[Biopython] DSSP and secondary structure

[Peter]

On Sun, Sep 6, 2009 at 1:40 AM, xyz<mitlox at op.pl> wrote:
> Hello,
> I have a solved structure (1E8W) with a ligand and I would like to know
> which secondary structure are within 16A (cut off) of the ligand. I am no
> interested in coils.
>
> From looking at the PDB file, ligand is last residue in chain A, named QUE.
> ...
> Unfortunately, I do not know how can I find the secondary structures around
> 16A of the ligand.

There was a related thread back in March which may be helpful,
http://lists.open-bio.org/pipermail/biopython/2009-March/005021.html

If you are doing it just for this one protein, it may be easier to use a PDB
viewer - which would also help get a feel for the structure itself.

Peter