GO:0043878 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (non-phosphorylating) activity

id: GO:0043878 name: glyceraldehyde-3-phosphate dehydrogenase (NAD+) (non-phosphorylating) activity namespace: molecular_function def: "Catalysis of the reaction: D-glyceraldehyde 3-phosphate + NAD+ + H2O = 3-phospho-D-glycerate + NADH + H+." [PMID:9497334] synonym: "glyceraldehyde-3-phosphate dehydrogenase (NAD) (non-phosphorylating) activity" EXACT [] synonym: "glyceraldehyde-3-phosphate dehydrogenase (NAD) activity" EXACT [] synonym: "NAD+-dependent glyceraldehyde-3-phosphate dehydrogenase activity" EXACT [] synonym: "non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase (NAD)" EXACT [] xref: EC:1.2.1.3 xref: MetaCyc:RXN-3443 xref: RHEA:25294 is_a: GO:0016620 ! oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor

This term has the wrong EC/RHEA xref, though the MetaCyc xref looks OK:

EC:1.2.1.3 is: 'aldehyde dehydrogenase (NAD(+))' and is correctly an xref on GO:0004029 aldehyde dehydrogenase (NAD+) activity.
RHEA:25294 is: 'acetaldehyde + H2O + NAD(+) = acetate + 2 H(+) + NADH'
MetaCyc:RXN-3443 is: D-glyceraldehyde 3-phosphate + NAD+ + H2O → 3-phospho-D-glycerate + NADH + 2 H+ which seems OK.

The correct RHEA appears to be RHEA:42760 (not in the GO): D-glyceraldehyde 3-phosphate + H2O + NAD(+) = (2R)-3-phosphoglycerate + 2 H(+) + NADH

RHEA:42760 maps that to EC:1.2.1.90 (not in the GO), which is: glyceraldehyde-3-phosphate dehydrogenase [NAD(P)(+)] D-glyceraldehyde 3-phosphate + H2O + NADP(+) <=> (2R)-3-phosphoglycerate + 2 H(+) + NADPH D-glyceraldehyde 3-phosphate + H2O + NAD(+) <=> (2R)-3-phosphoglycerate + 2 H(+) + NADH

And RHEA:42760 is also mapped to these MetaCyc IDs: RXN-15754: D-glyceraldehyde 3-phosphate + NAD(P)+ + H2O → 3-phospho-D-glycerate + NAD(P)H + 2 H+ RXN-3443: D-glyceraldehyde 3-phosphate + NAD+ + H2O → 3-phospho-D-glycerate + NADH + 2 H+

So:

[x] Remove RHEA:25294 from GO:0043878 and add RHEA:42760
[x] Put RHEA:25294 as a narrowMatch xref on GO:0004029 aldehyde dehydrogenase (NAD+) activity
[x] Remove EC:1.2.1.3 from GO:0043878
[ ] Either i) add EC:1.2.1.90 as broadMatch xref to GO:004387 (and also GO:0008886), or ii) create new grouping term for GO:004387 and GO:0008886 that is an exactMatch for EC:1.2.1.90. (Doing that would match how the sister 'phosphorylating' branch is currently handled - see below)

@pgaudet What do you think about the last point?

oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
       |__glyceraldehyde-3-phosphate dehydrogenase (NAD(P)+) (phosphorylating) activity (GO:0043891)
           |__glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity (GO:0004365)
           |__glyceraldehyde-3-phosphate dehydrogenase (NADP+) (phosphorylating) activity (GO:0047100)
       |__glyceraldehyde-3-phosphate dehydrogenase (NAD+) (non-phosphorylating) activity (GO:0043878)
       |__glyceraldehyde-3-phosphate dehydrogenase (NADP+) (non-phosphorylating) activity (GO:0008886)

geneontology / go-ontology

GO:0043878 glyceraldehyde-3-phosphate dehydrogenase (NAD+) (non-phosphorylating) activity #28144