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Catalytic activity (MF) terms with multiple MetaCyc mappings #28526

Closed sjm41 closed 3 months ago

sjm41 commented 4 months ago

The following 96 MF terms each have multiple mappings to MetaCyc IDs. Need to review, and tag with exact/broad/narrowMatch as appropriate, or remove any incorrect mappings.

sjm41 commented 3 months ago

id: GO:0019156 name: isoamylase activity def: "Catalysis of the hydrolysis of alpha-(1,6)-D-glucosidic branch linkages in glycogen, amylopectin and their beta-limits dextrins." [EC:3.2.1.68] xref: EC:3.2.1.68 --> EXACT xref: MetaCyc:3.2.1.68-RXN --> EXACT xref: MetaCyc:RXN-12280 --> NARROW xref: MetaCyc:RXN-14380 --> NARROW

id: GO:0016041 name: glutamate synthase (ferredoxin) activity def: "Catalysis of the reaction: 2 L-glutamate + 2 oxidized ferredoxin = L-glutamine + 2-oxoglutarate + 2 reduced ferredoxin + 2 H+. This is a two-step reaction: (a) L-glutamate + NH3 = L-glutamine + H2O, (b) L-glutamate + 2 oxidized ferredoxin + H2O = NH3 + 2-oxoglutarate + 2 reduced ferredoxin + 2 H+." [EC:1.4.7.1] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.4.7.1 --> EXACT xref: MetaCyc:GLUTAMATE-SYNTHASE-FERREDOXIN-RXN --> EXACT xref: MetaCyc:PWY-4341 --> RELATED xref: RHEA:12128 --> EXACT

id: GO:0043799 name: glycine oxidase activity def: "Catalysis of the reactions: (1) glycine + H2O + O2 = glyoxylate + NH3 + hydrogen peroxide; (2) D-alanine + H2O + O2 = pyruvate + NH3 + hydrogen peroxide; (3) sarcosine + H2O + O2 = glyoxylate + methylamine + hydrogen peroxide; (4) N-ethylglycine + H2O + O2 = glyoxylate + ethylamine + hydrogen peroxide." [EC:1.4.3.19] xref: EC:1.4.3.19 -> EXACT xref: MetaCyc:1.4.3.19-RXN -> NARROW xref: MetaCyc:RXN-8672 -> NARROW xref: MetaCyc:RXN-8673 -> NARROW xref: MetaCyc:RXN-8674 -> NARROW

Also add these as NARROW xrefs: RHEA:11532 | glycine + H2O + O2 = glyoxylate + H2O2 + NH4+ RHEA:12472 | H2O + N-ethylglycine + O2 = ethylamine + glyoxylate + H2O2 RHEA:15165 | H2O + O2 + sarcosine = glyoxylate + H2O2 + methylamine RHEA:22688 | D-alanine + H2O + O2 = H2O2 + NH4+ + pyruvate

id: GO:0008106 name: alcohol dehydrogenase (NADP+) activity def: "Catalysis of the reaction: an alcohol + NADP+ = an aldehyde + NADPH + H+." [EC:1.1.1.2] xref: EC:1.1.1.2 xref: MetaCyc:ALCOHOL-DEHYDROGENASE-NADPORNOP+-RXN xref: RHEA:15937

Need to remove xref on this obsolete term:

id: GO:0103050 name: obsolete isobutyraldehyde reductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: isobutanol + NADP = isobutyraldehyde + NADPH + H+." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of alcohol dehydrogenase (NADP+) activity; GO:0008106. xref: MetaCyc:RXN0-7119 is_obsolete: true replaced_by: GO:0008106

id: GO:0001681 name: sialate O-acetylesterase activity def: "Catalysis of the reaction: N-acetyl-O-acetylneuraminate (free or glycosidically bound) + H2O = N-acetylneuraminate + acetate." [EC:3.1.1.53, PMID:1991039] xref: EC:3.1.1.53 xref: MetaCyc:RXN-13181 --> move to GO:0106331 sialate 4-O-acetylesterase activity xref: MetaCyc:RXN-13182 --> move to GO:0106330 sialate 9-O-acetylesterase activity

id: GO:0004663 name: Rab geranylgeranyltransferase activity 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] xref: EC:2.5.1.60 xref: MetaCyc:RXN-19995 --> NARROW xref: MetaCyc:RXN-19996 --> NARROW xref: MetaCyc:RXN-19997 --> NARROW

id: GO:0008482 name: sulfite oxidase activity namespace: molecular_function def: "Catalysis of the reaction: H2O + O2 + sulfite = H2O2 + H+ + sulfate." [EC:1.8.3.1, RHEA:24600] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.8.3.1 --> EXACT xref: KEGG_REACTION:R00533 --> EXACT xref: MetaCyc:PWY-5326 --> RELATED xref: MetaCyc:SULFITE-OXIDASE-RXN --> EXACT xref: RHEA:24600 --> EXACT

id: GO:0050378 name: UDP-glucuronate 4-epimerase activity def: "Catalysis of the reaction: UDP-alpha-D-glucuronate = UDP-alpha-D-galacturonate." [EC:5.1.3.6, RHEA:11404] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:5.1.3.6 --> EXACT xref: KEGG_REACTION:R01385 --> EXACT xref: MetaCyc:PWY-4861 --> RELATED xref: MetaCyc:UDP-GLUCURONATE-4-EPIMERASE-RXN --> EXACT xref: RHEA:11404 --> EXACT

id: GO:0102365 name: taxoid 2alpha-hydroxylase activity def: "Catalysis of the reaction: taxusin + NADPH + O2 + H+ = 2-alpha-hydroxytaxusin + NADP + H2O. Also converts 7beta-hydroxytaxusin to 2alpha,7beta-dihydroxytaxusin." [EC:1.14.14.183, PMID:15178487] xref: EC:1.14.14.183 {source="skos:exactMatch"} xref: MetaCyc:RXN-13486 --> NARROW xref: MetaCyc:RXN-13487 --> NARROW xref: RHEA:71399 {source="skos:narrowMatch"} xref: RHEA:71407 {source="skos:narrowMatch"}

id: GO:0016631 name: enoyl-[acyl-carrier-protein] reductase activity (NAD(P)H) def: "Catalysis of the reaction: acyl-[acyl-carrier protein] + NAD(P)+ = trans-2,3-dehydroacyl-[acyl-carrier protein] + NAD(P)H + H+." [GOC:rb] comment: This term should not be used for direct annotation; please use of the children that specifies the cofactor of the reaction (NAD+ or NADP+): enoyl-[acyl-carrier-protein] reductase (NADH) activity ; GO:0004318 or enoyl-[acyl-carrier-protein] reductase (NADPH) activity ; GO:0141148. xref: MetaCyc:RXN1G-2527 --> MetaCyc maps to EC:2.1.1.- ---> REMOVE xref: MetaCyc:RXN1G-2544 --> MetaCyc maps to EC:2.1.1.79 --> make NARROW on GO:0008825 xref: MetaCyc:RXN1G-3232 --> MetaCyc maps to EC:2.1.1.- ---> REMOVE xref: MetaCyc:RXN1G-3256 --> MetaCyc maps to EC:2.1.1.M101. ---> REMOVE xref: MetaCyc:RXN1G-3613 --> MetaCyc maps to EC:2.1.1.- ---> REMOVE xref: MetaCyc:RXN1G-3641 --> MetaCyc maps to EC:2.1.1.79 --> make NARROW on GO:0008825 xref: MetaCyc:RXN1G-3667 --> MetaCyc maps to [no EC assigned]. ---> REMOVE xref: MetaCyc:RXN1G-3993 --> MetaCyc maps to EC:6.2.1.- ---> REMOVE xref: MetaCyc:RXN1G-4140 --> MetaCyc maps to EC:6.2.1.- ---> REMOVE xref: MetaCyc:RXN1G-45 --> MetaCyc maps to EC:2.1.1.79 --> make NARROW on GO:0008825 xref: Wikipedia:Enoyl-acyl_carrier_protein_reductase

sjm41 commented 3 months ago

id: GO:0045551 name: cinnamyl-alcohol dehydrogenase activity def: "Catalysis of the reaction: cinnamyl alcohol + NADP+ = cinnamaldehyde + NADPH + H+. Also acts on coniferyl alcohol, sinapyl alcohol and 4-coumaryl alcohol." [EC:1.1.1.195] xref: EC:1.1.1.195 {source="skos:exactMatch"} xref: MetaCyc:CINNAMYL-ALCOHOL-DEHYDROGENASE-RXN --> EXACT xref: RHEA:10392 {source="skos:narrowMatch"} xref: RHEA:45704 {source="skos:narrowMatch"} xref: RHEA:45724 {source="skos:narrowMatch"}

Problem here is xref on obsolete term - delete xref and make NARROW on term above:

id: GO:0052747 name: obsolete sinapyl alcohol dehydrogenase activity def: "OBSOLETE. Catalysis of the reaction: sinapaldehyde + NADPH + H+ = sinapyl-alcohol + NADP+." [GOC:mengo_curators, MetaCyc:RXN-1125] comment: This term has been obsoleted because it represents the same activity as cinnamyl-alcohol dehydrogenase activity ; GO:0045551. xref: KEGG_REACTION:R03918 xref: MetaCyc:RXN-1125 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0045551

id: GO:0019139 name: cytokinin dehydrogenase activity def: "Catalysis of the reaction: N6-dimethylallyladenine + acceptor + H2O = adenine + 3-methylbut-2-enal + reduced electron acceptor." [EC:1.5.99.12] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.5.99.12 xref: MetaCyc:1.5.99.12-RXN --> EXACT xref: MetaCyc:PWY-2841 --> RELATED xref: RHEA:13625

id: GO:0004565 name: beta-galactosidase activity 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. xref: EC:3.2.1.23 xref: MetaCyc:3.2.1.23-RXN --> EXACT xref: MetaCyc:BGALACT-PWY --> RELATED

id: GO:0004556 name: alpha-amylase activity def: "Catalysis of the endohydrolysis of (1->4)-alpha-D-glucosidic linkages in polysaccharides containing three or more alpha-(1->4)-linked D-glucose units." [PMID:12527308] xref: EC:3.2.1.1 xref: MetaCyc:ALPHA-AMYL-RXN --> EXACT xref: MetaCyc:RXN-1823 --> NARROW xref: MetaCyc:RXN-1825 --> NARROW xref: MetaCyc:RXN0-5181 {source="skos:narrowMatch"}

id: GO:0102978 name: furaneol oxidoreductase activity def: "Catalysis of the reaction: 4-hydroxy-2,5-dimethylfuran-3-one + NADP = 4-hydroxy-5-methyl-2-methylenefuran-3-one + NADPH + H+." [EC:1.3.1.105, GOC:pz] xref: EC:1.3.1.105 --> EXACT xref: MetaCyc:RXN-9563 --> EXACT xref: RHEA:39111 --> EXACT is_a: GO:0016628 ! oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor

