[Bioperl-l] Parsing SwissProt annotation in comment

Brian Osborne bosborne11 at verizon.net
Wed Jan 9 09:46:42 EST 2008


Samuel,

The Feature-Annotation HOWTO addresses this specifically:

http://www.bioperl.org/wiki/HOWTO:Feature-Annotation


Brian O.


On Jan 9, 2008, at 3:30 AM, Samuel GRANJEAUD - IR/IFR137 wrote:

> Hello,
>
> I would like to retrieve the human reviewed annotation of SwissProt  
> entries; these information are in the comment section of the  
> sequence file. Here is an example:
>
> CC   -!- FUNCTION: Actins are highly conserved proteins that are  
> involved
> CC       in various types of cell motility and are ubiquitously  
> expressed
> CC       in all eukaryotic cells.
> CC   -!- SUBUNIT: Polymerization of globular actin (G-actin) leads  
> to a
> CC       structural filament (F-actin) in the form of a two-stranded  
> helix.
> CC       Each actin can bind to 4 others. Found in a complex with  
> XPO6,
> CC       Ran, ACTB and PFN1. Component of a complex composed at  
> least of
> CC       ACTB, AP2M1, AP2A1, AP2A2, MEGF10 and VIM. Interacts with  
> XPO6.
> CC   -!- INTERACTION:
> CC       Q00987:MDM2; NbExp=1; IntAct=EBI-353944, EBI-389668;
> CC       P84022:SMAD3; NbExp=1; IntAct=EBI-353944, EBI-347161;
> CC   -!- SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton.
>
> Is there a specific method to do such a job?
>
> Thanks much,
> Samuel
>
> -- 
>
> Samuel GRANJEAUD                   granjeau at tagc.univ-mrs.fr
> INSERM - ICIM - TAGC               Tel: +33  (0)491 82 87 24
> http://tagc.univ-mrs.fr            Fax: +33  (0)491 82 87 01
> http://icim.marseille.inserm.fr/proteomique
>
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