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geneontology / go-ontology

Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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Add cross references GO:0043795 glyceraldehyde oxidoreductase activity into GO:0043797 Name glyceraldehyde-3-phosphate dehydrogenase (ferredoxin) activity #18961

Closed pgaudet closed 4 years ago

pgaudet commented 4 years ago

Cleaning up IMG: cross references #18908

@hdrabkin Do you agree with merging GO:0043795 glyceraldehyde oxidoreductase activity (single annotation, potentially incorrect, no EC) Catalysis of the reaction: D-glyceraldehyde + H2O + acceptor = D-glycerate + reduced acceptor.

into GO:0043797 glyceraldehyde-3-phosphate dehydrogenase (ferredoxin) activity Catalysis of the reaction: D-glyceraldehyde-3-phosphate + H2O + 2 oxidized ferredoxin = 3-phospho-D-glycerate + 2 H+ + 2 reduced ferredoxin. https://enzyme.expasy.org/EC/1.2.7.6

This is the closest reaction, going by definitions.

Thanks, Pascale

hdrabkin commented 4 years ago

They appear different. first rxn corresponds to https://www.genome.jp/dbget-bin/www_bget?ec: ENZYME entry: EC 1.2.99.8, exact same reaction, RHEA:36047 Second reaction maps to RHEA:24148, EC:1.2.7.6

hdrabkin commented 4 years ago

Do NOT merge; they are different. Add RHEA and ECs where missing

pgaudet commented 4 years ago

Will do, thanks.

pgaudet commented 4 years ago

dimethylamine methyltransferase activity namespace: molecular_function def: "Catalysis of the reaction: dimethylamine + a dimethylamine corrinoid protein = a methylated dimethylamine corrinoid protein + methylamine." [PMID:9874228] comment: This function is the first step in the pathway of methanogenesis from dimethylamine. -synonym: "dimethylamine:corrinoid methyltransferase activity" EXACT [] synonym: "dimethylamine-specific methylcobalamin:coenzyme M methyltransferase activity" NARROW [] +synonym: "dimethylamine:corrinoid methyltransferase activity" EXACT [] synonym: "DMA methyltransferase 1" EXACT [] synonym: "DMAMT 1" EXACT [] synonym: "MT1" BROAD [] @@ -247312,7 +247312,9 @@ is_a: GO:0016903 ! oxidoreductase activity, acting on the aldehyde or oxo group id: GO:0043795 name: glyceraldehyde oxidoreductase activity namespace: molecular_function -def: "Catalysis of the reaction: D-glyceraldehyde + H2O + acceptor = D-glycerate + reduced acceptor." [IMG:01506] +def: "Catalysis of the reaction: A + D-glyceraldehyde + H2O = (R)-glycerate + AH2 + H(+)." [PMID:10095793, RHEA:36047] +xref: EC:1.2.99.8 +xref: RHEA:36047