[BioPython] Alternate Conformations in PDB
thamelry at binf.ku.dk
thamelry at binf.ku.dk
Sun Apr 17 09:03:15 EDT 2005
> How does the PDB module deal with alternate conformations? It appears
> to me that it is completely ignoring them, at least in the polypeptide
> builder.
Bio.PDB's representation of alternate conformation is actually quite
sophisticated IMO (it can even deal with point mutations, ie. for
example a Ser and a Pro residue in the same position).
OTOH CaPPBuilder indeed breaks the chain if it finds a disordered
CA atom, which is a bit questionable, especially since
PPBuilder does take disorder into account. So I'll submit a more
sophisticated version of CaPPBuilder to CVS today.
Best regards,
-Thomas
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