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Errors in InterPro: IPR004268 Virulence factor MVIN-like #700

Closed gocentral closed 9 years ago

gocentral commented 15 years ago

Hi - this is from Magdalen Lindeberg from PAMGO:

I am writing to you regarding "InterPro: IPR004268 Virulence factor MVIN-like" which appears to be both incorrectly named and GO annotated.

A recent publication (PMID: 18832143) has shown that this protein is a flippase required for peptidoglycan synthesis, and a new gene and product name, "MurJ, peptidoglycan lipid II flippase" proposed. This protein is linked to virulence only in that it is required for cell viability (PMID: 17110975, PMID: 11274131). Currently IPR004268 is annotated to GO:0009405 pathogenesis (IEP) which does not seem appropriate in light of the evidence.

thanks

Jane

Reported by: jl242

Original Ticket: "geneontology/annotation-issues/700":https://sourceforge.net/p/geneontology/annotation-issues/700

gocentral commented 15 years ago

Original comment by: jl242

gocentral commented 15 years ago

Original comment by: e_kelly

gocentral commented 15 years ago

MviN - is not essential for viability see PMID:8200538. All members of IPR004268 have ~10 TM regions and from previous publications MviN seems to be involved in flagellin export or assembly. This does not detract from your suggestion that it is a flippase.
I have not renamed the gene as yet, I will wait for Swiss-Prot to change there record names and gene names. Once I they have done that I will happy change the InterPro record to reflect MurJ.

lastley I have removed all the GO mapping from IPR004268. I have written a new abstract and renamed the InterPro entry :

Flagellin assembly, membrane protein MviN

<p>This entry represents MviN, a family of integral membrane proteins predicted to have ten or more transmembrane regions. Although frequently listed as a virulence protein, it is not restricted to pathogens and it is an essential protein in Sinorhizobium meliloti. In a number of species its gene is adjacent to that of the uridylyltransferase GlnD, the signal-transducing enzyme that performs the key modification to the nitrogen regulatory protein PII [11274131].</p>

<p>Disruption of the MviN open reading frame results in flagellar structure that contain only the basal body and hook complexes, which lack the flagellum; suggesting that MviN might be involved in flagellin export or assembly [8200538]. Genome comparison studies led to MviN being predicted to be a peptidoglycan lipid II flippase though currently there is no direct evidence to support this annotation [18832143]. </p>

thanks for point out the problems with the entry. Please get back to me through source forge if you have any further comments.

David Lonsdale

Original comment by: dmlonsdale

gocentral commented 13 years ago

Original comment by: e_kelly