Hello Diego--

It looks like you've read 0 atoms:

> initCoords: still 8383 unknown atomic coordinates

Likely, the input PDB has a non-blank ChainID or segid, so you will
specify this in seqToPSF. For example:

psfGen.seqToPSF(seq,seqType='prot',startResid=158,segName='A')

[if the ChainID or segid is A.]

Charles

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