[Annotation] false positive IPR domain

[Doug howe]

I've submitted the request twice an don't see it in the tracker..not 
sure what the problem is there.  Anyway, here is the body of it:

I'm not entirely sure how one determines if an interpro domain called 
for a specific protein is a false positive or not.

The zebrafish proteins Q6NY23, A4JYG2 and B0R032 all have the interpro 
domain IPR001014 "Ribosomal_L23_CS" associated.  The homologous Human 
proteins do not have this domain.  The translation via interpro2go 
produces a number of GO annotations for this gene product (kirrel) that 
lead you to believe it is a ribosomal protein when in fact it appears to 
be a transmembrane protein.

Is this a case of false positive calls for IPR001014 on these proteins?

-Doug

edimmer at ebi.ac.uk wrote:
> Yes - these methods have greatly benefited from external curator feedback.
>
> The InterPro2GO mapping resource in particular has been greatly improved
> by information passed on from curators from lower eukaryotic/prokaryotic
> databases, sometimes there can be an unintentional bias in the mapping
> curators have made to domains; as the proteins in UniProt increases so the
> validity of the GO mappings to InterPro domains needs to be reviewed.
>
> Thanks!
> Emily
>
>   
>> For anyone who can't find this  tracker it is here:
>>
>> https://sourceforge.net/tracker/?atid=605890&group_id=36855&func=browse
>>
>> If we all consistently submit  our false positives from the mappings when
>> spot them, it will rapidly improve the electronic mappings for all
>> users..... most incorrect mappings affect many organisms.
>>
>> However, the mappings (Interpro and Uniprot keywords) are pretty good
>> these days though, so perhaps we have almost reached the point where most
>> of the false positives have been weeded out already? This should be the
>> case for any domains and families which are conserved in yeasts.
>>
>> Val
>>
>>
>> edimmer at ebi.ac.uk wrote:
>>     
>>> Hi Doug,
>>>
>>> Exactly as Rama says, you can add it to the Annotation tracker - and
>>> assign it to 'interhelp'.
>>>
>>> Thanks,
>>> Emily
>>>
>>>       
>>>> Doug,
>>>>
>>>> Annotation tracker on SF?
>>>>
>>>> Rama
>>>>
>>>> On Aug 18, 2008, at 2:12 PM, Doug howe wrote:
>>>>
>>>>         
>>>>> To whom should we direct inquiries about false positive interpro
>>>>> domain hits?  The alleged false positive is percolating through to
>>>>> our GO annotations and causing spurious interpro2go translations I
>>>>> think.
>>>>>
>>>>> --
>>>>> Doug Howe, Ph.D.
>>>>> ZFIN Scientific Curator
>>>>> Zebrafish Nomenclature Coordinator
>>>>>
>>>>> _______________________________________________
>>>>> Annotation mailing list
>>>>> Annotation at geneontology.org
>>>>> http://fafner.stanford.edu/mailman/listinfo/annotation
>>>>>           
>>>> _______________________________________________
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>>>>         
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>>     
>
>
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>   

-- 
Doug Howe, Ph.D.
ZFIN Scientific Curator
Zebrafish Nomenclature Coordinator