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This repository hosts the tracker for issues pertaining to GO annotations.
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Review annotations to GO:0004697 diacylglycerol-dependent serine/threonine kinase activity #5327

Open pgaudet opened 2 months ago

pgaudet commented 2 months ago

GO:0004697 diacylglycerol-dependent serine/threonine kinase activity - we don't plan to obsolete this term, but we'd like to make is a 'do not annotate'

pgaudet commented 2 months ago

Please review annotations. Most should be annotated to the more specific terms

Annotations are here: https://docs.google.com/spreadsheets/d/1PzcT6oBD3G6w3mkpnyHBGLdpOOnyEgZW_2MA29M5u4g/edit?gid=0#gid=0

AgBase 1 AspGD 2 BHF-UCL 3 CACAO 2 CAFA 1 CGD 3 FlyBase 1 MGI 6 RGD 6 Reactome 13 SGD 2 UniProt 7 WB 3

jlewsmith commented 2 months ago

CGD done

From: pgaudet @.> Sent: Monday, July 8, 2024 8:57 AM To: geneontology/go-annotation @.> Cc: Jodi Lew-Smith @.>; Assign @.> Subject: Re: [geneontology/go-annotation] Review annotations to GO:0004697 diacylglycerol-dependent serine/threonine kinase activity (Issue #5327)

Assigned #5327https://github.com/geneontology/go-annotation/issues/5327 to @jlewsmithhttps://github.com/jlewsmith.

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gthayman commented 2 months ago

RGD done.

Antonialock commented 2 months ago

uniprot and cafa done

RLovering commented 2 months ago

PMID:18556656 does not classify PRKCE as calcium dependant (PKCε and -δ are among the DAG-dependent novel category (δ, ε, η, and θ), and PKCα is among the DAG- and calcium-dependent classic category (α, βI, βII, and γ),) and UniProt summarises both PRKCE and PRKCI as Calcium-independent, phospholipid- and diacylglycerol (DAG)-dependent serine/threonine-protein kinase so I have left these as they are. There is no mention of calcium in the PRKCI article. Also we have a TAS annotation to this term for PRKCD which is also described by UniProt as calcium independent (and in the PMID:18556656 article) - so I have left this annotation,

If you want me to do anything else with these please let me know

Ruth

LiNiMGI commented 2 months ago

MGI done.

RLovering commented 2 months ago

Hi Pascale, did you see my comments that PRKCD, PRKCE and PRKCI are Calcium-independent so I can't annotate them to the calcium dependent term?

pgaudet commented 2 months ago

Hi @RLovering Thanks for the reminder. @hattrill and I have looked at this again earlier this week and we now have

. GO:0004697 diacylglycerol-dependent serine/threonine kinase activity . . GO:0004698 calcium,diacylglycerol-dependent serine/threonine kinase activity . . GO:0004699 diacylglycerol-dependent, calcium-independent serine/threonine kinase activity

so I think you can use GO:0004699 (this should have been a suggestion above). Does that help?

RLovering commented 2 months ago

Hi Pascale

Sorry - I should have spotted that term - all done now Thanks

Ruth