCyc:2.6.1.18-RXN -xref: RHEA:14077 +xref: RHEA:14077 {source="skos:exactMatch"} is_a: GO:0008483 ! transaminase activity [Term] @@ -127552,7 +127553,6 @@ comment: This term was made obsolete because the definition does not match the t synonym: "phosphatidylserine-specific phospholipase A1 activity" EXACT [] is_obsolete: true consider: GO:0052739 -consider: GO:0052740 [Term] id: GO:0017064 @@ -197849,7 +197849,7 @@ is_a: GO:0008483 ! transaminase activity id: GO:0033853 name: aspartate-prephenate aminotransferase activity namespace: molecular_function -def: "Catalysis of the reaction: L-arogenate + oxaloacetate = prephenate + L-aspartate." [EC:2.6.1.78] +def: "Catalysis of the reaction: L-arogenate + oxaloacetate = prephenate + L-aspartate." [RHEA:20445] synonym: "L-arogenate:oxaloacetate aminotransferase activity" RELATED [EC:2.6.1.78] synonym: "L-aspartate:prephenate aminotransferase activity" RELATED [EC:2.6.1.78] synonym: "PAT" RELATED [EC:2.6.1.78] @@ -197857,7 +197857,7 @@ synonym: "prephenate aspartate aminotransferase activity" RELATED [EC:2.6.1.78] synonym: "prephenate transaminase activity" BROAD [EC:2.6.1.78] xref: EC:2.6.1.78 xref: MetaCyc:PREPHENATE-ASP-TRANSAMINE-RXN -xref: RHEA:20445 +xref: RHEA:20445 {source="skos:exactMatch"} is_a: GO:0008483 ! transaminase activity [Term] @@ -288156,14 +288156,14 @@ is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than id: GO:0047297 name: asparagine-oxo-acid transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: a 2-oxo acid + L-asparagine = an amino acid + 2-oxosuccinamate." [EC:2.6.1.14, MetaCyc:2.6.1.14-RXN] +def: "Catalysis of the reaction: a 2-oxo acid + L-asparagine = an amino acid + 2-oxosuccinamate." [RHEA:19813] synonym: "asparagine--oxo-acid aminotransferase activity" RELATED [EC:2.6.1.14] synonym: "asparagine-keto acid aminotransferase activity" RELATED [EC:2.6.1.14] synonym: "asparagine-oxo-acid aminotransferase activity" EXACT [] synonym: "L-asparagine:2-oxo-acid aminotransferase activity" RELATED [EC:2.6.1.14] -xref: EC:2.6.1.14 +xref: EC:2.6.1.14 {source="skos:exactMatch"} xref: MetaCyc:2.6.1.14-RXN -xref: RHEA:19813 +xref: RHEA:19813 {source="skos.exactMatch"} is_a: GO:0008483 ! transaminase activity [Term] @@ -288423,7 +288423,7 @@ synonym: "phenylalanine (histidine) aminotransferase activity" BROAD [EC:2.6.1.5 synonym: "phenylalanine(histidine) aminotransferase activity" BROAD [] synonym: "phenylalanine(histidine) transaminase activity" BROAD [EC:2.6.1.58] synonym: "phenylalanine(histidine):pyruvate aminotransferase activity" BROAD [EC:2.6.1.58] -xref: EC:2.6.1.58 +xref: EC:2.6.1.58 {source="skos:broadMatch"} xref: KEGG_REACTION:R00692 xref: MetaCyc:2.6.1.58-RXN xref: RHEA:13053 {source="skos:exactMatch"} @@ -288489,14 +288489,14 @@ is_a: GO:0008483 ! transaminase activity id: GO:0047319 name: aspartate-phenylpyruvate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: keto-phenylpyruvate + L-aspartate = L-phenylalanine + oxaloacetate." [EC:2.6.1.70, RHEA:14097] +def: "Catalysis of the reaction: keto-phenylpyruvate + L-aspartate = L-phenylalanine + oxaloacetate." [RHEA:14097] synonym: "aspartate--phenylpyruvate aminotransferase activity" RELATED [EC:2.6.1.70] -synonym: "aspartate-phenylpyruvate aminotransferase activity" EXACT [] +synonym: "aspartate:phenylpyruvate aminotransferase activity" EXACT [] synonym: "L-aspartate:phenylpyruvate aminotransferase activity" RELATED [EC:2.6.1.70] -xref: EC:2.6.1.70 +xref: EC:2.6.1.70 {source="skos:exactMatch"} xref: KEGG_REACTION:R00695 xref: MetaCyc:2.6.1.70-RXN -xref: RHEA:14097 +xref: