From ed1be0b564ec1cae19f7195da5acef71a9c9f243 Mon Sep 17 00:00:00 2001 From: sjm41 Date: Thu, 14 Nov 2024 14:14:48 +0000 Subject: [PATCH] Removing obsolete MetaCyc xrefs as def xrefs. #28523 --- src/ontology/go-edit.obo | 99 ++++++++++++++++++++++------------------ 1 file changed, 54 insertions(+), 45 deletions(-) diff --git a/src/ontology/go-edit.obo b/src/ontology/go-edit.obo index d99c9df6cb..b39d6868d3 100644 --- a/src/ontology/go-edit.obo +++ b/src/ontology/go-edit.obo @@ -127763,7 +127763,7 @@ is_a: GO:0046920 ! alpha-(1->3)-fucosyltransferase activity id: GO:0017084 name: delta1-pyrroline-5-carboxylate synthetase activity namespace: molecular_function -def: "Catalysis of the reaction: L-glutamate + ATP + NADPH = ADP + L-glutamate gamma-semialdehyde + NADP+ + phosphate." [MetaCyc:PROLINE-MULTI] +def: "Catalysis of the reaction: ATP + H+ + L-glutamate + NADPH = ADP + L-glutamate 5-semialdehyde + NADP+ + phosphate." [RHEA:33207] synonym: "D1-pyrroline-5-carboxylate synthetase activity" EXACT [] xref: RHEA:33207 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor @@ -144485,7 +144485,7 @@ replaced_by: GO:0006089 id: GO:0019517 name: L-threonine catabolic process to D-lactate namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of L- threonine (the L-enantiomer of 2-amino-3-hydroxybutyric acid) to form the compound methylglyoxal, which is subsequently converted to D-lactate." [GOC:bf, GOC:jl, MetaCyc:PWY-901, MetaCyc:THRDLCTCAT-PWY] +def: "The chemical reactions and pathways resulting in the breakdown of L- threonine (the L-enantiomer of 2-amino-3-hydroxybutyric acid) to form the compound methylglyoxal, which is subsequently converted to D-lactate." [GOC:bf, GOC:jl, MetaCyc:THRDLCTCAT-PWY] synonym: "L-threonine breakdown to D-lactate" EXACT [GOC:bf] synonym: "L-threonine catabolic process to (R)-lactate" BROAD [GOC:bf] synonym: "L-threonine catabolic process to methylglyoxal" EXACT [MetaCyc:THRDLCTCAT-PWY] @@ -200710,7 +200710,7 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0034078 name: butanediol catabolic process namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of butanediol; the biologically relevant isomer is 2,3-butanediol, CH3CH(OH)CH(OH)CH3." [GOC:mah, ISBN:0911910123, MetaCyc:125-PWY, MetaCyc:BUTANEDIOL] +def: "The chemical reactions and pathways resulting in the breakdown of butanediol; the biologically relevant isomer is 2,3-butanediol, CH3CH(OH)CH(OH)CH3." [GOC:mah, ISBN:0911910123, MetaCyc:BUTANEDIOL] synonym: "butanediol breakdown" EXACT [] synonym: "butanediol catabolism" EXACT [] synonym: "butanediol degradation" EXACT [] @@ -243084,7 +243084,7 @@ is_a: GO:0006520 ! amino acid metabolic process id: GO:0043039 name: tRNA aminoacylation namespace: biological_process -def: "The chemical reactions and pathways by which the various amino acids become bonded to their corresponding tRNAs. The most common route for synthesis of aminoacyl tRNA is by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA and the alpha carboxylic acid group of an amino acid, usually catalyzed by the cognate aminoacyl-tRNA ligase. A given aminoacyl-tRNA ligase aminoacylates all species of an isoaccepting group of tRNA molecules." [GOC:ma, GOC:mah, MetaCyc:Aminoacyl-tRNAs] +def: "The chemical reactions and pathways by which the various amino acids become bonded to their corresponding tRNAs. The most common route for synthesis of aminoacyl tRNA is by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA and the alpha carboxylic acid group of an amino acid, usually catalyzed by the cognate aminoacyl-tRNA ligase. A given aminoacyl-tRNA ligase aminoacylates all species of an isoaccepting group of tRNA molecules." [GOC:ma, GOC:mah] synonym: "aminoacyl-tRNA biosynthesis" EXACT [GOC:mah] synonym: "aminoacyl-tRNA biosynthetic process" EXACT [GOC:mah] synonym: "tRNA charging" EXACT [] @@ -278491,7 +278491,7 @@ intersection_of: has_primary_input_or_output CHEBI:57856 ! S-adenosyl-L-homocyst id: GO:0046499 name: S-adenosylmethioninamine metabolic process namespace: biological_process -def: "The chemical reactions and pathways involving