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geneontology / go-annotation

This repository hosts the tracker for issues pertaining to GO annotations.
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Sec62/Sec63 complex IPR004728 IPR027137 #1740

Closed ValWood closed 6 years ago

ValWood commented 6 years ago

This is the complex that brings the protein to the channel (translocon), So I think this one should be annotated as a

MF carrier rather than a
https://www.ebi.ac.uk/QuickGO/term/GO:0140104

MF transporter https://www.ebi.ac.uk/QuickGO/term/GO:0005215 (process is still transport)

LornaMGnify commented 6 years ago

Both entries are currently annotated as MF = GO:0008565 (protein transporter activity) which has an exact synonym of protein carrier activity. Also the GO term you suggest (GO:0140104) says it should not be used for direct annotation. So its seems like we should leave the annotations as they are.

ValWood commented 6 years ago

I think the exact synonym was changed today to related @pgaudet (if not it should be)

We need a more specific term, a child of carrier for this activity. I'll open a ticket for that.

ValWood commented 6 years ago

Ignore, this , I was thinking to the SRP. I'm not sure that this is a "transporter" though. It appears to only be "signal sequence binding". It seems to function analogously to the SRP. http://europepmc.org/abstract/MED/12518317

LornaMGnify commented 6 years ago

Having investigated this I agree that we cannot define a MF of "protein transport" for either Sec62 or Sec63. According to this, PMID:29263911 I don't think we can assign any specific MF to these subparts of the complex that would be correct accross all InterPro hits. As such I have removed the MF terms from these entries. Thanks! Lorna.

ValWood commented 6 years ago

I agree it's role is unclear.