RHEA:14097 {source="skos:exactMatch"} is_a: GO:0008483 ! transaminase activity [Term] @@ -307689,19 +307689,14 @@ is_a: GO:0016869 ! intramolecular aminotransferase activity [Term] id: GO:0050048 -name: L-leucine:2-oxoglutarate aminotransferase activity -namespace: molecular_function -def: "Catalysis of the reaction: L-leucine + 2-oxoglutarate = 4-methyl-2-oxopentanoate + L-glutamate." [EC:2.6.1.6, MetaCyc:LEUCINE-AMINOTRANSFERASE-RXN] -synonym: "L-leucine aminotransferase activity" BROAD [EC:2.6.1.6] -synonym: "leucine 2-oxoglutarate transaminase activity" RELATED [EC:2.6.1.6] -synonym: "leucine aminotransferase activity" BROAD [] -synonym: "leucine transaminase activity" BROAD [EC:2.6.1.6] -synonym: "leucine-alpha-ketoglutarate transaminase activity" RELATED [EC:2.6.1.6] -xref: EC:2.6.1.6 -xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN {source="skos:broadMatch"} -xref: RHEA:18321 -is_a: GO:0008483 ! transaminase activity +name: obsolete L-leucine:2-oxoglutarate aminotransferase activity +namespace: molecular_function +def: "OBSOLETE. Catalysis of the reaction: L-leucine + 2-oxoglutarate = 4-methyl-2-oxopentanoate + L-glutamate." [GOC:curators] +comment: This term was obsoleted because it represents the same activity L-leucine transaminase activity ; GO:0052654. property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28176" xsd:anyURI +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28817" xsd:anyURI +is_obsolete: true +replaced_by: GO:0052654 [Term] id: GO:0050049 @@ -337178,41 +337173,42 @@ creation_date: 2010-09-23T11:16:56Z [Term] id: GO:0052654 -name: L-leucine transaminase activity +name: L-leucine-2-oxoglutarate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: 2-oxoglutarate + L-leucine = 4-methyl-2-oxopentanoate + L-glutamatic acid." [EC:2.6.1.42, MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN] +def: "Catalysis of the reaction: 2-oxoglutarate + L-leucine = 4-methyl-2-oxopentanoate + L-glutamatic acid." [RHEA:18321] subset: goslim_chembl synonym: "L-leucine aminotransferase activity" EXACT [] xref: KEGG_REACTION:R01090 -xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN {source="skos:broadMatch"} +xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28176" xsd:anyURI [Term] id: GO:0052655 -name: L-valine transaminase activity +name: L-valine-2-oxoglutarate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: 2-oxoglutarate + L-valine = 3-methyl-2-oxobutanoic acid + L-glutamatic acid." [EC:2.6.1.42, MetaCyc:BRANCHED-CHAINAMINOTRANSFERVAL-RXN] +def: "Catalysis of the reaction: 2-oxoglutarate + L-valine = 3-methyl-2-oxobutanoic acid + L-glutamatic acid." [RHEA:24813] subset: goslim_chembl synonym: "L-valine aminotransferase activity" EXACT [] -xref: EC:2.6.1.42 xref: KEGG_REACTION:R01214 xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERVAL-RXN -xref: RHEA:24813 +xref: RHEA:24813 {source="skos:exactMatch"} is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0052656 -name: L-isoleucine transaminase activity +name: L-isoleucine-2-oxoglutarate transaminase activity namespace: molecular_function def: "Catalysis of the reaction: 2-oxoglutarate + L-isoleucine = (S)-3-methyl-2-oxopentanoic acid + L-glutamic acid." [RHEA:24801] subset: goslim_chembl synonym: "L-isoleucine aminotransferase activity" EXACT [] -xref: EC:2.6.1.42 xref: KEGG_REACTION:R02199 xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERILEU-RXN xref: RHEA:24801 {source="skos:exactMatch"} is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0052657 @@ -338410,18 +338406,19 @@ name: phosphatidylserine 