[Biopython-dev] Optimization of PDBParser and friends

[João Rodrigues]

Well... :) If this is what the authors put in.. well, that's just it. The
parser should not be an interpreter.

However, when building peptides, you should get two peptides: the ALA-SEP,
and the protein chain A. And I think this is what you will get. Also, the
fact that they are heteroatoms is already a good filter if you want them
out of the equation.