Closed sjm41 closed 9 months ago
Pombe done, Thanks!
Thanks @ValWood ! I've just disputed the annotations from PMID:16262699 in P2GO, but they were all made by Ruth (HGNU/BHFL) and the disputes got sent to her email address. Who will take care of these now Ruth has gone?
@RLovering is still working ;)
Hi Steven thanks for the update. The correct terms were not available in 2006 ;) but great to see that better terms are now available. I have updated these as you suggested. As the qualifier I had used was more appropriate I have updated these rather than deleting them. HGNU are for the annotations that myself and Varsha created while HGNC was at UCL, HGNC annotations are those created once HGNC moved to EBI. Yes probably the only unpaid curator still weirdly trying to address the back log of annotations that need to be revised. Please remove the alerts from these annotations. Best Ruth
So this is what retirement looks like ;)
Hi @RLovering ! Glad you're keeping busy! Thanks for updating the annotations, but they are the wrong way way round - the two mouse proteins (Q33DR2 and Q33DR3) should have "all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity" while the two human proteins (Q5T2R2 and Q86YH6) should have "all-trans-decaprenyl-diphosphate synthase activity". Can you amend? Thanks!
Oh dear, now that MGI and SwissProt have updated their annotations I have to delete these. I should have paid more attention, obviously ;)
Thanks for letting me know
Ruth
OK, thanks @RLovering !
I was looking at these 3 terms:
id: GO:0032476 name: decaprenyl diphosphate synthase complex def: "A complex that possesses di-trans,poly-cis-decaprenylcistransferase activity; involved in ubiquinone biosynthesis." [GOC:mah, PMID:14519123] subset: goslim_pir intersection_of: GO:1902494 ! catalytic complex intersection_of: capable_of GO:0008834 ! di-trans,poly-cis-decaprenylcistransferase activity
id: GO:0032477 name: homodimeric decaprenyl diphosphate synthase complex def: "A homodimeric complex that possesses di-trans,poly-cis-decaprenylcistransferase activity; involved in ubiquinone biosynthesis." [PMID:14519123] is_a: GO:0032476 ! decaprenyl diphosphate synthase complex relationship: part_of GO:0005737 ! cytoplasm
id: GO:0032478 name: heterotetrameric decaprenyl diphosphate synthase complex def: "A heterotetrameric complex located in the mitochondrial inner membrane that possesses di-trans,poly-cis-decaprenylcistransferase activity; involved in ubiquinone biosynthesis. In S. pombe it is a heterotetramer of Dlp1 and Dps1." [PMID:14519123] is_a: GO:0032476 ! decaprenyl diphosphate synthase complex relationship: part_of GO:0005743 ! mitochondrial inner membrane relationship: part_of GO:0031966 ! mitochondrial membrane
The only EXP or Swiss-Prot annotations to the parent term are from PMID:14519123 for these two pombe genes (@ValWood ): UniProtKB:O13851 dlp1 UniProtKB:O43091 dps1
This reveals a few problems:
Ontology Tasks:
Annotation tasks (should I make a separate ticket on the annotation tracker for these??):