Problem here is xref on these 3 obsolete terms - remove and make NARROW on term above:

id: GO:0102979 name: obsolete homofuraneol oxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: homofuraneol + NADP = (2E)-2-ethylidene-4-hydroxy-5-methyl-3(2H)-furanone + NADPH + H+." [EC:1.3.1.-, GOC:pz] comment: The reason for obsoletion is that a leaf term should not refer to partial EC. xref: MetaCyc:RXN-9564 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26904" xsd:anyURI is_obsolete: true replaced_by: GO:0102978

id: GO:0102980 name: obsolete 2-butyl-4-hydroxy-5-methyl-3(2H)-furanoneoxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2-butyl-4-hydroxy-5-methyl-3(2H)-furanone + NADP = (2E)-2-butylidene-4-hydroxy-5-methyl-3(2H)-furanone + NADPH + H+." [EC:1.3.1.-, GOC:pz] comment: The reason for obsoletion is that a leaf term should not refer to partial EC. xref: MetaCyc:RXN-9565 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26904" xsd:anyURI is_obsolete: true replaced_by: GO:0102978

id: GO:0102981 name: obsolete 4-hydroxy-5-methyl-2-propyl-3(2H)-furanone oxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 4-hydroxy-5-methyl-2-propyl-3(2H)-furanone + NADP = (2E)-4-hydroxy-5-methyl-2-propylidene-3(2H)-furanone + NADPH + H+." [EC:1.3.1.-, GOC:pz] comment: The reason for obsoletion is that a leaf term should not refer to partial EC. xref: MetaCyc:RXN-9567 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26904" xsd:anyURI is_obsolete: true consider: GO:0102978

id: GO:0003973 name: (S)-2-hydroxy-acid oxidase activity def: "Catalysis of the reaction: (S)-2-hydroxy-acid + O2 = 2-oxo acid + hydrogen peroxide." [RHEA:16789] xref: EC:1.1.3.15 {source="skos:exactMatch"} xref: MetaCyc:RXN-969 --> NARROW xref: MetaCyc:S-2-HYDROXY-ACID-OXIDASE-RXN -->EXACT xref: RHEA:16789 {source="skos:exactMatch"}

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)-alpha-D-glucan chain to a primary hydroxyl group in a similar glucan chain." [EC:2.4.1.18] xref: EC:2.4.1.18 --> EXACT xref: MetaCyc:GLYCOGEN-BRANCH-RXN --> EXACT

Problem here is xref on this obsolete term - remove and make NARROW on above term:

id: GO:0102752 name: obsolete 1,4-alpha-glucan branching enzyme activity (using a glucosylated glycogenin as primer for glycogen synthesis) namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: a glucosylated glycogenin = a glycogen." [GOC:pz] comment: The reason for obsoletion is that this term is equivalent to GO:0003844 1,4-alpha-glucan branching enzyme activity. xref: MetaCyc:RXN-7669 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28286" xsd:anyURI is_obsolete: true replaced_by: GO:0003844

id: GO:0043770 name: demethylmenaquinone methyltransferase activity def: "Catalysis of the reaction: a 2-demethylmenaquinol + S-adenosyl-L-methionine = a menaquinol + H+ + S-adenosyl-L-homocysteine. Reaction substrates can have varying polyprenyl side chain length." [PMID:1444716, PMID:9045837, RHEA:42640] xref: EC:2.1.1.163 {source="skos:exactMatch"} xref: MetaCyc:ADOMET-DMK-METHYLTRANSFER-RXN xref: MetaCyc:RXN-11046 --> EXACT xref: MetaCyc:RXN-9191 ---> NARROW xref: RHEA:26466 {source="skos:narrowMatch"} xref: RHEA:42640 {source="skos:narrowMatch"}

id: GO:0004068 name: aspartate 1-decarboxylase activity def: "Catalysis of the reaction: L-aspartate = beta-alanine + CO2." [EC:4.1.1.11] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:4.1.1.11 --> EXACT xref: MetaCyc:ASPDECARBOX-RXN --> EXACT xref: MetaCyc:PWY-5155 --> RELATED xref: RHEA:19497 --> EXACT is_a: GO:0016831 ! carboxy-lyase activity

id: GO:0019145 name: aminobutyraldehyde dehydrogenase (NAD+) activity namespace: molecular_function def: "Catalysis of the reaction: 4-aminobutanal + NAD+ + H2O = 4-aminobutanoate + NADH + 2 H+." [EC:1.2.1.19] xref: EC:1.2.1.19 --> EXACT xref: MetaCyc:AMINOBUTDEHYDROG-RXN --> EXACT xref: RHEA:19105 --> EXACT

Problem here is xref on obsolete term (where the MetaCyc entry says "No enzyme has been identified for this reaction in this database." - remove

id: GO:0033737 name: obsolete 1-pyrroline dehydrogenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 1-pyrroline + NAD+ + 2 H2O = 4-aminobutanoate + NADH + 2 H+." [MetaCyc:1.5.1.35-RXN] comment: This term was obsoleted because it represents the same reaction as aminobutyraldehyde dehydrogenase activity ; GO:0019145. synonym: "1-pyrroline:NAD+ oxidoreductase activity" RELATED [EC:1.5.1.35] synonym: "ABALDH" RELATED [EC:1.5.1.35] synonym: "gamma-aminobutyraldehyde dehydrogenase activity" RELATED [EC:1.5.1.35] synonym: "YdcW" RELATED [EC:1.5.1.35] xref: MetaCyc:1.5.1.35-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27695" xsd:anyURI is_obsolete: true replaced_by: GO:0019145

sjm41 commented 3 months ago

id: GO:0102373 name: beta-amyrin 28-monooxygenase activity def: "Catalysis of the reaction: beta-amyrin + 3 O2 + 3 reduced [NADPH--hemoprotein reductase] = 4 H+ + 4 H2O + oleanolate + 3 oxidized [NADPH--hemoprotein reductase]." [PMID:22039103, RHEA:43068] xref: EC:1.14.14.126 --> EXACT xref: KEGG_REACTION:R10924 xref: MetaCyc:RXN-13509 {source="skos:exactMatch"} xref: RHEA:43068 {source="skos:exactMatch"}

Problem is xref on the obsolete term - MetaCyc:RXN-13502 is a sub-reaction of EC:1.14.14.126 - so remove the xref.

id: GO:0102374 name: obsolete ursolic aldehyde 28-monooxygenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: ursolic aldehyde + NADPH + O2 + H+ = ursolic acid + NADP + H2O." [GOC:pz, PMID:22039103] comment: This term was obsoleted because it represents the same activity as beta-amyrin 28-monooxygenase activity ; GO:0102373. xref: MetaCyc:RXN-13502 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0102373

id: GO:0016297 name: fatty acyl-[ACP] hydrolase activity def: "Catalysis of the reaction: a fatty acyl-[ACP] + H2O = a fatty acid + H+ + holo-[acyl-carrier protein]." [RHEA:44596] xref: EC:3.1.2.14 {source="skos:narrowMatch"} xref: EC:3.1.2.21 {xref="skos:narrowMatch"} --> change to 'source' xref: MetaCyc:RXN-7902 --> EXACT xref: RHEA:44596 --> EXACT

Problem is xrefs on these 3 obsolete terms - remove and add as NARROW on above term:

id: GO:0004320 name: obsolete oleoyl-[acyl-carrier-protein] hydrolase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: (9Z)-octadecenoyl-[ACP] + H2O = (9Z)-octadecenoate + H+ + holo-[ACP]." [GOC:curators] comment: This term was obsoleted because it represents a specific substrate of fatty acyl-[ACP] hydrolase activity ; GO:0016297. synonym: "oleoyl-[acyl-carrier protein] hydrolase activity" EXACT [] synonym: "oleoyl-ACP hydrolase activity" EXACT [] synonym: "oleoyl-ACP thioesterase activity" RELATED [] synonym: "oleoyl-acyl carrier protein thioesterase activity" RELATED [] synonym: "oleoyl-acyl-carrier-protein hydrolase" BROAD [] xref: MetaCyc:3.1.2.14-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25677" xsd:anyURI is_obsolete: true replaced_by: GO:0016297

id: GO:0016295 name: obsolete myristoyl-[acyl-carrier-protein] hydrolase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: tetradecanoyl-[ACP] + H2O = tetradecanoate + holo-[ACP] + H+." [GOC:curators] comment: This term was obsoleted because it represents a specific substrate of fatty acyl-[ACP] hydrolase activity ; GO:0016297. synonym: "myristoyl-[acyl-carrier protein] hydrolase activity" EXACT [] synonym: "myristoyl-ACP hydrolase activity" EXACT [] synonym: "tetradecanoyl-[acyl-carrier-protein] hydrolase activity" EXACT [] synonym: "tetradecanoyl-ACP hydrolase activity" EXACT [] xref: KEGG_REACTION:R08159 xref: MetaCyc:RXN-10727 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25677" xsd:anyURI is_obsolete: true replaced_by: GO:0016297

id: GO:0016296 name: obsolete palmitoyl-[acyl-carrier-protein] hydrolase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: hexadecanoyl-[ACP] + H2O = H+ + hexadecanoate + holo-[ACP]." [GOC:curators] comment: This term was obsoleted because it represents a specific substrate of fatty acyl-[ACP] hydrolase activity ; GO:0016297. synonym: "palmitoyl-[acyl-carrier protein] hydrolase activity" EXACT [] synonym: "palmitoyl-ACP hydrolase activity" EXACT [] xref: KEGG_REACTION:R08162 xref: MetaCyc:RXN-9549 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25677" xsd:anyURI is_obsolete: true replaced_by: GO:0016297

id: GO:0016161 name: beta-amylase activity def: "Catalysis of the reaction: (1,4-alpha-D-glucosyl)(n+1) + H2O = (1,4-alpha-D-glucosyl)(n-1) + alpha-maltose. This reaction is the hydrolysis of 1,4-alpha-glucosidic linkages in polysaccharides so as to remove successive maltose units from the non-reducing ends of the chains." [PMID:18390594] xref: EC:3.2.1.2 <-- EXACT xref: MetaCyc:RXN-12279 <-- NARROW xref: MetaCyc:RXN-1827 <-- EXACT

id: GO:0102985 name: delta12-fatty-acid desaturase activity def: "Catalysis of the reaction: (9Z)-hexadecenoyl-CoA + 2 Fe(II)-[cytochrome b5] + 2 H+ + O2 = (9Z,12Z)-hexadecadienoyl-CoA + 2 Fe(III)-[cytochrome b5] + 2 H2O. Also converts (9Z)-octadecenoyl-CoA into (9Z,12Z)-octadecadienoyl-CoA. This microsomal enzyme introduces a cis double bond at position 12 of fatty-acyl-CoAs that contain a cis double bond at position 9." [EC:1.14.19.6] xref: EC:1.14.19.6 <-- EXACT xref: MetaCyc:RXN-9601 <-- NARROW xref: MetaCyc:RXN-9616 <-- NARROW xref: RHEA:25856 {source="skos:narrowMatch"} xref: RHEA:45096 {source="skos:narrowMatch"}