S-adenosylmethioninamine, (5-deoxy-5-adenosyl)(3-aminopropyl) methylsulfonium salt." [GOC:mah, MetaCyc:S-ADENOSYLMETHIONINAMINE] +def: "The chemical reactions and pathways involving S-adenosylmethioninamine, (5-deoxy-5-adenosyl)(3-aminopropyl) methylsulfonium salt." [GOC:mah] synonym: "S-adenosylmethioninamine metabolism" EXACT [] intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:57443 ! S-adenosylmethioninaminium @@ -279271,10 +279271,9 @@ replaced_by: GO:0004190 [Term] id: GO:0046562 -name: glucose oxidase activity +name: beta-D-glucose oxidase activity namespace: molecular_function -def: "Catalysis of the reaction: beta-D-glucose + O2 = D-glucono-1,5-lactone + H2O2." [EC:1.1.3.4, GOC:mah] -synonym: "beta-D-glucose oxidase activity" EXACT [] +def: "Catalysis of the reaction: beta-D-glucose + O2 = D-glucono-1,5-lactone + H2O2." [RHEA:11428] synonym: "beta-D-glucose:oxygen 1-oxido-reductase activity" RELATED [EC:1.1.3.4] synonym: "beta-D-glucose:oxygen 1-oxidoreductase activity" RELATED [EC:1.1.3.4] synonym: "beta-D-glucose:quinone oxidoreductase activity" RELATED [EC:1.1.3.4] @@ -279283,6 +279282,7 @@ synonym: "D-glucose oxidase activity" RELATED [EC:1.1.3.4] synonym: "D-glucose-1-oxidase activity" RELATED [EC:1.1.3.4] synonym: "deoxin-1" RELATED [EC:1.1.3.4] synonym: "glucose aerodehydrogenase activity" RELATED [EC:1.1.3.4] +synonym: "glucose oxidase activity" EXACT [] synonym: "glucose oxyhydrase activity" RELATED [EC:1.1.3.4] synonym: "GOD activity" RELATED [EC:1.1.3.4] synonym: "microcid" RELATED [EC:1.1.3.4] @@ -279292,6 +279292,7 @@ xref: KEGG_REACTION:R01522 xref: MetaCyc:GLUCOSE-OXIDASE-RXN xref: RHEA:11428 is_a: GO:0047979 ! hexose oxidase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28523" xsd:anyURI [Term] id: GO:0046563 @@ -284227,7 +284228,7 @@ is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, id: GO:0047026 name: androsterone dehydrogenase (A-specific) activity namespace: molecular_function -def: "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione. The reaction is A-specific (i.e. the pro-R hydrogen is transferred from the 4-position of reduced nicotinamide cofactor) with respect to NAD(P)+." [EC:1.1.1.213, MetaCyc:1.1.1.213-RXN] +def: "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione. The reaction is A-specific (i.e. the pro-R hydrogen is transferred from the 4-position of reduced nicotinamide cofactor) with respect to NAD(P)+." [EC:1.1.1.213] synonym: "3-alpha-hydroxysteroid dehydrogenase (A-specific) activity" BROAD [EC:1.1.1.213] synonym: "3alpha-hydroxysteroid dehydrogenase (A-specific)" BROAD [EC:1.1.1.213] synonym: "3alpha-hydroxysteroid:NAD(P)+ oxidoreductase (A-specific)" BROAD [EC:1.1.1.213] @@ -284453,7 +284454,7 @@ is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, id: GO:0047042 name: androsterone dehydrogenase (B-specific) activity namespace: molecular_function -def: "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione. The reaction is B-specific (i.e. the pro-S hydrogen is transferred from the 4-position of reduced nicotinamide cofactor) with respect to NAD(P)+." [EC:1.1.1.50, MetaCyc:1.1.1.50-RXN] +def: "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione. The reaction is B-specific (i.e. the pro-S hydrogen is transferred from the 4-position of reduced nicotinamide cofactor) with respect to NAD(P)+." [EC:1.1.1.50] synonym: "3-alpha-HSD activity" RELATED [EC:1.1.1.50] synonym: "3-alpha-hydroxysteroid dehydrogenase (B-specific) activity" BROAD [EC:1.1.1.50] synonym: "3alpha-HSD" RELATED [EC:1.1.1.50] @@ -287131,7 +287132,7 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0047229 name: 13-hydroxydocosanoate 13-beta-glucosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: 13-hydroxydocosanoate + UDP-D-glucose = 13-beta-D-glucosyloxydocosanoate + UDP." [EC:2.4.1.158, MetaCyc:2.4.1.158-RXN] +def: "Catalysis of the reaction: 13-hydroxydocosanoate + UDP-D-glucose = 13-beta-D-glucosyloxydocosanoate + UDP." [EC:2.4.1.158] synonym: "13-glucosyloxydocosanoate 2'-beta-glucosyltransferase activity" RELATED [EC:2.4.1.158] synonym: "UDP-glucose-13-hydroxydocosanoate