Hi Dmitry, The object model reflects the organization of data in PDB files http://www.wwpdb.org/docs.html.
Chains can contain a mix of different groups of atoms. As such the BioJava object model allows you to distinguish between amino acids nucleotides and hetatoms on the Group level, rather than on the chain level. Andreas On Thu, Aug 28, 2008 at 2:14 AM, Dmitry Repchevsky <[EMAIL PROTECTED]> wrote: > Hello! > > I have a PDB (1pio) with 2 chains and 1 HETATM solvent (water). > A Structure object contains "models" and "compounds". > "models" contains ALL elements (aminoacid chains AND solvents) and > "compaunds" only aminoacids. > The method Structure.getChains() returns me ALL elements... is it ok? I mean > that when I'm asking for a "chain" I do not expect to get a solvent... > > Just a curiosity, > > Dmitry > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