id: GO:0140399 name: aflatoxin B synthase activity def: "Catalyzes the reaction: 8-O-methylsterigmatocystin + 2 [reduced NADPH--hemoprotein reductase] + 2 O2 = aflatoxin B + 2 [oxidized NADPH--hemoprotein reductase] + H2O + methanol + CO2. Produces both aflatoxin B(1) and aflatoxin B(2)." [EC:1.14.14.117] xref: EC:1.14.14.117 <-- EXACT xref: MetaCyc:RXN-9497 <-- NARROW xref: MetaCyc:RXN-9502 <-- NARROW xref: RHEA:35759 <-- NARROW

also add RHEA:35763 as NARROW

id: GO:0034000 name: chondroitin-sulfate-ABC endolyase activity def: "Catalysis of the endolytic cleavage of beta-1,4-galactosaminic bonds between N-acetylgalactosamine and either D-glucuronic acid or L-iduronic acid to produce a mixture of Delta4-unsaturated oligosaccharides of different sizes that are ultimately degraded to Delta4-unsaturated tetra- and disaccharides." [EC:4.2.2.20] xref: EC:4.2.2.20 <-- EXACT xref: MetaCyc:4.2.2.19-RXN <-- NARROW xref: MetaCyc:4.2.2.5-RXN {source="skos:broadMatch"} <-- NARROW xref: MetaCyc:RXN-11572 <-- NARROW

id: GO:0140397 name: versiconal hemiacetal acetate esterase activity def: "Catalyzes the reactions: versiconal hemiacetal acetate + H2O = versiconal + acetate, as well as versiconol acetate + H2O = versiconol + acetate." [EC:3.1.1.94, PMID:15006741, PMID:15932995, PMID:8368837] xref: EC:3.1.1.94 <-- EXACT xref: MetaCyc:RXN-9488 <-- NARROW xref: MetaCyc:RXN-9493 <-- NARROW xref: RHEA:35715 <-- NARROW

also add RHEA:35719 as NARROW

id: GO:0102299 name: linolenate 9R-lipoxygenase activity def: "Catalysis of the reaction: alpha-linolenate + O2 = (9R,10E,12Z,15Z)-9-hydroperoxyoctadeca-10,12,15-trienoate." [EC:1.13.11.61, GOC:pz] xref: EC:1.13.11.61 <-- EXACT xref: MetaCyc:RXN-12759 <-- NARROW xref: MetaCyc:RXN-12760 <-- NARROW xref: RHEA:31687 {source="skos:narrowMatch"} xref: RHEA:31691 <-- NARROW

Expand GO def to match EC: Reaction: (9Z,12Z,15Z)-octadecatrienoate + O2 = (9R,10E,12Z,15Z)-9-hydroperoxyoctadeca-10,12,15-trienoate Comments: also converts linoleate to (9R,10E,12Z)-9- hydroperoxyoctadeca-10,12-dienoate.

id: GO:0052615 name: ent-kaurene oxidase activity def: "Catalysis of the reaction: ent-kaur-16-ene + 3 O2 + 3 reduced [NADPH--hemoprotein reductase] = ent-kaur-16-en-19-oate + 4 H+ + 4 H2O + 3 oxidized [NADPH--hemoprotein reductase]." [RHEA:32323] xref: EC:1.14.14.86 {source="skos:exactMatch"} xref: MetaCyc:1.14.13.78-RXN xref: RHEA:32323 {source="skos:exactMatch"}

Problem is xref on this obsolete term - remove.

id: GO:0052617 name: obsolete ent-kaur-16-en-19-al oxidase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: NADPH + ent-kaur-16-en-19-al + oxygen = H2O + NADP+ + ent-kaurenoate." [MetaCyc:RXN-7580] comment: This term was obsoleted because it represents a subreaction of ent-kaurene oxidase activity ; GO:0052615. xref: MetaCyc:RXN-7580

id: GO:0047804 name: cysteine-S-conjugate beta-lyase activity def: "Catalysis of the reaction: S-substituted L-cysteine + H2O = a thiol + NH4+ + pyruvate." [RHEA:18121] xref: EC:4.4.1.13 xref: MetaCyc:RXN-6763 xref: RHEA:18121

Problem is xref on this obsolete term - remove and add as NARROW on above term:

id: GO:0004121 name: obsolete cystathionine beta-lyase activity namespace: molecular_function alt_id: GO:0008799 def: "OBSOLETE. Catalysis of the reaction: cystathionine + H2O = L-homocysteine + NH3 + pyruvate." [RHEA:13965] comment: The reason for obsoletion is that this term is equivalent to GO:0047804 cysteine-S-conjugate beta-lyase activity. xref: MetaCyc:CYSTATHIONINE-BETA-LYASE-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27410" xsd:anyURI is_obsolete: true replaced_by: GO:0047804

sjm41 commented 3 months ago

id: GO:0009034 name: tryptophanase activity def: "Catalysis of the reaction: L-tryptophan + H2O = indole + NH4 + pyruvate." [RHEA:19553] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:4.1.99.1 --> EXACT xref: KEGG_REACTION:R00673 --> EXACT xref: MetaCyc:TRYPDEG-PWY --> RELATED xref: MetaCyc:TRYPTOPHAN-RXN --> EXACT xref: RHEA:19553 --> EXACT

id: GO:0004399 name: histidinol dehydrogenase activity def: "Catalysis of the reaction: L-histidinol + NAD+ = L-histidine + NADH + H+." [EC:1.1.1.23] xref: EC:1.1.1.23 --> EXACT xref: MetaCyc:HISTALDEHYD-RXN --> remove (sub-reaction) xref: MetaCyc:HISTOLDEHYD-RXN --> remove (sub-reaction) xref: RHEA:20641

add MetaCyc:RXN-8001--> EXACT Update def to match RHEA

id: GO:0004134 name: 4-alpha-glucanotransferase activity 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] xref: EC:2.4.1.25. --> EXACT xref: MetaCyc:AMYLOMALT-RXN --> NARROW xref: MetaCyc:RXN-1828 --> NARROW xref: MetaCyc:RXN-9023 --> NARROW

id: GO:0018546 name: nitrobenzene nitroreductase activity def: "Catalysis of the reaction: nitrobenzene + 2 NADPH + 2 H+ = hydroxyaminobenzene + 2 NADP+ + H2O." [MetaCyc:RXN-8815, PMID:16517619] xref: EC:1.7.1.16 --> EXACT xref: MetaCyc:RXN-8815 --> EXACT xref: MetaCyc:RXN-8833 --> NARROW xref: RHEA:52884 --> EXACT xref: UM-BBD_enzymeID:r0303

Update def to match RHEA

id: GO:0004749 name: ribose phosphate diphosphokinase activity def: "Catalysis of the reaction: D-ribose 5-phosphate + ATP = 5-phospho-alpha-D-ribose 1-diphosphate + AMP + 2 H+." [RHEA:15609] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:2.7.6.1 --> EXACT xref: KEGG_REACTION:R01049 --> EXACT xref: MetaCyc:PRPPSYN-RXN --> EXACT xref: MetaCyc:PWY0-662 --> RELATED xref: RHEA:15609 --> EXACT

id: GO:0008924 name: L-malate dehydrogenase (quinone) activity def: "Catalysis of the reaction: (S)-malate + a quinone = oxaloacetate + a quinol. Vitamin K (menaquinone) and several other quinones can act as acceptors." [PMID:234747, RHEA:46012] xref: EC:1.1.5.4 --> EXACT xref: MetaCyc:MALATE-DEHYDROGENASE-ACCEPTOR-RXN --> EXACT xref: RHEA:30095 {source="narrowMatch"} xref: RHEA:46012 {source="skos:exactMatch"}

Remove MetaCyc from obsolete term below and add as NARROW to term above.

id: GO:0052589 name: obsolete malate dehydrogenase (menaquinone) activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: (S)-malate + a menaquinone = oxaloacetate + a menaquinol." [MetaCyc:RXNI-3] comment: This term was obsoleted because it represents the same reaction as malate dehydrogenase (quinone) activity ; GO:0008924, with a different acceptor. xref: MetaCyc:RXNI-3 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0008924

id: GO:0004031 name: aldehyde oxidase activity def: "Catalysis of the reaction: an aldehyde + H2O + O2 = a carboxylic acid + hydrogen peroxide." [EC:1.2.3.1] xref: EC:1.2.3.1 --> EXACT xref: MetaCyc:ALDEHYDE-OXIDASE-RXN --> EXACT xref: MetaCyc:RETINAL-OXIDASE-RXN {source="skos:narrowMatch"} xref: RHEA:16829 --> EXACT xref: RHEA:22520 {source="skos:narrowMatch"}

Remove MetaCyc from obsolete terms below and add as NARROW to term above.

id: GO:0102797 name: obsolete geranial:oxygen oxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: geranial + O2 + H2O = H+ + geranate + hydrogen peroxide." [GOC:pz] comment: This term has been obsoleted because it is beyond the scope of GO. xref: MetaCyc:RXN-8093 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22680" xsd:anyURI is_obsolete: true replaced_by: GO:0004031

id: GO:0102798 name: obsolete heptaldehyde:oxygen oxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: heptanal + O2 + H2O = H+ + heptanoate + hydrogen peroxide." [GOC:pz] comment: This term has been obsoleted because it is beyond the scope of GO. xref: MetaCyc:RXN-8094 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22680" xsd:anyURI is_obsolete: true replaced_by: GO:0004031

id: GO:0008835 name: diaminohydroxyphosphoribosylaminopyrimidine deaminase activity def: "Catalysis of the reaction: 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)-pyrimidine + H2O + H+ = 5-amino-6-(5-phosphoribosylamino)uracil + NH4." [EC:3.5.4.26, PMID:11889103, RHEA:21868] xref: EC:3.5.4.26 --> EXACT xref: KEGG_REACTION:R03459 --> EXACT xref: MetaCyc:RIBOFLAVINSYNDEAM-RXN --> EXACT xref: MetaCyc:RXN-10058 --> NARROW xref: RHEA:21868 --> EXACT

id: GO:0016992 name: lipoate synthase activity def: "Catalysis of the reaction: protein N6-(octanoyl)lysine + 2 sulfur + 2 S-adenosyl-L-methionine = protein N6-(lipoyl)lysine + 2 L-methionine + 2 5'-deoxyadenosyl." [EC:2.8.1.8, PMID:18307109] xref: EC:2.8.1.8 xref: MetaCyc:RXN0-949 xref: RHEA:16585

Remove MetaCyc from obsolete terms below and add as NARROW to term above.

id: GO:0102552 name: obsolete lipoyl synthase activity (acting on glycine-cleavage complex H protein namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2 S-adenosyl-L-methionine + a [glycine-cleavage complex H protein] N6-octanoyl-L-lysine + 2 a sulfurated [sulfur carrier] = 2 L-methionine + 2 5'-deoxyadenosine + a [glycine-cleavage complex H protein] N6-lipoyl-L-lysine + 2 an unsulfurated [sulfur carrier]." [EC:2.8.1.8, GOC:pz] comment: This term was obsoleted because it represents a specific substrate. xref: EC:2.8.1.8 xref: MetaCyc:RXN-14950 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23425" xsd:anyURI is_obsolete: true replaced_by: GO:0016992

id: GO:0102553 name: obsolete lipoyl synthase activity (acting on pyruvate dehydrogenase E2 protein) namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2 S-adenosyl-L-methionine + a [pyruvate dehydrogenase E2 protein] N6-octanoyl-L-lysine + 2 a sulfurated [sulfur carrier] = 2 L-methionine + 2 5'-deoxyadenosine + 2 H+ + a [pyruvate dehydrogenase E2 protein] N6-lipoyl-L-lysine + 2 an unsulfurated [sulfur carrier]." [EC:2.8.1.8, GOC:pz] comment: This term was obsoleted because it represents a specific substrate. xref: EC:2.8.1.8 xref: MetaCyc:RXN-14957 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23425" xsd:anyURI is_obsolete: true replaced_by: GO:0016992

id: GO:0102554 name: obsolete lipoyl synthase activity (acting on 2-oxoglutarate-dehydrogenase E2 protein namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2 S-adenosyl-L-methionine + a [2-oxoglutarate-dehydrogenase E2 protein] N6-octanoyl-L-lysine + 2 a sulfurated [sulfur carrier] = 2 L-methionine + 2 5'-deoxyadenosine + 2 H+ + a [2-oxoglutarate dehydrogenase E2 protein] N6-lipoyl-L-lysine + 2 an unsulfurated [sulfur carrier]." [EC:2.8.1.8, GOC:pz] comment: This term was obsoleted because it represents a specific substrate. xref: MetaCyc:RXN-14959 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23425" xsd:anyURI is_obsolete: true replaced_by: GO:0016992

id: GO:0047544 name: 2-hydroxybiphenyl 3-monooxygenase (NADH) activity def: "Catalysis of the reaction: biphenyl-2-ol + H+ + NADH + O2 = biphenyl-2,3-diol + H2O + NAD+. Also converts 2,2'-dihydroxybiphenyl into 2,2',3-trihydroxy-biphenyl." [EC:1.14.13.44] xref: EC:1.14.13.44 {source="skos:exactMatch"} xref: KEGG_REACTION:R03964 {source="skos:exactMatch"} xref: MetaCyc:2-HYDROXYBIPHENYL-3-MONOOXYGENASE-RXN {source="skos:exactMatch"} -> NARROW xref: RHEA:11996 {source="skos:narrowMatch"} xref: RHEA:63512 {source="skos:narrowMatch"} xref: UM-BBD_reactionID:r1423

Add MetaCyc:RXN-13150 as NARROW Remove MetaCyc complex xref from obsolete term below:

id: GO:0102321 name: obsolete 2,2'-hydroxybiphenyl monooxygenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: biphenyl-2,2'-diol + O2 + NADH + H+ = biphenyl-2,2',3-triol + H2O + NAD." [GOC:pz] comment: This term was obsoleted because it represents the same activity as 2-hydroxybiphenyl 3-monooxygenase activity ; GO:0047544. xref: MetaCyc:MONOMER-17239 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0047544

sjm41 commented 3 months ago

id: GO:0102289 name: beta-amyrin 11-oxidase activity namespace: molecular_function def: "Catalysis of the reaction: beta-amyrin + 2 O2 + 2 NADPH + 2 H+ = 11-oxo-beta-amyrin + 3 H2O + 2 NADP." [RHEA:31711] xref: EC:1.14.14.152 {source="skos:exactMatch"} xref: MetaCyc:RXN-12680 -> EXACT xref: RHEA:31711 {source="skos:exactMatch"}

Remove xref from this obsolete term:

id: GO:0102291 name: obsolete 11alpha-hydroxy-beta-amyrin dehydrogenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 11alpha-hydroxy-beta-amyrin + O2 + NADPH + H+ = 11-oxo-beta-amyrin + 2 H2O + NADP." [GOC:pz] comment: This term was obsoleted because it is a subreaction of beta-amyrin 11-oxidase activity ; GO:0102289. xref: MetaCyc:RXN-12682 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0102289

id: GO:0004508 name: steroid 17-alpha-monooxygenase activity namespace: molecular_function def: "Catalysis of the reaction: a C21-steroid + O2 + reduced [NADPH--hemoprotein reductase] = a 17alpha-hydroxy-C21-steroid + H+ + H2O + oxidized [NADPH--hemoprotein reductase]." [RHEA:65760] synonym: "17alpha-hydroxylase-C17,20 lyase activity" RELATED [EC:1.14.14.19] synonym: "cytochrome P-450 (P-45017alpha,lyase)" RELATED [EC:1.14.14.19] synonym: "cytochrome P450 CYP17" NARROW [] synonym: "cytochrome p450 XVIIA1 activity" NARROW [EC:1.14.14.19] synonym: "cytochrome P45017alpha" RELATED [EC:1.14.14.19] synonym: "steroid 17-alpha-hydroxylase activity" EXACT [] synonym: "steroid 17-alpha-hydroxylase-C17-20 lyase activity" EXACT [] synonym: "steroid 17-alpha-hydroxylase/17,20 lyase activity" RELATED [EC:1.14.14.19] synonym: "steroid 17alpha-hydroxylase activity" RELATED [EC:1.14.14.19] synonym: "steroid 17alpha-monooxygenase activity" RELATED [EC:1.14.14.19] synonym: "steroid 17alphahydroxylase/17,20 lyase activity" RELATED [EC:1.14.14.19] synonym: "steroid,hydrogen-donor:oxygen oxidoreductase (17alpha-hydroxylating)" RELATED [EC:1.14.14.19] xref: EC:1.14.14.19 -> EXACT xref: EC:1.14.14.32 {source="skos:narrowMatch"} xref: MetaCyc:STEROID-17-ALPHA-MONOOXYGENASE-RXN -> EXACT xref: RHEA:65760 -> EXACT

Remove xref from term below and make NARROW on term above

id: GO:0047442 name: obsolete 17-alpha-hydroxyprogesterone aldolase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 17alpha-hydroxyprogesterone + O2 + reduced NADPH--hemoprotein reductase = acetate + androst-4-ene-3,17-dione + 2 H+ + H2O + oxidized NADPH--hemoprotein reductase." [MetaCyc:4.1.2.30-RXN] comment: The reason for obsoletion is that the term is a unnecessarily specific reaction of GO:0004508 steroid 17-alpha-monooxygenase activity. xref: MetaCyc:4.1.2.30-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27410" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27671" xsd:anyURI is_obsolete: true replaced_by: GO:0004508

id: GO:0047196 name: long-chain-alcohol O-fatty-acyltransferase activity namespace: molecular_function alt_id: GO:0103095 def: "Catalysis of the reaction: a long-chain-alcohol + acyl-CoA = a long-chain ester + CoA." [EC:2.3.1.75, MetaCyc:2.3.1.75-RXN] synonym: "acyl-CoA:long-chain-alcohol O-acyltransferase activity" RELATED [EC:2.3.1.75] synonym: "wax ester synthase activity" EXACT [] synonym: "wax synthase activity" RELATED [EC:2.3.1.75] synonym: "wax-ester synthase activity" RELATED [EC:2.3.1.75] xref: EC:2.3.1.75 -> EXACT xref: MetaCyc:2.3.1.75-RXN -> EXACT xref: MetaCyc:RXNQT-4193 -> NARROW xref: RHEA:38443 -> EXACT

id: GO:0008817 name: corrinoid adenosyltransferase activity namespace: molecular_function alt_id: GO:0043784 def: "Catalysis of the reaction: 2 ATP + 2 corrinoid + reduced [electron-transfer flavoprotein] = 2 adenosylcorrinoid + 3 H+ + oxidized [electron-transfer flavoprotein] + 2 triphosphate. The corrinoid can be cob(II)yrinate a,c diamide, cob(II)inamide or cob(II)alamin." [PMID:19933577, PMID:5946606] synonym: "aquacob(I)alamin adenosyltransferase activity" NARROW [EC:2.5.1.17] synonym: "aquocob(I)alamin vitamin B12s adenosyltransferase activity" NARROW [EC:2.5.1.17] synonym: "ATP:cob(I)alamin Co-beta-adenosyltransferase activity" NARROW [EC:2.5.1.17] synonym: "ATP:cob(I)alamin cobeta-adenosyltransferase activity" RELATED [EC:2.5.1.17] synonym: "ATP:cob(I)yrinic acid-a,c-diamide cobeta-adenosyltransferase activity" NARROW [EC:2.5.1.17] synonym: "ATP:corrinoid adenosyltransferase activity" RELATED [EC:2.5.1.17] synonym: "cob(I)alamin adenosyltransferase activity" NARROW [] synonym: "cob(I)yrinic acid a,c-diamide adenosyltransferase activity" NARROW [] synonym: "cob(II)yrinic acid a,c-diamide reductase activity" NARROW [] synonym: "cob(II)yrinic acid-a,c-diamide:FMN oxidoreductase activity" NARROW [] synonym: "vitamin B12s adenosyltransferase activity" RELATED [] xref: EC:2.5.1.17 {source="skos:broadMatch"}-> EXACT xref: KEGG_REACTION:R05218 xref: MetaCyc:COBALADENOSYLTRANS-RXN -> REMOVE (subreaction) xref: MetaCyc:R343-RXN -> REMOVE (subreaction) xref: RHEA:11528 {source="skos:narrowMatch"} xref: RHEA:14725 {source="skos:narrowMatch"} xref: RHEA:28671 {source="skos:narrowMatch"}

Add as NARROW: BTUR2-RXN, RXN-19339, RXN-19335

id: GO:0102917 name: (R,S)-reticuline 7-O-methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: (S)-reticulinium(1+) + S-adenosyl-L-methionine = H+ + laudanine(1+) + S-adenosyl-L-homocysteine." [EC:2.1.1.291] synonym: "(R)-reticuline 7-O-methyltransferase activity" EXACT [] synonym: "(S)-reticuline 7-O-methyltransferase activity" EXACT [] xref: EC:2.1.1.291 {source="skos:exactMatch"} xref: MetaCyc:RXN-8700 -> NARROW xref: MetaCyc:RXN-8701 -> NARROW xref: RHEA:10444 {source="skos:narrowMatch"} xref: RHEA:38907 -> NARROW

Update def to match EC.