1-acylhydrolase activity namespace: molecular_function def: "Catalysis of the reaction: phosphatidylserine + H2O = 2-acyl-sn-glycero-3-phosphoserine + fatty acid." [KEGG_REACTION:R04034] synonym: "phosphatidylserine-specific phospholipase A1 activity" BROAD [EC:3.1.1.32] -xref: EC:3.1.1.32 +xref: EC:3.1.1.32 {source="skos:broadMatch"} xref: KEGG_REACTION:R04034 is_a: GO:0004620 ! phospholipase activity [Term] id: GO:0052740 -name: 1-acyl-2-lysophosphatidylserine acylhydrolase activity +name: obsolete 1-acyl-2-lysophosphatidylserine acylhydrolase activity namespace: molecular_function -def: "Catalysis of the reaction: 1-acyl-2-lysophosphatidylserine + H2O = sn-glycerol-phosphoserine + a carboxylate." [EC:3.1.1.32] -synonym: "phosphatidylserine-specific phospholipase A1 activity" BROAD [EC:3.1.1.32] -xref: EC:3.1.1.32 -is_a: GO:0004620 ! phospholipase activity +def: "OBSOLETE. Catalysis of the reaction: 1-acyl-2-lysophosphatidylserine + H2O = sn-glycerol-phosphoserine + a carboxylate." [GOC:curators] +comment: This term was obsoleted because it represents the same activity as phospholipase A1 activity ; GO:0008970. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0008970 [Term] id: GO:0052741 @@ -400239,7 +400236,6 @@ id: GO:0080097 name: L-tryptophan:pyruvate aminotransferase activity namespace: molecular_function def: "Catalysis of the reaction: L-tryptophan + pyruvate = 3-(indol-3-yl)pyruvate + L-alanine." [RHEA:27586] -comment: This reaction falls within the larger set of reactions associated with EC:2.6.1.28 (See BRENDA: http://www.brenda-enzymes.org/php/result_flat.php4?ecno=2.6.1.28; note: 3-indole-2-oxopropanoate = indolepyruvate = 3-(indol-3-yl)pyruvate). xref: EC:2.6.1.99 xref: MetaCyc:RXN-10139 xref: RHEA:27586 @@ -400616,7 +400612,7 @@ creation_date: 2009-04-29T03:34:50Z id: GO:0080130 name: L-phenylalanine-2-oxoglutarate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: L-phenylalanine + 2-oxoglutarate = 3-phenylpyruvate + L-glutamate." [PMID:18394996] +def: "Catalysis of the reaction: L-phenylalanine + 2-oxoglutarate = 3-phenylpyruvate + L-glutamate." [PMID:18394996, RHEA:25152] synonym: "L-phenylalanine:2-oxoglutarate aminotransferase activity" EXACT [] synonym: "L-phenylalanine:alpha-ketoglutarate aminotransferase activity" EXACT [] xref: EC:2.6.1.57 {source="skos:broadMatch"} @@ -431412,11 +431408,13 @@ replaced_by: GO:0033954 [Term] id: GO:0102257 -name: 1-16:0-2-18:2-phosphatidylcholine sn-1 acylhydrolase activity +name: obsolete 1-16:0-2-18:2-phosphatidylcholine sn-1 acylhydrolase activity namespace: molecular_function -def: "Catalysis of the reaction: 1-palmitoyl-2-linoleoyl-phosphatidylcholine + H2O = 1-linoleoyl-sn-glycero-3-phosphocholine + hexadecanoate + H+." [EC:3.1.1.32, GOC:pz] -xref: MetaCyc:RXN-12430 -is_a: GO:0052689 ! carboxylic ester hydrolase activity +def: "OBSOLETE. Catalysis of the reaction: 1-palmitoyl-2-linoleoyl-phosphatidylcholine + H2O = 1-linoleoyl-sn-glycero-3-phosphocholine + hexadecanoate + H+." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of phospholipase A1 activity ; GO:0008970. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0008970 [Term] id: GO:0102258 diff --git a/src/ontology/imports/go-catalytic-activities-participants.owl b/src/ontology/imports/go-catalytic-activities-participants.owl index 678904b459..78d5d8d95d 100644 --- a/src/ontology/imports/go-catalytic-activities-participants.owl +++ b/src/ontology/imports/go-catalytic-activities-participants.owl @@ -129914,32 +129914,7 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - +