Review annotations to GO:0015680 protein maturation by copper ion transfer, GO:0097428 protein maturation by iron-sulfur cluster transfer, GO:0110147 protein maturation by nickel ion transfer, GO:0022417 protein maturation by protein folding, GO:0106034, GO:0106035

[edwong57]

Dear all,

The proposal has been made to obsolete:
GO:0015680 protein maturation by copper ion transfer
GO:0097428 protein maturation by iron-sulfur cluster transfer
GO:0110147 protein maturation by nickel ion transfer
GO:0022417 protein maturation by protein folding

see geneontology/go-ontology#29105

Experimental annotations that need to be reviewed are here: https://docs.google.com/spreadsheets/d/1MrDzZotfA5Tjac5o736Erg7TDZ6ZsuurpVCQhYY7GaY/edit?usp=sharing

Impacted groups:
SGD 17
PomBase 11
TAIR 1
ComplexPortal 3
EcoCyc 8
EcoliWiki 1
FlyBase 10
UniProt 11
WB 1
MGI 7
CACAO 1
HGNC-UCL 3 - done
BHF-UCL 3 - done
Alzheimers_University_of_Toronto 1 - done

These terms will be replaced by the parent GO:0051604 protein maturation.

In addition, curators should consider whether MF annotations should be added:

GO:0022417 protein maturation by protein folding >> consider protein folding chaperone
GO:0015680 protein maturation by copper ion transfer >> consider copper chaperone activity
GO:0022417 protein maturation by protein folding >> consider protein folding chaperone
GO:0110147 protein maturation by nickel ion transfer >>GO:0170061 nickel chaperone activity (NTR -geneontology/go-ontology#29115)
GO:0097428 protein maturation by iron-sulfur cluster transfer >> consider : iron-sulfur cluster carrier activity

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Mappings that need to be reviewed: (InterPro2GO, UniProt-Keywords, UniRule)
interpro2go 7
UniRule2go 3

Thanks.

[hattrill]

FB done

[ValWood]

Hi, @edwong57, some of the annotations in the spreadsheet are direct to "protein maturation", but that term isn't going right?

[edwong57]

Hi @ValWood. Correct, that term isn't going away. I removed those rows -- thanks for that catch.

[Antonialock]

Pinc and uniprot done.

the list could be incomplete e.g. more proteins annotated to this for pombase? @ValWood
(https://www.pombase.org/term/GO:0097428
https://www.pombase.org/term/GO:0110147

[ValWood]

These are all ISS and IBA, v

[pgaudet]

@RLovering

You have written 'checked and unchanged' for protein maturation by protein folding - isn't that term being obsolete in favor of MF protein folding chaperone + BP 'protein maturation'?

Thanks, Pascale

[RLovering]

oops sorry I had changed them, the one I haven't changed is protein maturation - I have updated the spreadsheet
Ruth

[edwong57]

SGD done

[amandamackie]

EcoCyc done

[LiNiMGI]

MGI done.

[sarach06]

Hi,
I reviewed these GO mapping in InterPro and replace with the parent term accordingly. This will be visible in InterPro 103.0.
Best regards,
Sara