[Go] Alert: proposal to obsolete GO:0030508 that impacts existing annotations

[Midori Harris]

Apologies for typo just before annotation counts; don't worry, I did 
search for GO:0030508 to get the numbers! Corrected below anyway.

m

On Thu, 8 May 2008, Midori Harris wrote:

> Dear GO,
>
> The proposal has been made to obsolete
>
>  thiol-disulfide exchange intermediate activity ; GO:0030508
>
> Annotations to GO:0030508 exist as listed below:
>
> 	DB	total
> 	GeneDB_Pfalciparum	4 (1 TAS, 3 ISS)
> 	GeneDB_Spombe	10 (several codes; no IEA)
> 	GeneDB_Tbrucei	5 (all ISS)
> 	CGD	5 (2 IEA, 3 NAS)
> 	dictyBase	12 (several codes; no IEA)
> 	FB	22 (several codes; no IEA))
> 	GOA_human	5 (2 IDA, 3 TAS)
> 	MGI	1 (IDA)
> 	Pseudocap	4 (all RCA)
> 	RGD	5 (several codes; 1 IEA)
> 	SGD	16 (several codes; no IEA)
> 	TAIR	92 (1 ISS; rest RCA)
> 	tigr_Aphagocytophilum	3 (all ISS)
> 	tigr_Banthracis	5 (all ISS)
> 	tigr_Cburnetii	4 (all ISS)
> 	tigr_Chydrogenoformans	6 (all ISS)
> 	tigr_Cjejuni	6 (all ISS)
> 	tigr_Cperfringens	5 (all ISS)
> 	tigr_Cpsychrerythraea	13 (all ISS)
> 	tigr_Dethenogenes	3 (all ISS)
> 	tigr_Echaffeensis	2 (all ISS)
> 	tigr_Gsulfurreducens	7 (all ISS)
> 	tigr_Hneptunium	4 (all ISS)
> 	tigr_Lmonocytogenes	5 (all ISS)
> 	tigr_Mcapsulatus	4 (all ISS)
> 	tigr_Nsennetsu	2 (all ISS)
> 	tigr_Pfluorescens	6 (all ISS)
> 	tigr_Psyringae	5 (all ISS)
> 	tigr_Psyringae_phaseolicola	4 (all ISS)
> 	tigr_Soneidensis	7 (all ISS)
> 	tigr_Spomeroyi	5 (all ISS)
> 	tigr_Vcholerae	6 (all ISS)
>
> The reason for obsoleting this term is that it represents a combination of 
> gene product features and involvement in a biological process. Terms 
> suggested for annotation updates:
>
>  protein thiol-disulfide exchange ; GO:0006467 (BP)
>  disulfide oxidoreductase activity ; GO:0015036 (MF)
>
> This term is in the prokaryote subset, but not in any GO slims maintained in 
> the gene_ontology_write.obo file. It is used in two external mappings:
>
> tigrfams2go:TIGR_TIGRFAMS:TIGR01068 thioredoxin > GO:thiol-disulfide exchange 
> intermediate activity ; GO:0030508
>
> tigrfams2go:TIGR_TIGRFAMS:TIGR02181 glutaredoxin 3 > GO:thiol-disulfide 
> exchange intermediate activity ; GO:0030508
>
> SourceForge link:
> https://sourceforge.net/tracker/index.php?func=detail&aid=1036091&group_id=36855&atid=440764
>
> Comment period ends on May 27, 2008.
>
> *** Unless objections are received by May 27,
>    we will assume that you agree to this change. ***
>
> Thanks,
> Midori
>
>
>