id: GO:0102431 name: acyl-lipid omega-(9-4) desaturase activity namespace: molecular_function alt_id: GO:0102430 def: "Catalysis of the reaction: a (9Z,12Z)-octadecadienoyl-containing glycerolipid + 2 Fe(II)-[cytochrome b5] + 2 H+ + O2 = a (5Z,9Z,12Z)-octadecatrienoyl-containing glycerolipid + 2 Fe(III)-[cytochrome b5] + 2 H2O. Can also use a substrate with 3 double bonds (a (9Z,12Z,15Z)-octadecatrienoyl-containing glycerolipid) and add a fourth double bond (a (5Z,9Z,12Z,15Z)-octadecatetraenoyl-containing glycerolipid)." [EC:1.14.19.12] synonym: "acyl-lipid omega-(9-4) desaturase" EXACT [] synonym: "alpha-linolenate delta5 desaturase activity" NARROW [] synonym: "linoleate delta5 desaturase activity" RELATED [] xref: EC:1.14.19.12 {source="skos:exactMatch"} xref: MetaCyc:RXN-13857 -> NARROW xref: MetaCyc:RXN-13858 -> NARROW xref: RHEA:38039 {source="skos:narrowMatch"} xref: RHEA:46236 {source="skos:narrowMatch"}

id: GO:0017064 name: fatty acid amide hydrolase activity namespace: molecular_function alt_id: GO:0017073 alt_id: GO:0102077 alt_id: GO:0103073 def: "Catalysis of the hydrolysis of a fatty acid amide to yield a fatty acid." [PMID:15952893] synonym: "anandamide amidohydrolase activity" NARROW [] synonym: "oleamide hydrolase activity" NARROW [] xref: EC:3.5.1.99 {source="skos:exactMatch"} xref: MetaCyc:RXN-10756 -> NARROW xref: MetaCyc:RXN6666-2 -> NARROW xref: RHEA:26136 {source="skos:narrowMatch"} xref: RHEA:26506 {source="skos:narrowMatch"}

id: GO:0043833 name: [methyl-Co(III) methylamine-specific corrinoid protein]:coenzyme M methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: [methyl-Co(III) methylamine-specific corrinoid protein] + coenzyme M = [Co(I) methylamine-specific corrinoid protein] + H+ + methyl-coenzyme M. This reaction is the transfer of the methyl group from the methylated corrinoid cofactor of a methylamine corrinoid protein to coenzyme M." [RHEA:18773] comment: This function is the second step in the pathway of methanogenesis from monomethylamine, dimethylamine and trimethylamine. synonym: "methylamine-specific methylcobalamin:coenzyme M methyltransferase activity" EXACT [] synonym: "methylamine-specific methylcobalamin:CoM methyltransferase activity" EXACT [] synonym: "methylcobamide:coenzyme M methyltransferase activity" BROAD [] synonym: "methylcobamide:CoM methyltransferase activity" BROAD [] synonym: "monomethylamine-specific methylcobalamin:coenzyme M methyltransferase activity" NARROW [] synonym: "MT2-A" BROAD [EC:2.1.1.247] xref: EC:2.1.1.247 -> EXACT xref: MetaCyc:RXN-8099 -> NARROW xref: MetaCyc:RXN-8101 -> NARROW xref: MetaCyc:RXN-8103 -> NARROW xref: RHEA:18773 -> NARROW

Also add [RHEA:45216] and [RHEA:45220] as NARROW

id: GO:0050303 name: lysine 6-dehydrogenase activity namespace: molecular_function def: "Catalysis of the reaction: H2O + NAD+ + L-lysine = NH3 + NADH + allysine." [EC:1.4.1.18, MetaCyc:LYSINE-6-DEHYDROGENASE-RXN, RHEA:12408] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. synonym: "L-lysine 6-dehydrogenase activity" RELATED [EC:1.4.1.18] synonym: "L-lysine epsilon-dehydrogenase activity" RELATED [EC:1.4.1.18] synonym: "L-lysine:NAD+ 6-oxidoreductase (deaminating)" RELATED [EC:1.4.1.18] synonym: "LysDH activity" RELATED [EC:1.4.1.18] xref: EC:1.4.1.18 -> EXACT xref: MetaCyc:LYSINE-6-DEHYDROGENASE-RXN -> EXACT xref: MetaCyc:PWY-5314 -> RELATED xref: RHEA:12408 -> EXACT

id: GO:0030791 name: arsenite methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: S-adenosyl-L-methionine + arsenite = S-adenosyl-L-homocysteine + methylarsonate." [EC:2.1.1.137] comment: Note that the enzyme arsenite methyltransferase also has methylarsonite methyltransferase activity (GO:0030792). synonym: "S-adenosyl-L-methionine:arsenic(III) methyltransferase activity" RELATED [EC:2.1.1.137] synonym: "S-adenosyl-L-methionine:arsenite As-methyltransferase activity" RELATED [EC:2.1.1.137] synonym: "S-adenosyl-L-methionine:methylarsonite As-methyltransferase activity" RELATED [EC:2.1.1.137] xref: EC:2.1.1.137 -> EXACT xref: MetaCyc:2.1.1.137-RXN -> NARROW xref: RHEA:69432 {source="skos:narrowMatch"} xref: RHEA:69460 {source="skos:narrowMatch"} xref: RHEA:69464 {source="skos:narrowMatch"} xref: UM-BBD_reactionID:r0805

Add MetaCyc RXN-21028 and 22330 as NARROW. Remove xref from term below:

id: GO:0030792 name: obsolete methylarsonite methyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: S-adenosyl-L-methionine + methylarsonite = S-adenosyl-L-homocysteine + dimethylarsinate." [EC:2.1.1.138] comment: This term was obsoleted because the corresponding EC, EC:2.1.1.138 was deleted from EC as the reaction is performed by arsenite methyltransferase (EC:2.1.1.137). xref: MetaCyc:2.1.1.138-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25591" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27695" xsd:anyURI is_obsolete: true replaced_by: GO:0030791

sjm41 commented 3 months ago

id: GO:0047787 name: Delta4-3-oxosteroid 5beta-reductase activity def: "Catalysis of the reaction: a 3-oxo-5beta-steroid + NADP+ = a 3-oxo-Delta(4)-steroid + H+ + NADPH. The enzyme from human efficiently catalyzes the reduction of progesterone, androstenedione, 17alpha-hydroxyprogesterone and testosterone to 5beta-reduced metabolites; it can also act on aldosterone, corticosterone and cortisol, but to a lesser extent. The bile acid intermediates 7alpha,12alpha-dihydroxy-4-cholesten-3- one and 7alpha-hydroxy-4-cholesten-3-one can also act as substrates." [EC:1.3.1.3] xref: EC:1.3.1.3 -> EXACT xref: MetaCyc:CHOLESTENONE-5-BETA-REDUCTASE-RXN -> NARROW xref: MetaCyc:CORTISONE-BETA-REDUCTASE-RXN-> NARROW xref: RHEA:54412 -> EXACT

Add MetaCyc:RXN-23672 as EXACT Remove xref from term below and add a NARROW to term above.

id: GO:0102997 name: obsolete progesterone 5beta- reductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: H+ + progesterone + NADPH = 5beta-pregnane-3,20-dione + NADP." [EC:1.3.1.-, GOC:pz] comment: The reason for obsoletion is that a leaf term should not refer to partial EC. xref: MetaCyc:RXN-9726 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26904" xsd:anyURI is_obsolete: true replaced_by: GO:0047787

id: GO:0050079 name: acetylenecarboxylate hydratase activity def: "Catalysis of the reaction: 3-oxopropanoate = propynoate + H2O." [RHEA:17957] xref: EC:4.2.1.27 {source="skos:exactMatch"} xref: MetaCyc:ACETYLENECARBOXYLATE-HYDRATASE-RXN -> REMOVE (sub-reaction) xref: MetaCyc:MALONATE-SEMIALDEHYDE-DEHYDRATASE-RXN -> EXACT xref: RHEA:17957 {source="skos:exactMatch"}

id: GO:0033770 name: 2-hydroxyisoflavanone synthase activity def: "Catalysis of the reactions: liquiritigenin + O2 + [reduced NADPH--hemoprotein reductase] = 2,4',7-trihydroxyisoflavanone + H2O + [oxidized NADPH--hemoprotein reductase] and (2S)-naringenin + O2 + [reduced NADPH--hemoprotein reductase] = 2,4',5,7-tetrahydroxyisoflavanone + H2O + [oxidized NADPH--hemoprotein reductase]." [EC:1.14.14.87] xref: EC:1.14.14.87 {source="skos:exactMatch"} xref: MetaCyc:RXN-1541 -> NARROW xref: MetaCyc:RXN-3283-> NARROW xref: MetaCyc:RXN-7750-> NARROW xref: RHEA:31723 {source="skos:narrowMatch"} xref: RHEA:35487 {source="skos:narrowMatch"}

id: GO:0004353 name: glutamate dehydrogenase [NAD(P)+] activity 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. xref: EC:1.4.1.3 -> EXACT xref: MetaCyc:GLUTAMATE-DEHYDROGENASE-NADP+-RXN -> EXACT xref: MetaCyc:GLUTAMATE-SYN2-PWY -> RELATED

id: GO:0004354 name: glutamate dehydrogenase (NADP+) activity def: "Catalysis of the reaction: L-glutamate + H2O + NADP+ = 2-oxoglutarate + NH3 + NADPH + H+." [EC:1.4.1.4] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.4.1.4 -> EXACT xref: MetaCyc:GLUTDEHYD-RXN -> EXACT xref: MetaCyc:GLUTSYNIII-PWY -> RELATED xref: RHEA:11612 -> EXACT

id: GO:0033772 name: flavonoid 3',5'-hydroxylase activity def: "Catalysis of the reactions: a flavanone + NADPH + H+ + O2 = a 3'-hydroxyflavanone + NADP+ + H2O, and a 3'-hydroxyflavanone + NADPH + H+ + O2 = a 3',5'-dihydroxyflavanone + NADP+ + H2O." [EC:1.14.14.81] xref: EC:1.14.14.81 -> EXACT xref: MetaCyc:RXN-7783 -> REMOVE (sub-reaction) xref: MetaCyc:RXN-8671 -> REMOVE (sub-reaction) xref: RHEA:55448 -> EXACT

Add MetaCyc;RXN-13192 as EXACT Update def to match RHEA

id: GO:0004355 name: glutamate synthase (NADPH) activity def: "Catalysis of the reaction: 2 L-glutamate + NADP+ = 2-oxoglutarate + L-glutamine + H+ + NADPH. This is a two-step reaction: (a) L-glutamate + NH3 = L-glutamine + H2O, (b) L-glutamate + NADP+ + H2O = NH3 + 2-oxoglutarate + NADPH + H+." [EC:1.4.1.13, RHEA:15501] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.4.1.13-> EXACT xref: KEGG_REACTION:R00114 xref: MetaCyc:GLUGLNSYN-PWY -> REMOVE (NADH, not NADPH -> put on GO:0016040 instead) xref: MetaCyc:GLUTAMATESYN-RXN-> EXACT xref: MetaCyc:GLUTSYN-PWY -> RELATED xref: RHEA:15501-> EXACT

id: GO:0016979 name: lipoate-protein ligase activity def: "Catalysis of the lipoylation of a protein in two steps: ATP + (R)-lipoate + a [lipoyl-carrier protein]-L-lysine = a [lipoyl-carrier protein]-N6-(lipoyl)lysine + AMP + diphosphate (overall reaction): (1) ATP + (R)-lipoate = lipoyl-AMP + diphosphate; (2) lipoyl-AMP + a [lipoyl-carrier protein]-L-lysine = a [lipoyl-carrier protein]-N6-(lipoyl)lysine + AMP." [PMID:16141198, PMID:17570395, RHEA:49288] xref: EC:6.3.1.20 -> EXACT xref: MetaCyc:RXN-13039 -> REMOVE (sub-reaction) xref: MetaCyc:RXN-8654 -> REMOVE (sub-reaction) xref: MetaCyc:RXN-8655 -> REMOVE (sub-reaction) xref: MetaCyc:RXN0-1141 -> NARROW xref: RHEA:49288 -> EXACT

add MetaCyc:RXN-17127 (EXACT) and MetaCyc:RXN0-5098 (NARROW)

id: GO:0008532 name: N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity def: "Catalysis of the reaction: a beta-D-galactosyl-(1->4)-N-acetyl-beta-D-glucosaminyl derivative + UDP-N-acetyl-alpha-D-glucosamine = an N-acetyl-beta-D-glucosaminyl-(1->3)-beta-D-galactosyl-(1->4)-N-acetyl-beta-D-glucosaminyl derivative + H+ + UDP." [RHEA:14389] xref: EC:2.4.1.149 {source="skos:exactMatch"} xref: MetaCyc:2.4.1.149-RXN {source="skos:exactMatch"} xref: RHEA:14389 {source="skos:exactMatch"}

Remove xref from term below and add as NARROW to term above

id: GO:0008457 name: obsolete beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity def: "OBSOLETE. Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosaminyl-1,3-beta-D-galactosyl-1,4-beta-D-glucosylceramide = UDP + N-acetyl-D-glucosaminyl-1,3-beta-D-galactosyl-1,4-N-acetyl-beta-D-glucosaminyl-1,3-beta-D-galactosyl-1,4-beta-D-glucosylceramide." [MetaCyc:2.4.1.163-RXN] comment: This term was obsoleted because it represents the same activity as N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity ; GO:0008532. xref: MetaCyc:2.4.1.163-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27713" xsd:anyURI is_obsolete: true replaced_by: GO:0008532

id: GO:0033879 name: acetylajmaline esterase activity def: "Catalysis of the reactions: 17-O-acetylajmaline + H2O = ajmaline + acetate, and 17-O-acetylnorajmaline + H2O = norajmaline + acetate." [EC:3.1.1.80] xref: EC:3.1.1.80 -> EXACT xref: MetaCyc:RXN-8220 -> NARROW xref: MetaCyc:RXN-8222 -> NARROW xref: RHEA:22124 {source="skos:narrowMatch"} xref: RHEA:23796 {source="skos:narrowMatch"}

sjm41 commented 3 months ago

id: GO:0050065 name: lysine-pyruvate 6-transaminase activity def: "Catalysis of the reaction: L-lysine + pyruvate = L-alanine + L-allysine." [EC:2.6.1.71, RHEA:19393] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:2.6.1.71 -> EXACT xref: KEGG_REACTION:R00453 -> EXACT xref: MetaCyc:LYSINE--PYRUVATE-6-AMINOTRANSFERASE-RXN -> EXACT xref: MetaCyc:PWY-5324 -> RELATED xref: RHEA:19393 -> EXACT

id: GO:0033748 name: hydrogenase (acceptor) activity def: "Catalysis of the reaction: H2 + A = AH2." [EC:1.12.99.6] xref: EC:1.12.99.6 -> EXACT xref: MetaCyc:RXN0-4141 -> EXACT xref: MetaCyc:RXN0-5256 -> REMOVE (= unofficial reaction of EC:1.12.5.1) xref: RHEA:12116 -> EXACT

id: GO:0102059 name: 2-cis,6-cis-farnesyl pyrophosphate synthase activity def: "Catalysis of the reaction: dimethylallyl diphosphate + 2 isopentenyl diphosphate = 2 diphosphate + (2Z,6Z)-farnesyl diphosphate." [GOC:pz, RHEA:27810] xref: EC:2.5.1.92 -> EXACT xref: MetaCyc:RXN-10481 -> EXACT xref: MetaCyc:RXN-11973 -> REMOVE (sub-reaction) xref: RHEA:27810 -> EXACT

Also update def to match RHEA

id: GO:0047292 name: trihydroxypterocarpan dimethylallyltransferase activity def: "Catalysis of the reaction: (6AS,11AS)-3,6A,9-trihydroxypterocarpan + dimethylallyl-pyrophosphate = glyceollin + diphosphate." [EC:2.5.1.36, MetaCyc:2.5.1.36-RXN] xref: EC:2.5.1.36 -> EXACT xref: MetaCyc:RXN-4509 -> NARROW xref: MetaCyc:RXN-4510 -> NARROW xref: RHEA:19345 {source="skos:narrowMatch"} xref: RHEA:23184 {source="skos:narrowMatch"}

id: GO:0033754 name: indoleamine 2,3-dioxygenase activity def: "Catalysis of the reaction: tryptophan + O2 = N-formylkynurenine. The product of the reaction depends on the substrate; D-tryptophan produces N-formyl-D-kynurenine, and L-tryptophan produces N-formyl-L-kynurenine." [EC:1.13.11.52] xref: EC:1.13.11.52 -> EXACT xref: MetaCyc:RXN-8664 -> NARROW xref: MetaCyc:RXN-8665 -> NARROW xref: RHEA:14189 -> NARROW

add RHEA:24536 NARROW (no, this is already an exact match on tryptophan 2,3-dioxygenase activity)

id: GO:0050184 name: acyl-lipid omega-6 desaturase (cytochrome b5) activity def: "Catalysis of the reaction: a (9Z)-octadecenoyl-containing glycerolipid + 2 Fe(II)-[cytochrome b5] + 2 H+ + O2 = a (9Z,12Z)-octadecadienoyl-containing glycerolipid + 2 Fe(III)-[cytochrome b5] + 2 H2O." [RHEA:46332] xref: EC:1.14.19.22 {source="skos:exactMatch"} xref: KEGG_REACTION:R03475 xref: MetaCyc:PHOSPHATIDYLCHOLINE-DESATURASE-RXN -> NARROW xref: MetaCyc:RXN-8320 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8322 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8324 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8327 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8328 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8330 {source="skos:narrowMatch"} xref: MetaCyc:RXN-8360 {source="skos:narrowMatch"} xref: MetaCyc:RXN-9669 {source="skos:exactMatch"} xref: RHEA:46332 {source="skos:exactMatch"}

id: GO:0031220 name: maltodextrin phosphorylase activity def: "Catalysis of the reaction: maltodextrin = glucose-1-phosphate." [GOC:mlg, PMID:10348846] xref: MetaCyc:RXN-9025 -> REMOVE xref: MetaCyc:RXN0-5182 -> EXACT xref: RHEA:29691 -> EXACT

Update def to match RHEA and add RHEA xref

id: GO:0010242 name: oxygen evolving activity def: "Catalysis of the reaction: 2 H2O = O2 + 4 H+ + 4 e-. The evolution of oxygen from oxidizing water is carried out by the oxygen evolving complex in photosystem II of plants. P680+, the photochemically oxidized reaction-center chlorophyll of PSII, is a strong biological oxidant. The reduction potential of P680+ is more positive than that of water, and thus it can oxidize water to give O2 and H+ ions. The oxygen escapes as a gas while the H+ ions remain in solution inside the thylakoid vesicle." [GOC:kd, GOC:syr, PMID:17091926, PMID:7948862] xref: EC:1.10.3.9 -> EXACT xref: MetaCyc:PSII-RXN -> EXACT xref: MetaCyc:RXN0-5265 -> RELATED xref: RHEA:36359 -> EXACT

id: GO:0052933 name: alcohol dehydrogenase (cytochrome c(L)) activity def: "Catalysis of the reaction: 2 [Fe(III)cytochrome cL] + a primary alcohol = 2 [Fe(II)cytochrome cL] + an aldehyde + 2 H+." [RHEA:51004] xref: EC:1.1.2.7 -> EXACT xref: KEGG_REACTION:R01146 -> REMOVE xref: KEGG_REACTION:R09127 -> REMOVE xref: KEGG_REACTION:R09128 -> REMOVE xref: MetaCyc:RXN-11332 -> EXACT xref: MetaCyc:RXN-2861 -> NARROW xref: RHEA:51004 -> EXACT

add KEGG_REACTION:R10713 EXACT

id: GO:0008682 name: 3-demethoxyubiquinol 3-hydroxylase activity def: "Catalysis of the reaction: a 6-methoxy-3-methyl-2-all-trans-polyprenyl-1,4-benzoquinol + AH2 + O2 = A + a 3-demethylubiquinol + H2O." [RHEA:50908] xref: EC:1.14.99.60 -> EXACT xref: MetaCyc:RXN-18458 -> EXACT xref: RHEA:50908 -> EXACT

Remove xref from term below and add to term above.

id: GO:0043719 name: obsolete 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol + O2 + H+ = 2-octaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4-benzoquinol + H2O." [MetaCyc:OCTAPRENYL-METHYL-METHOXY-BENZOQ-OH-RXN] comment: The reason for obsoletion is that it more specific than the specificity of any known gene product. xref: MetaCyc:OCTAPRENYL-METHYL-METHOXY-BENZOQ-OH-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/11259" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27862" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28053" xsd:anyURI is_obsolete: true replaced_by: GO:0008682

sjm41 commented 3 months ago

id: GO:0047639 name: alcohol oxidase activity def: "Catalysis of the reaction: a primary alcohol + O2 = an aldehyde + H2O2." [EC:1.1.3.13, MetaCyc:ALCOHOL-OXIDASE-RXN] comment: Note that the enzyme alcohol oxidase also has methanol oxidase activity (GO:0046563). xref: EC:1.1.3.13 -> EXACT xref: MetaCyc:ALCOHOL-OXIDASE-RXN -> EXACT xref: RHEA:19829 -> EXACT

Remove xref from term below and add to term above as NARROW Also remove comment on term above

id: GO:0046563 name: obsolete methanol oxidase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: O2 + methanol = H2O2 + formaldehyde." [MetaCyc:METHANOL-OXIDASE-RXN] comment: This term was obsoleted because EC:1.1.3.31 was deleted from EC as it cannot be distinguished from alcohol oxidase (EC:1.1.3.13). xref: MetaCyc:METHANOL-OXIDASE-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28049" xsd:anyURI is_obsolete: true replaced_by: GO:0047639

id: GO:1990137 name: plant seed peroxygenase activity def: "Catalysis of the reaction: RH + ROOH = ROH + ROH." [PMID:19467604] xref: EC:1.11.2.3 -> EXACT xref: MetaCyc:RXN-11819 -> EXACT

