[Go] Alert: proposal to obsolete several molecular function terms that impacts existing annotation

Wed Jan 21 09:48:27 PST 2009

Dear GO,

The proposal has been made to obsolete

  Hsc70 protein regulator activity ; GO:0017078
  Hsp27 protein inhibitor activity ; GO:0010539
  Hsp27 protein regulator activity ; GO:0010538
  Hsp70/Hsc70 protein inhibitor activity ; GO:0030191
  Hsp70/Hsc70 protein regulator activity ; GO:0030192
  Hsp90 protein inhibitor activity ; GO:0010546
  Hsp90 protein regulator activity ; GO:0010545
  activin inhibitor activity ; GO:0017106
  calmodulin inhibitor activity ; GO:0005517
  chaperone activator activity ; GO:0030189
  chaperone inhibitor activity ; GO:0030190
  chaperone regulator activity ; GO:0030188
  glycerophospholipase inhibitor activity ; GO:0055101
  regulator of G-protein signaling activity ; GO:0016299

These terms have been identified as part of the quality control work done 
in preparation for adding regulates links within the molecular function 
ontology and between molecular function and biological process terms. They 
will be made obsolete because they represent either biological processes 
(e.g. GO:0016299) or regulators of obsolete functions (e.g. GO:0030188).

Annotations to these terms exist as listed below:

gene_association.cgd.gz
GO ID	IEA	non-IEA	total
GO:0016299	1	0	1
GO:0030188	1	0	1
GO:0030189	3	0	3
GO:0030190	1	0	1
GO:0030192	4	0	4

gene_association.dictyBase.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1

gene_association.fb.gz
GO ID	IEA	non-IEA	total
GO:0005517	0	2	2
GO:0016299	0	9	9
GO:0017078	0	1	1
GO:0017106	0	1	1
GO:0030189	1	0	1

gene_association.GeneDB_Spombe.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	5	5
GO:0030189	0	2	2

gene_association.goa_chicken.gz
GO ID	IEA	non-IEA	total
GO:0030189	3	0	3

gene_association.goa_cow.gz
GO ID	IEA	non-IEA	total
GO:0017106	0	1	1
GO:0030189	3	0	3

gene_association.goa_human.gz
GO ID	IEA	non-IEA	total
GO:0005517	0	1	1
GO:0010546	0	1	1
GO:0016299	2	4	6
GO:0017106	1	3	4
GO:0030188	0	2	2
GO:0030189	2	1	3
GO:0030191	0	2	2
GO:0030192	0	2	2

gene_association.goa_uniprot.gz
GO ID	IEA	non-IEA	total
GO:0017106	0	5	5
GO:0030188	49	0	49
GO:0030189	1489	0	1489

gene_association.mgi.gz
GO ID	IEA	non-IEA	total
GO:0016299	0	2	2
GO:0017106	0	1	1
GO:0030188	0	2	2
GO:0030189	2	0	2
GO:0030191	0	1	1

gene_association.rgd.gz
GO ID	IEA	non-IEA	total
GO:0005517	0	1	1
GO:0010546	0	1	1
GO:0016299	1	4	5
GO:0017106	0	3	3
GO:0030188	0	2	2
GO:0030189	1	0	1
GO:0030191	0	3	3

gene_association.sgd.gz
GO ID	IEA	non-IEA	total
GO:0016299	0	1	1
GO:0030188	0	8	8
GO:0030189	2	5	7
GO:0030190	0	2	2
GO:0030192	0	5	5

gene_association.tair.gz
GO ID	IEA	non-IEA	total
GO:0030189	3	0	3

gene_association.tigr_Aphagocytophilum.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Banthracis.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Cburnetii.gz
GO ID	IEA	non-IEA	total
GO:0030192	0	1	1

gene_association.tigr_Chydrogenoformans.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Cjejuni.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	3	3

gene_association.tigr_Cperfringens.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	2	2

gene_association.tigr_Cpsychrerythraea.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030189	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Dethenogenes.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Echaffeensis.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Gsulfurreducens.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Hneptunium.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Lmonocytogenes.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Mcapsulatus.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	3	3
GO:0030192	0	1	1

gene_association.tigr_Nsennetsu.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Pfluorescens.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Soneidensis.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.tigr_Spomeroyi.gz
GO ID	IEA	non-IEA	total
GO:0030188	0	1	1
GO:0030192	0	1	1

gene_association.wb.gz
GO ID	IEA	non-IEA	total
GO:0016299	0	5	5
GO:0030189	1	0	1

gene_association.zfin.gz
GO ID	IEA	non-IEA	total
GO:0030189	4	0	4

Annotations should be transferred to a parent term or to a biological 
process term, as will be indicated for each term in consider or 
replaced_by tags.

GO:0030188 is in the generic, GOA, and PIR slims, and in the prokaryote 
subset; GO:0030189 is also in the prokaryote subset. None of the other 
terms are in subsets or slims maintained in the GO OBO file.

Three terms are used in external mappings:

GO:0016299
mips2go:MIPS_funcat:18.02.05 regulator of G-protein signalling > 
GO:regulator of G-protein signaling activity ; GO:0016299

GO:0030188
hamap2go:HAMAP:MF_01153 > GO:chaperone regulator activity ; GO:0030188
hamap2go:HAMAP:MF_01155 > GO:chaperone regulator activity ; GO:0030188
tigrfams2go:JCVI_TIGRFAMS:TIGR00714 Fe-S protein assembly co-chaperone 
HscB > GO:chaperone regulator activity ; GO:0030188

GO:0030189
hamap2go:HAMAP:MF_01151 > GO:chaperone activator activity ; GO:0030189
interpro2go:InterPro:IPR013538 Activator of Hsp90 ATPase homologue 1-like 
> GO:chaperone activator activity ; GO:0030189
interpro2go:InterPro:IPR015310 Activator of Hsp90 ATPase, N-terminal > 
GO:chaperone activator activity ; GO:0030189
pfam2go:Pfam:PF08327 AHSA1 > GO:chaperone activator activity ; GO:0030189
pfam2go:Pfam:PF09229 Aha1_N > GO:chaperone activator activity ; GO:0030189

SourceForge link:
https://sourceforge.net/tracker/index.php?func=detail&aid=2526210&group_id=36855&atid=440764

Comment period ends on February 5, 2009.

*** Unless objections are received by February 5,
      we will assume that you agree to this change. ***

Thanks,
Midori, David & Tanya