[BioPython] Sequence Numbering in PDB-Files

[thamelry at binf.ku.dk]

> Hi Everyone!
>
> I'm pretty new in terms of biopython, so it might be, that I just didn't
> get into the right parts of the manual yet.

It shows :-)
The Bio.PDB FAQ is at
http://www.biopython.org/docs/cookbook/biopdb_faq.pdf

You probably need something like:

for model in structure:
   for chain in model:
       for residue in chain:
           hetatm_flag, resseq, icode=residue.get_id()
           print resseq, icode

The hetatm_flag is blank (' ') for ordinary residues, 'W'
for waters and 'H' for other hetero-residues. The resseq
and icode have the usual PDB meaning.

Cheers,

-Thomas