Review annotations to GO:0030433 ubiquitin-dependent ERAD pathway & regulation children

[ValWood]

Dear all,

The proposal has been made to obsolete GO:0030433 ubiquitin-dependent ERAD pathway and its regulation children,
see geneontology/go-ontology#23092

Experimental annotations that need to be reviewed are here:
https://docs.google.com/spreadsheets/d/1SRBcUABAQwRuTgMlCQ5l_Ffp5GBEDQL_t8aaomWhvvQ/edit#gid=0

Annotation will be automatically remapped to GO:0036503 ERAD pathway

Impacted groups:
1 CGD
11 ComplexPortal
5 GeneDB
12 TAIR

Will be automatically remapped
4 FlyBase
9 MGI
4 PomBase
97 SGD
60 UniProt
2 WB
1 ZFIN

Fixed
28 ParkinsonsUK-UCL FIXED

---

Mappings that need to be reviewed: (InterPro2GO, UniProt-Keywords, UniRule)
term file line
GO:0030433 interpro2go InterPro:IPR017247 UBX domain-containing protein 8 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 interpro2go InterPro:IPR040352 Transmembrane and ubiquitin-like domain-containing protein 1/2 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 interpro2go InterPro:IPR044623 ERAD-associated E3 ubiquitin-protein ligase component HRD3 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 interpro2go InterPro:IPR045132 Ubiquitin conjugation factor E4 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 interpro2go InterPro:IPR045149 Protein OS-9-like > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 interpro2go InterPro:IPR048056 AUP1, CUE domain > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 unirule2go UniRule:UR000138768 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 unirule2go UniRule:UR001426776 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433
GO:0030433 unirule2go UniRule:UR001695774 > GO:ubiquitin-dependent ERAD pathway ; GO:0030433

No action required. Annotations will be remapped to ERAD pathway

Thanks.

[ValWood]

@pgaudet same again , do I need to do a spreadsheet here? or will they all remap automatically?

[RLovering]

UCL annotations done, added a tab with just UCL annotations so that I could keep track of the annotations checked and changed

[pgaudet]

Many annotations there do not updated automatically:

• CGD
• ComplexPortal
• GeneDB
• TAIR ??
• InterPro

Thanks, Pascale

[ValWood]

@sandraorchard
@uliboehme
@jlewsmith
@tberardini / @lreiser

[ValWood]

@blazaropinto

[ValWood]

Apologies

1 CGD @jlewsmith
11 ComplexPortal @sandraorchard
5 GeneDB @uliboehme
12 TAIR @tberardini / @lreiser

I obsoleted this term today as part of a larger ticket, but you can fix these in the logs if you don't get to it before.

[sandraorchard]

Complex Portal done

[blazaropinto]

GO:0030433 changed to GO:0036503 ERAD pathway in the 6 entries mentioned. The changes will be available in the next InterPro release.

Best,
Beatriz

[lreiser]

TAIR tidied up

[jlewsmith]

CGD done

[suzialeksander]

This term has been obsoleted, remaining annotations will appear in GORULES error reports