glucosyltransferase activity" RELATED [EC:2.4.1.158] synonym: "UDP-glucose:13-hydroxydocosanoate 13-beta-D-glucosyltransferase activity" RELATED [EC:2.4.1.158] @@ -287202,7 +287203,7 @@ is_a: GO:0008376 ! acetylgalactosaminyltransferase activity id: GO:0047234 name: raffinose-raffinose alpha-galactotransferase activity namespace: molecular_function -def: "Catalysis of the reaction: 2 raffinose = sucrose + 1F-alpha-D-galactosylraffinose." [EC:2.4.1.166, MetaCyc:2.4.1.166-RXN] +def: "Catalysis of the reaction: 2 raffinose = sucrose + 1F-alpha-D-galactosylraffinose." [EC:2.4.1.166] synonym: "raffinose (raffinose donor) galactosyltransferase activity" RELATED [EC:2.4.1.166] synonym: "raffinose-raffinose a-galactosyltransferase activity" EXACT [] synonym: "raffinose-raffinose alpha-galactosyltransferase activity" EXACT [] @@ -287263,7 +287264,7 @@ is_a: GO:0008376 ! acetylgalactosaminyltransferase activity id: GO:0047238 name: glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: D-glucuronyl-N-acetyl-1,3-beta-D-galactosaminylproteoglycan + UDP-N-acetylgalactosamine = N-acetyl-D-galactosaminyl-1,4-beta-D-glucuronyl-N-acetyl-1,3-beta-D-galactosaminylproteoglycan + UDP." [EC:2.4.1.175, MetaCyc:2.4.1.175-RXN] +def: "Catalysis of the reaction: D-glucuronyl-N-acetyl-1,3-beta-D-galactosaminylproteoglycan + UDP-N-acetylgalactosamine = N-acetyl-D-galactosaminyl-1,4-beta-D-glucuronyl-N-acetyl-1,3-beta-D-galactosaminylproteoglycan + UDP." [EC:2.4.1.175] synonym: "chondroitin synthase activity" RELATED [EC:2.4.1.175] synonym: "glucuronyl-N-acetylgalactosaminylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity" EXACT [] synonym: "glucuronyl-N-acetylgalactosaminylproteoglycan beta-1,4-N-acetylgalactosaminyltransferase activity" EXACT [] @@ -287350,7 +287351,7 @@ is_a: GO:0035251 ! UDP-glucosyltransferase activity id: GO:0047244 name: N-acetylglucosaminyldiphosphoundecaprenol N-acetyl-beta-D-mannosaminyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: N-acetyl-D-glucosaminyldiphosphoundecaprenol + UDP-N-acetyl-D-mannosamine = N-acetyl-beta-D-mannosaminyl-1,4-N-acetyl-D-glucosaminyldiphosphoundecaprenol + UDP." [EC:2.4.1.187, MetaCyc:2.4.1.187-RXN] +def: "Catalysis of the reaction: N-acetyl-D-glucosaminyldiphosphoundecaprenol + UDP-N-acetyl-D-mannosamine = N-acetyl-beta-D-mannosaminyl-1,4-N-acetyl-D-glucosaminyldiphosphoundecaprenol + UDP." [EC:2.4.1.187] synonym: "N-acetylmannosaminyltransferase activity" RELATED [EC:2.4.1.187] synonym: "UDP-N-acetyl-D-mannosamine:N-acetyl-beta-D-glucosaminyldiphosphoundecaprenol beta-1,4-N-acetylmannosaminyltransferase activity" RELATED [EC:2.4.1.187] synonym: "UDP-N-acetylmannosamine:N-acetylglucosaminyl diphosphorylundecaprenol N-acetylmannosaminyltransferase activity" RELATED [EC:2.4.1.187] @@ -287509,7 +287510,7 @@ is_a: GO:0140103 ! catalytic activity, acting on a glycoprotein id: GO:0047254 name: 2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-D-glucosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: 2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one + UDP-D-glucose = 2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-D-glucoside + UDP." [EC:2.4.1.202, MetaCyc:2.4.1.202-RXN] +def: "Catalysis of the reaction: 2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one + UDP-D-glucose = 2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-D-glucoside + UDP." [EC:2.4.1.202] synonym: "UDP-glucose:2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-D-glucosyltransferase activity" RELATED [EC:2.4.1.202] synonym: "UDPglucose:2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-D-glucosyltransferase activity" RELATED [EC:2.4.1.202] synonym: "uridine diphosphoglucose-2,4-dihydroxy-7-methoxy-2H-1,4-benzoxazin-3(4H)-one 2-glucosyltransferase activity" RELATED [EC:2.4.1.202] @@ -287727,7 +287728,7 @@ is_a: GO:0008378 ! galactosyltransferase activity id: GO:0047269 name: poly(ribitol-phosphate) N-acetylglucosaminyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: poly(ribitol phosphate) + UDP-N-acetyl-D-glucosamine = N-acetyl-D-glucosaminyl-poly(ribitol phosphate) + UDP." [EC:2.4.1.70, MetaCyc:2.4.1.70-RXN] +def: "Catalysis of the reaction: poly(ribitol phosphate) + UDP-N-acetyl-D-glucosamine = N-acetyl-D-glucosaminyl-poly(ribitol phosphate) + UDP." [EC:2.4.1.70] synonym: "UDP acetylglucosamine-poly(ribitol phosphate) acetylglucosaminyltransferase activity" RELATED [EC:2.4.1.70] synonym: "UDP-N-acetyl-D-glucosamine:poly(ribitol-phosphate) N-acetyl-D-glucosaminyltransferase activity" RELATED [EC:2.4.1.70] synonym: "uridine diphosphoacetylglucosamine-poly(ribitol phosphate) acetylglucosaminyltransferase activity" RELATED [EC:2.4.1.70] @@ -287830,7 +287831,7 @@ id: GO:0047276 name: N-acetyllactosaminide 3-alpha-galactosyltransferase activity namespace: molecular_function alt_id: GO:0003946 -def: "Catalysis of the reaction: beta-D-galactosyl-(1,4)-beta-N-acetyl-D-glucosaminyl-R + UDP-galactose = alpha-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-N-acetyl-D-glucosaminyl-R + UDP." [EC:2.4.1.87, MetaCyc:2.4.1.87-RXN, RHEA:13013] +def: "Catalysis of the reaction: beta-D-galactosyl-(1,4)-beta-N-acetyl-D-glucosaminyl-R + UDP-galactose = alpha-D-galactosyl-(1,3)-beta-D-galactosyl-(1,4)-beta-N-acetyl-D-glucosaminyl-R + UDP." [EC:2.4.1.87, RHEA:13013] synonym: "alpha-galactosyltransferase activity" RELATED [EC:2.4.1.87] synonym: "beta-D-galactosyl-N-acetylglucosaminylglycopeptide alpha-1,3-galactosyltransferase activity" RELATED [EC:2.4.1.87] synonym: "beta-galactosyl-N-acetylglucosaminylglycopeptide alpha-1,3-galactosyltransferase activity" EXACT [] @@ -289068,7 +289069,7 @@ is_a: GO:0016780 ! phosphotransferase activity, for other substituted phosphate id: GO:0047356 name: CDP-ribitol ribitolphosphotransferase activity namespace: molecular_function -def: "Catalysis of the reaction: ribitol phosphate(n) + CDP-ribitol = ribitol phosphate(n+1) + CMP." [EC:2.7.8.14, MetaCyc:2.7.8.14-RXN] +def: "Catalysis of the reaction: ribitol phosphate(n) + CDP-ribitol = ribitol phosphate(n+1) + CMP." [EC:2.7.8.14] synonym: "CDP-ribitol:poly(ribitol phosphate) ribitolphosphotransferase activity" RELATED [EC:2.7.8.14] synonym: "CDPribitol ribitolphosphotransferase activity" RELATED [EC:2.7.8.14] synonym: "poly(ribitol phosphate) synthetase activity" RELATED [EC:2.7.8.14] @@ -289761,17 +289762,19 @@ is_a: GO:0140096 ! catalytic activity, acting on a protein id: GO:0047403 name: lacto-N-biosidase activity namespace: molecular_function -def: "Catalysis of the reaction: H2O + beta-D-Gal-(1,3)-beta-D-GlcNAc-(1,3)-beta-D-Gal-(1,4)-D-Glc = beta-D-Gal-(1,4)-D-Glc + beta-D-Gal-(1,3)-D-GlcNAc." [EC:3.2.1.140, MetaCyc:3.2.1.140-RXN] +def: "Catalysis of the reaction: H2O + beta-D-Gal-(1,3)-beta-D-GlcNAc-(1,3)-beta-D-Gal-(1,4)-D-Glc = beta-D-Gal-(1,4)-D-Glc + beta-D-Gal-(1,3)-D-GlcNAc." [EC:3.2.1.140] synonym: "oligosaccharide lacto-N-biosylhydrolase activity" RELATED [EC:3.2.1.140] xref: EC:3.2.1.140 +xref: MetaCyc:RXN-8731 xref: RHEA:21568 is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28523" xsd:anyURI [Term] id: GO:0047404 name: glucuronosyl-disulfoglucosamine glucuronidase activity namespace: molecular_function -def: "Catalysis of the reaction: H2O + 3-D-glucuronosyl-N2-,6-disulfo-beta-D-glucosamine = glucuronate + N2,6-disulfo-D-glucosamine." [EC:3.2.1.56, MetaCyc:3.2.1.56-RXN] +def: "Catalysis of the reaction: H2O + 3-D-glucuronosyl-N2-,6-disulfo-beta-D-glucosamine = glucuronate + N2,6-disulfo-D-glucosamine." [EC:3.2.1.56] synonym: "3-D-glucuronsyl-2-N,6-disulfo-beta-D-glucosamine glucuronohydrolase activity" RELATED [EC:3.2.1.56] synonym: "3-D-glucuronsyl-N2,6-disulfo-beta-D-glucosamine glucuronohydrolase activity" RELATED [EC:3.2.1.56] synonym: "glucuronosyl-disulphoglucosamine glucuronidase activity" EXACT [] @@ -290690,7 +290693,7 @@ is_obsolete: true id: GO:0047468 name: phosphoglucomutase (glucose-cofactor) activity namespace: molecular_function -def: "Catalysis of the reaction: glucose-1-phosphate = glucose-6-phosphate; using D-glucose as a cofactor." [EC:5.4.2.5, MetaCyc:5.4.2.5-RXN] +def: "Catalysis of the reaction: glucose-1-phosphate = glucose-6-phosphate; using D-glucose as a cofactor." [EC:5.4.2.5] synonym: "alpha-D-glucose 1,6-phosphomutase (glucose-cofactor)" RELATED [EC:5.4.2.5] synonym: "glucose-1-phosphate phosphotransferase activity" RELATED [EC:5.4.2.5] xref: EC:5.4.2.5 @@ -291372,7 +291375,7 @@ is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, id: GO:0047517 name: 1,4-beta-D-xylan synthase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-D-xylose + [(1->4)-beta-D-xylan](n) = UDP + [(1->4)-beta-D-xylan](n+1)." [EC:2.4.2.24, MetaCyc:1\,4-BETA-D-XYLAN-SYNTHASE-RXN] +def: "Catalysis of the reaction: UDP-D-xylose + [(1->4)-beta-D-xylan](n) = UDP + [(1->4)-beta-D-xylan](n+1)." [EC:2.4.2.24] synonym: "1,4-beta-xylan synthase activity" RELATED [EC:2.4.2.24] synonym: "UDP-D-xylose:1,4-beta-D-xylan 4-beta-D-xylosyltransferase activity" RELATED [EC:2.4.2.24] synonym: "uridine diphosphoxylose-1,4-beta-xylan xylosyltransferase activity" RELATED [EC:2.4.2.24] @@ -291473,7 +291476,7 @@ is_a: GO:0016854 ! racemase and epimerase activity id: GO:0047525 name: 2'-hydroxydaidzein reductase activity namespace: molecular_function -def: "Catalysis of the reaction: 2'-hydroxydihydrodaidzein + NADP+ = 2'-hydroxydaidzein + NADPH + H+." [EC:1.3.1.51, MetaCyc:2'-HYDROXYDAIDZEIN-REDUCTASE-RXN] +def: "Catalysis of the reaction: 2'-hydroxydihydrodaidzein + NADP+ = 2'-hydroxydaidzein + NADPH + H+." [EC:1.3.1.51] synonym: "2'-hydroxy-2,3-dihydrodaidzein:NADP+ 2'-oxidoreductase activity" RELATED [EC:1.3.1.51] synonym: "2'-hydroxydihydrodaidzein:NADP(+) 2'-oxidoreductase activity" RELATED [EC:1.3.1.51] synonym: "2'-hydroxydihydrodaidzein:NADP+ 2'-oxidoreductase activity" RELATED [EC:1.3.1.51] @@ -291502,7 +291505,7 @@ is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, id: GO:0047527 name: 2,3-dihydroxybenzoate-serine ligase activity namespace: molecular_function -def: "Catalysis of the reaction: ATP + 2,3-dihydroxybenzoate + L-serine = products of ATP breakdown + N-(2,3-dihydroxybenzoyl)-L-serine." [EC:6.3.2.14, MetaCyc:1\,3-DIHYDROXYBENZOATE--SERINE-LIGASE-RXN] +def: "Catalysis of the reaction: ATP + 2,3-dihydroxybenzoate + L-serine = products of ATP breakdown + N-(2,3-dihydroxybenzoyl)-L-serine." [EC:6.3.2.14] synonym: "2,3-dihydroxybenzoate:L-serine ligase activity" RELATED [EC:6.3.2.14] synonym: "2,3-dihydroxybenzoylserine synthetase activity" RELATED [EC:6.3.2.14] synonym: "N-(2,3-dihydroxybenzoyl)-serine synthetase activity" RELATED [EC:6.3.2.14] @@ -292175,7 +292178,7 @@ is_a: GO:0016791 ! phosphatase activity id: GO:0047573 name: 4-acetamidobutyrate deacetylase activity namespace: molecular_function -def: "Catalysis of the reaction: 4-acetamidobutanoate + H2O = acetate + 4-aminobutanoate." [EC:3.5.1.63, MetaCyc:4-ACETAMIDOBUTYRATE-DEACETYLASE-RXN] +def: "Catalysis of the reaction: 4-acetamidobutanoate + H2O = acetate + 4-aminobutanoate." [EC:3.5.1.63] synonym: "4-acetamidobutanoate amidohydrolase activity" RELATED [EC:3.5.1.63] xref: EC:3.5.1.63 xref: MetaCyc:RXN-36 @@ -292872,7 +292875,7 @@ is_a: GO:0008477 ! purine nucleosidase activity id: GO:0047623 name: adenosine-phosphate deaminase activity namespace: molecular_function -def: "Catalysis of the reaction: an adenosine-phosphate + H20 = an inosine phosphate + NH3. Catalyzes the deamination of AMP, ADP or ATP." [EC:3.5.4.17, GOC:bf, MetaCyc:ADENOSINE-PHOSPHATE-DEAMINASE-RXN] +def: "Catalysis of the reaction: an adenosine-phosphate + H20 = an inosine phosphate + NH3. Catalyzes the deamination of AMP, ADP or ATP." [EC:3.5.4.17] comment: Consider instead annotating to one of the more specific terms: AMP deaminase activity ; GO:0003876, ADP deaminase activity ; GO:0047629, or ATP deaminase activity ; GO:0047692. synonym: "adenine nucleotide deaminase activity" RELATED [EC:3.5.4.17] synonym: "adenosine (phosphate) deaminase activity" RELATED [EC:3.5.4.17] @@ -292977,7 +292980,7 @@ is_a: GO:0016791 ! phosphatase activity id: GO:0047631 name: ADP-ribose diphosphatase activity namespace: molecular_function -def: "Catalysis of the reaction: ADP-ribose + H2O = AMP + D-ribose 5-phosphate." [EC:3.6.1.13, MetaCyc:ADP-RIBOSE-PYROPHOSPHATASE-RXN] +def: "Catalysis of the reaction: ADP-ribose + H2O = AMP + D-ribose 5-phosphate." [EC:3.6.1.13] synonym: "adenosine diphosphoribose pyrophosphatase activity" EXACT [] synonym: "ADP-ribose phosphohydrolase activity" EXACT [] synonym: "ADP-ribose pyrophosphatase activity" EXACT [] @@ -294321,7 +294324,7 @@ is_a: GO:0008477 ! purine nucleosidase activity id: GO:0047725 name: inulosucrase activity namespace: molecular_function -def: "Catalysis of the reaction: sucrose + 2,1-beta-D-fructosyl(n) = glucose + 2,1-beta-D-fructosyl(n+1)." [EC:2.4.1.9, MetaCyc:INULOSUCRASE-RXN] +def: "Catalysis of the reaction: sucrose + 2,1-beta-D-fructosyl(n) = glucose + 2,1-beta-D-fructosyl(n+1)." [EC:2.4.1.9] synonym: "sucrose 1-fructosyl transferase activity" RELATED [EC:2.4.1.9] synonym: "sucrose 1-fructosyltransferase activity" RELATED [EC:2.4.1.9] synonym: "sucrose:2,1-beta-D-fructan 1-beta-D-fructosyltransferase activity" RELATED [EC:2.4.1.9] @@ -294851,7 +294854,7 @@ is_a: GO:0016702 ! oxidoreductase activity, acting on single donors with incorpo id: GO:0047763 name: caffeate O-methyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: S-adenosyl-L-methionine + 3,4-dihydroxy-trans-cinnamate = S-adenosyl-L-homocysteine + 3-methoxy-4-hydroxy-trans-cinnamate." [EC:2.1.1.68, MetaCyc:CAFFEATE-O-METHYLTRANSFERASE-RXN] +def: "Catalysis of the reaction: S-adenosyl-L-methionine + 3,4-dihydroxy-trans-cinnamate = S-adenosyl-L-homocysteine + 3-methoxy-4-hydroxy-trans-cinnamate." [EC:2.1.1.68] synonym: "caffeate 3-O-methyltransferase activity" RELATED [EC:2.1.1.68] synonym: "caffeate methyltransferase activity" RELATED [EC:2.1.1.68] synonym: "S-adenosyl-L-methionine:3,4-dihydroxy-trans-cinnamate 3-O-methyltransferase activity" RELATED [EC:2.1.1.68] @@ -295271,7 +295274,7 @@ is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, id: GO:0047792 name: cyanohydrin beta-glucosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-glucose + (S)-4-hydroxymandelonitrile = UDP + (S)-4-hydroxy-mandelonitrile beta-D-glucoside." [EC:2.4.1.85, MetaCyc:CYANOHYDRIN-BETA-GLUCOSYLTRANSFERASE-RXN] +def: "Catalysis of the reaction: UDP-glucose + (S)-4-hydroxymandelonitrile = UDP + (S)-4-hydroxy-mandelonitrile beta-D-glucoside." [EC:2.4.1.85] synonym: "cyanohydrin b-glucosyltransferase activity" EXACT [] synonym: "UDP-D-glucose:(S)-4-hydroxymandelonitrile beta-D-glucosyltransferase activity" RELATED [EC:2.4.1.85] synonym: "UDP-glucose-p-hydroxymandelonitrile glucosyltransferase activity" RELATED [EC:2.4.1.85] @@ -295282,8 +295285,10 @@ synonym: "uridine diphosphoglucose-cyanohydrin glucosyltransferase activity" REL synonym: "uridine diphosphoglucose-p-hydroxymandelonitrile glucosyltransferase activity" RELATED [EC:2.4.1.85] synonym: "uridine diphosphoglucose:aldehyde cyanohydrin beta-glucosyltransferase activity" RELATED [EC:2.4.1.85] xref: EC:2.4.1.85 +xref: MetaCyc:RXN-743 xref: RHEA:12853 is_a: GO:0035251 ! UDP-glucosyltransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28523" xsd:anyURI [Term] id: GO:0047793 @@ -296758,7 +296763,7 @@ is_a: GO:0008146 ! sulfotransferase activity id: GO:0047895 name: formaldehyde dismutase activity namespace: molecular_function -def: "Catalysis of the reaction: 2 formaldehyde + H2O = methanol + formate." [EC:1.2.98.1, MetaCyc:FORMALDEHYDE-DISMUTASE-RXN] +def: "Catalysis of the reaction: 2 formaldehyde + H2O = methanol + formate." [EC:1.2.98.1] synonym: "aldehyde dismutase activity" RELATED [EC:1.2.98.1] synonym: "cannizzanase activity" RELATED [EC:1.2.98.1] synonym: "formaldehyde:formaldehyde oxidoreductase activity" RELATED [EC:1.2.98.1] @@ -297250,7 +297255,7 @@ id: GO:0047930 name: glucosaminate ammonia-lyase activity namespace: molecular_function alt_id: GO:0050443 -def: "Catalysis of the reaction: D-glucosaminate = 2-dehydro-3-deoxy-D-gluconate + NH3." [EC:4.3.1.9, MetaCyc:GLUCOSAMINATE-AMMONIA-LYASE-RXN] +def: "Catalysis of the reaction: D-glucosaminate = 2-dehydro-3-deoxy-D-gluconate + NH3." [EC:4.3.1.9] comment: Note that this function was EC:4.3.1.21. synonym: "2-amino-2-deoxy-D-gluconate ammonia-lyase activity" RELATED [EC:4.3.1.9] synonym: "2-amino-2-deoxy-D-gluconate hydro-lyase (deaminating) activity" RELATED [EC:4.3.1.9] @@ -297961,10 +297966,14 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0047979 name: hexose oxidase activity namespace: molecular_function -def: "Catalysis of the reaction: hexose + O2 = aldono-1,5-lactone + H202." [EC:1.1.3.5, MetaCyc:HEXOSE-OXIDASE-RXN] +def: "Catalysis of the reaction: hexose + O2 = aldono-1,5-lactone + H202." [EC:1.1.3.5] synonym: "D-hexose:oxygen 1-oxidoreductase activity" RELATED [EC:1.1.3.5] -xref: EC:1.1.3.5 +xref: EC:1.1.3.5 {source="skos:exactMatch"} +xref: MetaCyc:RXN-13740 {source="skos:narrowMatch"} +xref: MetaCyc:RXN-13741 {source="skos:narrowMatch"} +xref: MetaCyc:RXN-17229 {source="skos:narrowMatch"} is_a: GO:0016899 ! oxidoreductase activity, acting on the CH-OH group of donors, oxygen as acceptor +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28523" xsd:anyURI [Term] id: GO:0047980 @@ -298219,7 +298228,7 @@ is_a: GO:0046857 ! oxidoreductase activity, acting on other nitrogenous compound id: GO:0048000 name: isoflavone 3'-hydroxylase activity namespace: molecular_function -def: "Catalysis of the reaction: formononetin + NADPH + O2 = calycosin + NADP+ + H2O." [EC:1.14.14.88, MetaCyc:ISOFLAVONE-3'-HYDROXYLASE-RXN] +def: "Catalysis of the reaction: formononetin + NADPH + O2 = calycosin + NADP+ + H2O." [EC:1.14.14.88] synonym: "formononetin,NADPH:oxygen oxidoreductase (3'-hydroxylating)" RELATED [EC:1.14.14.88] synonym: "isoflavone 3'-monooxygenase activity" RELATED [EC:1.14.14.88] xref: EC:1.14.14.88 @@ -311324,7 +311333,7 @@ is_a: GO:0016646 ! oxidoreductase activity, acting on the CH-NH group of donors, id: GO:0050306 name: sucrose 1F-fructosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: 2 sucrose = D-glucose + 1F-beta-D-fructosylsucrose." [EC:2.4.1.99, MetaCyc:SUCROSE-1F-FRUCTOSYLTRANSFERASE-RXN] +def: "Catalysis of the reaction: 2 sucrose = D-glucose + 1F-beta-D-fructosylsucrose." [EC:2.4.1.99] synonym: "SST activity" RELATED [EC:2.4.1.99] synonym: "sucrose 1(F)-fructosyltransferase activity" RELATED [EC:2.4.1.99] synonym: "sucrose-sucrose 1-fructosyltransferase activity" RELATED [EC:2.4.1.99] @@ -311368,7 +311377,7 @@ is_a: GO:0019203 ! carbohydrate phosphatase activity id: GO:0050309 name: sugar-terminal-phosphatase activity namespace: molecular_function -def: "Catalysis of the reaction: H2O + sugar phosphorylated on the terminal carbon = a sugar + phosphate." [EC:3.1.3.58, MetaCyc:SUGAR-TERMINAL-PHOSPHATASE-RXN] +def: "Catalysis of the reaction: H2O + sugar phosphorylated on the terminal carbon = a sugar + phosphate." [EC:3.1.3.58] synonym: "sugar-omega-phosphate phosphohydrolase activity" EXACT systematic_synonym [EC:3.1.3.58] synonym: "xylitol-5-phosphatase activity" NARROW [EC:3.1.3.58] xref: EC:3.1.3.58 @@ -311455,7 +311464,7 @@ is_a: GO:0016836 ! hydro-lyase activity id: GO:0050316 name: T2-induced deoxynucleotide kinase activity namespace: molecular_function -def: "Catalysis of the reactions: ATP + dGMP = ADP + dGDP, and ATP + dTMP = ADP + dTDP." [EC:2.7.4.12, MetaCyc:T2-INDUCED-DEOXYNUCLEOTIDE-KINASE-RXN] +def: "Catalysis of the reactions: ATP + dGMP = ADP + dGDP, and ATP + dTMP = ADP + dTDP." [EC:2.7.4.12] synonym: "ATP:(d)NMP phosphotransferase activity" RELATED [EC:2.7.4.12] xref: EC:2.7.4.12 xref: MetaCyc:GMKALT-RXN @@ -311935,7 +311944,7 @@ is_a: GO:0052689 ! carboxylic ester hydrolase activity id: GO:0050350 name: trihydroxystilbene synthase activity namespace: molecular_function -def: "Catalysis of the reaction: 3 malonyl-CoA + 4-coumaroyl-CoA = 4 CoA + 3,4',5-trihydroxy-stilbene + 4 CO2." [EC:2.3.1.95, MetaCyc:TRIHYDROXYSTILBENE-SYNTHASE-RXN] +def: "Catalysis of the reaction: 3 malonyl-CoA + 4-coumaroyl-CoA = 4 CoA + 3,4',5-trihydroxy-stilbene + 4 CO2." [EC:2.3.1.95] synonym: "malonyl-CoA:4-coumaroyl-CoA malonyltransferase (cyclizing)" BROAD [EC:2.3.1.95] synonym: "resveratrol synthase activity" RELATED [EC:2.3.1.95] synonym: "stilbene synthase activity" BROAD [EC:2.3.1.95] @@ -312224,7 +312233,7 @@ is_a: GO:0016869 ! intramolecular aminotransferase activity id: GO:0050369 name: [tyrosine 3-monooxygenase] kinase activity namespace: molecular_function -def: "Catalysis of the