pgaudet

Yes. these 2 are related. We need to make the list of available RHEAs (that are not in the ChEBI 7.3 set).

Indeed GO:0034604 pyruvate dehydrogenase (NAD+) activity describes the whole pathway in the LD: 'pyruvate dehydrogenase activity' and ('has part' some 'dihydrolipoyl dehydrogenase activity') and ('has part' some 'pyruvate dehydrogenase (acetyl-transferring)...

We should also obsolete the parent class: GO:0034603 pyruvate dehydrogenase [NAD(P)+] activity, since our current guidelines are to only have NAD(P) in reactions when the enzyme can use either. This...

Action points: - [x] Add EC:1.2.1.104 and RHEA:28042 to 3 MF terms as broad xref Added by Steven: Turns out I'd already done this :-)

Dear all, The proposal has been made to obsolete - 'pyruvate dehydrogenase activity (GO:0004738)' - unnecessary grouping term (7 direct EXP annotations to check/move) - 'pyruvate dehydrogenase [NAD(P)+] activity (GO:0034603)'...

@sjm41 Should we add GO:0006086 pyruvate decarboxylation to acetyl-CoA has part GO:0004148 'dihydrolipoyl dehydrogenase (NADH) activity' GO:0004739 'pyruvate dehydrogenase (acetyl-transferring) activity' GO:0004742 'dihydrolipoyllysine-residue acetyltransferase activity' ? Thanks, Pascale

I added this to the next ontology call discussion. Closing this ticket, what was requested is done.

You mean, the has_part for the BP terms? This is on today's editors call; we can decide the action to take (and create a new ticket if needed) today?

After talking with Jim, I'd like to recheck the mappings to RHEA to make sure we did this correctly.

OK done at the ontology call. This is as expected.