Remove xref from term below and add to term above as NARROW (also correct xref -> term_tracker_item) Update def to match EC

id: GO:0102070 name: obsolete 18-hydroxyoleate peroxygenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 18-hydroxyoleate + a lipid hydroperoxide = 9,10-epoxy-18-hydroxystearate + a lipid alcohol." [GOC:pz, PMID:12226220, PMID:14535881, PMID:468835] comment: This term was obsoleted because GO:0102070 represents a specific substrate of plant seed peroxidase activity ; GO:1990137. xref: https://github.com/geneontology/go-ontology/issues/28070 xref: MetaCyc:RXN-1064 is_obsolete: true replaced_by: GO:1990137

id: GO:0036222 name: XTP diphosphatase activity def: "Catalysis of the reaction: XTP + H2O = XMP + H+ + diphosphate." [GOC:pz, PMID:16216582, PMID:22531138, RHEA:28610] comment: While XTP is not produced by cells, deamination of purine bases can result in accumulation of such nucleotides as ITP, dITP, XTP, and dXTP. XTPase contributes to the removal of these abnormal bases from the cellular pool of nucleotide triphosphates. xref: EC:3.6.1.66 {source="skos:broadMatch"} xref: KEGG_REACTION:R02720 -> EXACT xref: MetaCyc:RXN0-1603 -> EXACT xref: MetaCyc:RXN0-5074 -> REMOVE (this produces XDP and monophosphate) xref: RHEA:28610 -> EXACT

id: GO:0004587 name: ornithine aminotransferase activity def: "Catalysis of the reaction: a 2-oxocarboxylate + L-ornithine = an L-alpha-amino acid + L-glutamate 5-semialdehyde." [EC:2.6.1.13] xref: EC:2.6.1.13 -> EXACT xref: MetaCyc:ORNITHINE--OXO-ACID-AMINOTRANSFERASE-RXN -> EXACT xref: RHEA:13877 -> EXACT

Remove ec (duplicate) and MetaCyc (obsolete) xrefs from term below

id: GO:0050155 name: obsolete ornithine(lysine) transaminase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 2-oxoglutarate + L-ornithine = H2O + L-glutamate + 3,4-dihydro-2H-pyrrole-2-carboxylate." [MetaCyc:ORNITHINELYSINE-AMINOTRANSFERASE-RXN] comment: This term represents the same activity as GO:0004587. synonym: "L-ornithine(L-lysine):2-oxoglutarate-aminotransferase activity" EXACT [] synonym: "L-ornithine:2-oxoglutarate-aminotransferase activity" EXACT [] synonym: "lysine/ornithine:2-oxoglutarate aminotransferase activity" EXACT [] synonym: "ornithine(lysine) aminotransferase activity" EXACT [] xref: EC:2.6.1.13 xref: MetaCyc:ORNITHINELYSINE-AMINOTRANSFERASE-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25975" xsd:anyURI is_obsolete: true replaced_by: GO:0004587

id: GO:0004315 name: 3-oxoacyl-[acyl-carrier-protein] synthase activity def: "Catalysis of the reaction: acyl-[acyl-carrier protein] + malonyl-[acyl-carrier protein] = 3-oxoacyl-[acyl-carrier protein] + CO2 + [acyl-carrier protein]." [RHEA:22836] comment: Note that this activity is responsible for the chain-elongation step of dissociated (type II) fatty-acid biosynthesis, i.e. the addition of two C atoms to the fatty-acid chain. Can use fatty acyl thioesters of ACP (C2 to C16) as substrates, as well as fatty acyl thioesters of Co-A (C4 to C16). xref: EC:2.3.1.179 {source="skos:narrowMatch"} xref: EC:2.3.1.41 {source="skos:exactMatch"} xref: MetaCyc:2.3.1.179-RXN -> NARROW xref: MetaCyc:3-OXOACYL-ACP-SYNTH-RXN -> EXACT xref: RHEA:22836-> EXACT

id: GO:0003995 name: acyl-CoA dehydrogenase activity def: "Catalysis of the reaction: a 2,3-saturated acyl-CoA + H+ oxidized [electron-transfer flavoprotein] = a (2E)-enoyl-CoA + reduced [electron-transfer flavoprotein]." [RHEA:44704] xref: MetaCyc:ACYLCOADEHYDROG-RXN -> EXACT xref: RHEA:44704 -> EXACT

Remove xref from term below

id: GO:0102393 name: obsolete decanoyl-[acp] 2-dehydrogenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: FAD + H+ + a decanoyl-HmqF protein = FADH2(2-) + a 2,3-dehydro-decanoyl-HmqF." [EC:1.3.8.-, GOC:pz] comment: This term was obsoleted because it represents a specific substrate. xref: MetaCyc:RXN-13624 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26600" xsd:anyURI is_obsolete: true replaced_by: GO:0003995

id: GO:0033718 name: pyranose dehydrogenase (acceptor) activity def: "Catalysis of the reactions: pyranose + acceptor = 2-dehydropyranose (or 3-dehydropyranose or 2,3-didehydropyranose) + reduced acceptor, and a pyranoside + acceptor = a 3-dehydropyranoside (or 3,4-didehydropyranoside) + reduced acceptor." [EC:1.1.99.29] xref: EC:1.1.99.29 -> EXACT xref: MetaCyc:RXN-7961 -> NARROW xref: MetaCyc:RXN-7962 -> NARROW xref: MetaCyc:RXN-7963 -> NARROW xref: MetaCyc:RXN-7965 -> NARROW xref: MetaCyc:RXN-7966 -> NARROW

id: GO:0018494 name: carvone reductase activity def: "Catalysis of the reaction: carvone + 2 H+ + 2 e- = dihydrocarvone." [UM-BBD_reactionID:r0732] xref: EC:1.3.99.25 -> EXACT xref: MetaCyc:RXN-9403 -> NARROW xref: MetaCyc:RXN-9419 -> NARROW xref: UM-BBD_reactionID:r0732

Update def to match EC Add RHEA:32423 and RHEA:32427 as NARROW

id: GO:0008753 name: NADPH dehydrogenase (quinone) activity def: "Catalysis of the reaction: NADPH + H+ + a quinone = NADP+ + a quinol." [RHEA:46164] xref: EC:1.6.5.10 -> EXACT xref: KEGG_REACTION:R07359 -> EXACT xref: MetaCyc:RXN0-271 -> NARROW xref: RHEA:46164 -> EXACT

add RXN0-7385 as EXACT remove xref from term below

id: GO:0103035 name: obsolete NADPH:methyl-1,4-benzoquinone oxidoreductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 3 H+ + methyl-1,4-benzoquinone + NADPH = methyl-1,4-benzoquinol + NADP." [EC:1.6.5.-, GOC:pz] comment: This term was obsoleted because it represents a specific substrate of NADPH dehydrogenase (quinone) activity ; GO:0008753. xref: MetaCyc:RXN0-5387 is_obsolete: true replaced_by: GO:0008753

id: GO:0047264 name: heteroglycan alpha-mannosyltransferase activity def: "Catalysis of the reaction: heteroglycan + GDP-mannose = alpha-D-mannosylheteroglycan + GDP. 1,2- and 1,3-mannosyl bonds are formed." [EC:2.4.1.48] xref: EC:2.4.1.48 {source="skos:exactMatch"} xref: KEGG_REACTION:R03768 -> NARROW xref: KEGG_REACTION:R03769 -> NARROW xref: MetaCyc:2.4.1.48-RXN -> NARROW xref: MetaCyc:RXN-7992 -> NARROW

sjm41 commented 3 months ago

id: GO:0050029 name: L-lysine oxidase activity def: "Catalysis of the reaction: H2O + L-lysine + O2 = 6-amino-2-oxohexanoate + H2O2 + NH4+." [RHEA:14437] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:1.4.3.14 -> EXACT xref: KEGG_REACTION:R00447 -> EXACT xref: MetaCyc:L-LYSINE-OXIDASE-RXN -> EXACT xref: MetaCyc:PWY-5311 -> RELATED xref: RHEA:14437 -> EXACT

id: GO:0008131 name: primary methylamine oxidase activity def: "Catalysis of the reaction: a primary methyl amine + H2O + O2 = an aldehyde + H2O2 + NH4+." [RHEA:16153] xref: EC:1.4.3.21 {source="skos:exactMatch"} xref: KEGG_REACTION:R01853 -> EXACT xref: MetaCyc:RXN-9597 -> EXACT xref: RHEA:16153 {source="skos:exactMatch"}

Remove xrefs from terms below and add as NARROW on term above:

id: GO:0052593 name: obsolete tryptamine:oxygen oxidoreductase (deaminating) activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: tryptamine + H2O + O2 = NH3 + indole acetaldehyde + hydrogen peroxide + H+." [RHEA:59419] comment: This term was obsoleted because it represents a specific substrate of primary amine oxidase activity ; GO:0008131. xref: KEGG_REACTION:R02173 xref: MetaCyc:RXN-1401 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23488" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26688" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26778" xsd:anyURI is_obsolete: true replaced_by: GO:0008131

id: GO:0052596 name: obsolete phenethylamine:oxygen oxidoreductase (deaminating) activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: phenylethylamine + O2 + H2O = phenylacetaldehyde + NH3 + hydrogen peroxide + H+." [RHEA:25265] comment: This term was obsoleted because it represents a specific substrate of primary amine oxidase activity ; GO:0008131. xref: KEGG_REACTION:R02613 xref: MetaCyc:RXN-10817 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26778" xsd:anyURI is_obsolete: true replaced_by: GO:0008131

id: GO:0047748 name: cholestanetetraol 26-dehydrogenase activity def: "Catalysis of the reaction: 5beta-cholestane-3alpha,7alpha,12alpha-triol + 5 H+ + 3 O2 + 6 reduced [adrenodoxin] = (25R)-3alpha,7alpha,12alpha-trihydroxy-5beta-cholestan-26-oate + 4 H2O + 6 oxidized [adrenodoxin]." [RHEA:34631] xref: EC:1.14.15.15 {source="skos:exactMatch"} xref: MetaCyc:RXN-13690 {source="skos:exactMatch"} xref: RHEA:34631 {source="skos:exactMatch"}

Remove xref from term below:

id: GO:0047749 name: obsolete cholestanetriol 26-monooxygenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol + NADPH + O2 = 5-beta-cholestane-3-alpha,7-alpha,12-alpha,26-tetraol + NADP+ + H2O." [MetaCyc:CHOLESTANETRIOL-26-MONOOXYGENASE-RXN] comment: This term was obsoleted because it represents a sub-reaction of cholestanetetraol 26-dehydrogenase activity ; GO:0047748. synonym: "CYP27A" RELATED [] synonym: "CYP27A1" RELATED [] xref: MetaCyc:CHOLESTANETRIOL-26-MONOOXYGENASE-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0047748

id: GO:0033963 name: cholesterol-5,6-oxide hydrolase activity def: "Catalysis of the reactions: 5,6alpha-epoxy-5alpha-cholestan-3beta-ol + H2O = cholestane-3beta-5alpha,6beta-triol, and 5,6beta-epoxy-5beta-cholestan-3beta-ol + H2O = cholestane-3beta-5alpha,6beta-triol." [EC:3.3.2.11] xref: EC:3.3.2.11 -> EXACT xref: MetaCyc:RXN-8650 -> NARROW xref: MetaCyc:RXN-8651 -> NARROW

Add RHEA:11964 and RHEA:15113 as NARROW

id: GO:0102802 name: thebaine 6-O-demethylase activity def: "Catalysis of the reaction: thebaine + 2-oxoglutarate + O2 = neopinone + formaldehyde + succinate + carbon dioxide." [EC:1.14.11.31, GOC:pz] xref: EC:1.14.11.31 -> EXACT xref: MetaCyc:RXN-8147 -> EXACT xref: RHEA:27477 -> EXACT

