[Biojava-l] protein database files?

[Simon Brocklehurst]

Russell Smithies wrote:
> 
> Has anyone extracted co-ordinates from protein database files and are there
> suitable parsers already in BioJava ?
> 

Russell,

There's a parser for Protein Data Bank format files that parses
coordinates - have look at the PdbSAXParser in the
org.biojava.bio.program.sax package...

Note, it's a SAX Parser, so it doesn't populate predefined Java objects.

Simon
--
Simon M. Brocklehurst, Ph.D.
Head of Bioinformatics & Advanced IS
Cambridge Antibody Technology
The Science Park, Melbourn, Cambridgeshire, UK
http://www.CambridgeAntibody.com/
mailto:simon.brocklehurst@CambridgeAntibody.com