reaction: ATP + L-seryl-[tyrosine-3-monooxygenase] = ADP + H+ + O-phospho-L-seryl-[tyrosine-3-monooxygenase]." [EC:2.7.11.6, MetaCyc:TYROSINE-3-MONOOXYGENASE-KINASE-RXN] +def: "Catalysis of the reaction: ATP + L-seryl-[tyrosine-3-monooxygenase] = ADP + H+ + O-phospho-L-seryl-[tyrosine-3-monooxygenase]." [EC:2.7.11.6] synonym: "ATP:tyrosine-3-monoxygenase phosphotransferase activity" RELATED [EC:2.7.11.6] synonym: "pheochromocytoma tyrosine hydroxylase-associated kinase activity" RELATED [EC:2.7.11.6] synonym: "STK4" RELATED [EC:2.7.11.6] @@ -312672,7 +312681,7 @@ is_a: GO:0016836 ! hydro-lyase activity id: GO:0050402 name: xylono-1,4-lactonase activity namespace: molecular_function -def: "Catalysis of the reaction: D-xylono-1,4-lactone + H2O = D-xylonate." [EC:3.1.1.68, MetaCyc:XYLONO-14-LACTONASE-RXN] +def: "Catalysis of the reaction: D-xylono-1,4-lactone + H2O = D-xylonate." [EC:3.1.1.68] synonym: "D-xylono-1,4-lactone lactonohydrolase activity" RELATED [EC:3.1.1.68] synonym: "xylono-g-lactonase activity" RELATED [EC:3.1.1.68] synonym: "xylonolactonase activity" RELATED [EC:3.1.1.68] @@ -312902,7 +312911,7 @@ is_a: GO:0016813 ! hydrolase activity, acting on carbon-nitrogen (but not peptid id: GO:0050417 name: glutamin-(asparagin-)ase activity namespace: molecular_function -def: "Catalysis of the reaction: H2O + L-glutamine = NH3 + L-glutamate; and H2O + L-asparagine = NH3 + L-aspartate." [EC:3.5.1.38, MetaCyc:GLUTAMINASE-ASPARAGIN-ASE-RXN] +def: "Catalysis of the reaction: H2O + L-glutamine = NH3 + L-glutamate; and H2O + L-asparagine = NH3 + L-aspartate." [EC:3.5.1.38] synonym: "glutaminase-(asparagin-)ase activity" EXACT [] synonym: "glutaminase-asparaginase activity" RELATED [EC:3.5.1.38] synonym: "L-ASNase/L-GLNase activity" RELATED [EC:3.5.1.38] @@ -314148,7 +314157,7 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0050510 name: N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: N-acetyl-beta-D-galactosaminyl-(1,4)-beta-D-glucuronosyl-proteoglycan + UDP-alpha-D-glucuronate = beta-D-glucuronosyl-(1,3)-N-acetyl-beta-D-galactosaminyl-(1,4)-beta-D-glucuronosyl-proteoglycan + UDP." [EC:2.4.1.226, MetaCyc:2.4.1.226-RXN] +def: "Catalysis of the reaction: N-acetyl-beta-D-galactosaminyl-(1,4)-beta-D-glucuronosyl-proteoglycan + UDP-alpha-D-glucuronate = beta-D-glucuronosyl-(1,3)-N-acetyl-beta-D-galactosaminyl-(1,4)-beta-D-glucuronosyl-proteoglycan + UDP." [EC:2.4.1.226] synonym: "alpha-D-glucuronate:N-acetyl-beta-D-galactosaminyl-(1->4)-beta-D-glucuronosyl-proteoglycan 3-beta-glucuronosyltransferase activity" RELATED [EC:2.4.1.226] synonym: "chondroitin glucuronyltransferase II activity" RELATED [EC:2.4.1.226] synonym: "N-acetylgalactosaminyl-proteoglycan 3-b-glucuronosyltransferase activity" EXACT [] @@ -315231,7 +315240,7 @@ id: GO:0050589 name: leucocyanidin oxygenase activity namespace: molecular_function alt_id: GO:0045432 -def: "Catalysis of the reaction: leucocyanidin + 2-oxoglutarate + O2 = cis- or trans-dihydroquercetin + succinate + CO2 + 2 H2O." [EC:1.14.20.4, MetaCyc:1.14.11.19-RXN] +def: "Catalysis of the reaction: leucocyanidin + 2-oxoglutarate + O2 = cis- or trans-dihydroquercetin + succinate + CO2 + 2 H2O." [EC:1.14.20.4] synonym: "anthocyanidin synthase activity" RELATED [EC:1.14.20.4] synonym: "leucoanthocyanidin dioxygenase activity" RELATED [EC:1.14.20.4] synonym: "leucoanthocyanidin hydroxylase" RELATED [EC:1.14.20.4] @@ -360088,7 +360097,7 @@ creation_date: 2015-01-22T08:51:31Z id: GO:0061681 name: Entner-Doudoroff pathway through gluconate to D-glyceraldehyde-3-phosphate namespace: biological_process -def: "The Entner-Doudoroff pathway that proceeds through a D-gluconate intermediate and yields pyruvate and D-glyceraldehyde-3-phosphate." [GOC:dph, MetaCyc:ENTNER-DOUFDOROFF-PWY-III, PMID:12921536] +def: "The Entner-Doudoroff pathway that proceeds through a D-gluconate intermediate and yields pyruvate and D-glyceraldehyde-3-phosphate." [GOC:dph, PMID:12921536] xref: MetaCyc:PWY-2221 is_a: GO:0061679 ! Entner-Doudoroff pathway through gluconate intersection_of: GO:0061679 ! Entner-Doudoroff pathway through gluconate