[BiO BB] Getting PDB id from Swissprot entry

[Sourangshu Bhattacharya]

Hi Dan,
Thank you very much. I didn't know about MSD.

There is also an entry HSSP in swissprot which gives homologues.

Sourangshu

Dan Bolser wrote:

>On Wed, 30 Jun 2004, Sourangshu Bhattacharya wrote:
>
>  
>
>>Hi,
>>
>>Is there a direct way (without reading the protein name from swissprot 
>>and searching in PDB) of getting the PDB id of the protein corresponding 
>>to a particular Swissprot id ?
>>    
>>
>
>I would use the MSD database, which maintains a manually curated version
>of the SwissProt to PDB mapping.
>
>  
>
>>Also, how do I know whether structure for a particular protein 
>>corresponding to a swissprot id has been determined or not ?
>>    
>>
>
>Strictly speeking, the above mapping gives you this. More realistically,
>however, you can consider very close homologues to the above set as also
>'solved'. Where you draw the line is a matter of requirement, but you can
>get reasonable models (allegedly) at > 40% sequence identity, or
>reasonable 'fold prediction' at much larger distances (see SUPERFAMILY for
>example).
>
>It all depends on what you want to do.
>
>  
>
>>Thank you very much..
>>
>>Regards,
>>Sourangshu.
>>
>>
>>    
>>
>
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-- 

Sourangshu Bhattacharya
PhD Student,
Dept. of Computer Science & Automation,
Indian Institute of Science, 
Bangalore - 560012, India.

Website: http://people.csa.iisc.ernet.in/sourangshu
Cell Phone : 91-98457 97492