Remove xref from term below:

id: GO:0102804 name: obsolete oripavine 6-O-demethylase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: oripavine + 2-oxoglutarate + O2 = morphinone + formaldehyde + succinate + carbon dioxide." [GOC:pz] comment: This term was obsoleted because it represents the same reaction as thebaine 6-O-demethylase activity ; GO:0102802. xref: MetaCyc:RXN-8151 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0102802

id: GO:0052903 name: N1-acetylspermine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity def: "Catalysis of the reaction: H2O + N(1)-acetylspermine + O2 = 3-acetamidopropanal + H2O2 + spermidine." [RHEA:25800] xref: EC:1.5.3.13 xref: KEGG_REACTION:R03899 -> EXACT xref: MetaCyc:RXN-12090 -> EXACT xref: MetaCyc:RXN-9940 -> RELATED (same reaction as RXN-12090, but can't have 2 EXACT matches....) xref: RHEA:25800 -> EXACT

id: GO:0018819 name: lactoyl-CoA dehydratase activity def: "Catalysis of the reaction: lactoyl-CoA = acryloyl-CoA + H2O." [EC:4.2.1.54, RHEA:34691] xref: EC:4.2.1.54 -> EXACT xref: MetaCyc:LACTOYL-COA-DEHYDRATASE-RXN -> EXACT xref: MetaCyc:RXN-781 -> REMOVE xref: RHEA:34691 -> EXACT xref: UM-BBD_reactionID:r0086

Also update def to match RHEA

id: GO:0016906 name: sterol 3-beta-glucosyltransferase activity def: "Catalysis of the reaction: UDP-glucose + a sterol = UDP + an O-glucosylsterol." [EC:2.4.1.173, RHEA:22724] xref: EC:2.4.1.173 -> EXACT xref: MetaCyc:STEROL-GLUCOSYLTRANSFERASE-RXN -> EXACT xref: RHEA:22724 -> EXACT

Remove xrefs from all terms below and make NARROW on term above:

id: GO:0051506 name: obsolete ergosterol UDP-glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-glucose + ergosterol = UDP + O-glucosyl-ergosterol." [GOC:ai, RHEA:61836] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-16975 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0051507 name: obsolete beta-sitosterol UDP-glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-glucose + a beta-sitosterol = UDP + O-glucosyl-beta-sitosterol." [GOC:ai, RHEA:61832] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-12128 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0051508 name: obsolete stigmasterol UDP-glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-glucose + stigmasterol = UDP + O-glucosyl-stigmasterol." [GOC:ai, RHEA:61828] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-12126 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0102202 name: obsolete soladodine glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-alpha-D-glucose + solasodine = UDP + solasodine 3-O-beta-D-glucopyranoside + H+." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-12123 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0102203 name: obsolete brassicasterol glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-alpha-D-glucose + brassicasterol = UDP(3-) + 3-O-beta-D-glucosyl-brassicasterol + H+." [GOC:pz, RHEA:61840] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-12125 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0102205 name: obsolete cholesterol alpha-glucosyltransferase activity namespace: molecular_function alt_id: GO:0051505 def: "OBSOLETE. Catalysis of the reaction: UDP-alpha-D-glucose + cholesterol = UDP + cholesteryl beta-D-glucoside + H+." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. synonym: "cholesterol allpha-glucosyltransferase activity" EXACT [] synonym: "cholesterol UDP-glucosyltransferase activity" RELATED [] xref: MetaCyc:RXN-12127 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0102925 name: obsolete solanine UDP-galactose galactosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-D-galactose + solanidine = H+ + gamma-solanine + UDP." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-8875 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0102926 name: obsolete solanidine glucosyltransferase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: UDP-alpha-D-glucose + solanidine = H+ + gamma-chaconine + UDP." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of sterol 3-beta-glucosyltransferase activity ; GO:0016906. xref: MetaCyc:RXN-8882 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25771" xsd:anyURI is_obsolete: true replaced_by: GO:0016906

id: GO:0033956 name: beta-apiosyl-beta-glucosidase activity def: "Catalysis of the reaction: 7-[beta-D-apiofuranosyl-(1->6)-beta-D-glucopyranosyloxy]isoflavonoid + H2O = a 7-hydroxyisoflavonoid + beta-D-apiofuranosyl-(1->6)-D-glucose." [EC:3.2.1.161] xref: EC:3.2.1.161 -> EXACT xref: MetaCyc:3.2.1.161-RXN -> NARROW xref: MetaCyc:RXN-9156 -> EXACT xref: RHEA:21488 -> EXACT

id: GO:0033843 name: xyloglucan 6-xylosyltransferase activity def: "Catalysis of the transfer of an alpha-D-xylosyl residue from UDP-D-xylose to a glucose residue in xyloglucan, forming an alpha-1,6-D-xylosyl-D-glucose linkage." [EC:2.4.2.39] xref: EC:2.4.2.39 -> EXACT xref: MetaCyc:RXN-12415-> NARROW xref: MetaCyc:RXN-9461-> NARROW

id: GO:0047101 name: branched-chain alpha-keto acid dehydrogenase activity def: "Catalysis of the reaction: [a branched-chain alpha-keto acid] + CoA + NAD+ = [a branched-chain acyl-CoA] + CO2 + NADH. This enzyme system catalyzes the oxidative decarboxylation of branched-chain alpha-keto acids derived from L-leucine, L-isoleucine, and L-valine to branched-chain acyl-CoAs." [EC:1.2.1.25, MetaCyc:1.2.1.25-RXN] xref: EC:1.2.1.25 -> EXACT xref: MetaCyc:1.2.1.25-RXN-> EXACT xref: RHEA:13997 {source="skos:narrowMatch"} xref: RHEA:25177 {source="skos:narrowMatch"} xref: RHEA:30907 {source="skos:narrowMatch"}

remove xref from term below and add as NARROW on term above:

id: GO:0102006 name: obsolete 4-methyl-2-oxopentanoate dehydrogenase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 4-methyl-2-oxopentanoate + coenzyme A(4-) + NAD(1-) = isovaleryl-CoA(4-) + carbon dioxide + NADH(2-)." [EC:1.2.1.-] comment: The reason for obsoletion is that this term is equivalent to branched-chain alpha-keto acid dehydrogenase activity. xref: MetaCyc:2KETO-4METHYL-PENTANOATE-DEHYDROG-RXN property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26124" xsd:anyURI is_obsolete: true replaced_by: GO:0047101

id: GO:0009976 name: tocopherol cyclase activity def: "Catalysis of the reactions: delta-tocopherol = 2-methyl-6-phytyl-1,4-benzene-1,4-diol, gamma-tocopherol = 2,3-dimethyl-6-phytylbenzene-1,4-diol. delta-tocotrienol = 6-geranylgeranyl-2-methylbenzene-1,4-diol gamma-tocotrienol, and = 6-geranylgeranyl-2,3-dimethylbenzene-1,4-diol." [EC:5.5.1.24, PMID:12213958] xref: EC:5.5.1.24 -> EXACT xref: KEGG_REACTION:R07502 -> NARROW xref: KEGG_REACTION:R07503 -> NARROW xref: KEGG_REACTION:R10623 -> NARROW xref: KEGG_REACTION:R10624 -> NARROW xref: MetaCyc:RXN-14921 -> NARROW xref: MetaCyc:RXN-14922 -> NARROW xref: MetaCyc:RXN-2543 -> NARROW xref: MetaCyc:RXN-2561 -> NARROW xref: RHEA:37983 {source="skos:narrowMatch"} xref: RHEA:37987 {source="skos:narrowMatch"} xref: RHEA:38015 {source="skos:narrowMatch"} xref: RHEA:38023 {source="skos:narrowMatch"} is_a: GO:0009975 ! cyclase activity

id: GO:0004467 name: long-chain fatty acid-CoA ligase activity def: "Catalysis of the reaction: a long-chain fatty acid + ATP + CoA = a long-chain fatty acyl-CoA + AMP + diphosphate. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons." [RHEA:15421] comment: While there is not universal consensus on the lengths of short-, medium-, long- and very-long-chain fatty acids, the GO uses the definitions in ChEBI (see CHEBI:26666, CHEBI:59554, CHEBI:15904 and CHEBI:27283). Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:6.2.1.3 -> EXACT xref: MetaCyc:PWY-5143 -> RELATED xref: MetaCyc:RXN-7904 -> EXACT xref: RHEA:15421 -> EXACT

id: GO:0000140 name: acylglycerone-phosphate reductase (NADP+) activity def: "Catalysis of the reaction: 1-hexadecanoyl-sn-glycero-3-phosphate + NADP+ = 1-hexadecanoylglycerone 3-phosphate + H+ + NADPH." [RHEA:17341] xref: EC:1.1.1.101 -> EXACT xref: MetaCyc:ACYLGLYCERONE-PHOSPHATE-REDUCTASE-RXN -> EXACT xref: RHEA:17341 {source="skos:exactMatch"} xref: RHEA:36175 {source="skos:narrowMatch"}

remove xref from term below and add as NARROW to term above:

id: GO:0102566 name: obsolete 1-acyl dihydroxyacetone phosphate reductase activity namespace: molecular_function def: "OBSOLETE. Catalysis of the reaction: 1-oleoylglycerone 3-phosphate + NADPH + H+ = 1-oleoyl-sn-glycero-3-phosphate + NADP." [GOC:pz] comment: This term was obsoleted because it represents a specific substrate of acylglycerone-phosphate reductase activity ; GO:0000140. xref: MetaCyc:RXN-15046 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI is_obsolete: true replaced_by: GO:0000140

id: GO:0033835 name: flavanone 7-O-glucoside 2''-O-beta-L-rhamnosyltransferase activity def: "Catalysis of the reaction: UDP-L-rhamnose + a flavanone 7-O-glucoside = UDP + a flavanone 7-O-[beta-L-rhamnosyl-(1->2)-beta-D-glucoside]." [EC:2.4.1.236] xref: EC:2.4.1.236 -> EXACT xref: MetaCyc:RXN-5001 -> EXACT xref: MetaCyc:RXN-5002-> NARROW xref: MetaCyc:RXN-5004 -> NARROW xref: MetaCyc:RXN-7759 -> Remove (mapped to 2.4.1.M88) xref: MetaCyc:RXN-9699 -> NARROW xref: RHEA:15473 -> EXACT

id: GO:0003878 name: ATP citrate synthase activity def: "Catalysis of the reaction: acetyl-CoA + ADP + H+ + oxaloacetate + phosphate = ATP + citrate + CoA." [RHEA:21160] comment: Note that this term has a MetaCyc pathway reference as the pathway only has a single step. xref: EC:2.3.3.8-> EXACT xref: KEGG_REACTION:R00352-> EXACT xref: MetaCyc:ATP-CITRATE-PRO-S--LYASE-RXN-> EXACT xref: MetaCyc:PWY-5172-> RELATED xref: RHEA:21160-> EXACT