[Biojava-l] Secondary Structure data from PDB file

[Andreas Prlic]

Hi Andrew,

> Do I observe correctly that org.biojava.bio.structure.io.PDBFileParser
> does not currently handle secondary structure annotation (e.g. HELIX,
> SHEET, or TURN records),

The parser is fine, but this has been a missing feature so far.
To add support for this I just committed a patch to the biojava CVS. 
The parser now
(optionally) can attach the secondary structure assignment that has 
been provided by the author
of the PDB file to an amino acid.

See also
http://biojava.org/wiki/BioJava:CookBook:PDB:read

Andreas

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Andreas Prlic      Wellcome Trust Sanger Institute
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