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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 EC/RHEA xrefs to GO:0052642 lysophosphatidic acid phosphatase activity (?) #26658

Closed sjm41 closed 10 months ago

sjm41 commented 10 months ago

id: GO:0052642 name: lysophosphatidic acid phosphatase activity def: "Catalysis of the reaction: lysophosphatidic acid + H2O = phosphate + monoacylglycerol." [PMID:20045079, PMID:7966317] synonym: "LPA phosphatase activity" EXACT [] synonym: "lysophosphatidate phosphatase activity" EXACT [] is_a: GO:0016791 ! phosphatase activity

I think this is the same as https://enzyme.expasy.org/EC/3.1.3.106 / https://www.rhea-db.org/rhea/33155: EC:3.1.3.106 Name:2-lysophosphatidate phosphatase Alt_name:1-acyl-sn-glycerol 3-phosphatase Reaction:a 1-acyl-sn-glycero-3-phosphate + H2O <=> a 1-acyl-sn-glycerol + phosphate

Would you agree @kaxelsen @pgaudet ?

I see UniProt has Q9SRQ6 (arabidopsis NPC3) annotated to EC:3.1.3.106/RHEA:33155 and GO:0052642 from PMID: 20045079

pgaudet commented 10 months ago

Looks ok to me

sjm41 commented 10 months ago

OK, thanks. From the ontology call the other day, it sounded like I need to add 'activity' to the end of the EC names when adding them as synonyms??

pgaudet commented 10 months ago

Yes, this is how we have been doing this, let's stay consistent. Hopefully the future script to maintain the synonyms up to date can fix all these to match the EC names.