Questions tagged [pdb]

For questions related to the Protein Data Bank file format, e.g. information included, converting to/from this format.

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Limits of periodic box from pdb

I have a pdb file of some solvent molecules in a box of 20 Angstroms I have built using Tinker. I have opened the file with Chimera, Molden, Pymol and Avogadro... but I would like to see, and maybe ...
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7 votes
1 answer

Gromacs generate charges for a .pdb file

I have a .pdb file containing water molecules. ...
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6 votes
3 answers

How to extract specific frames/model from a multi model pdb file?

I have a multi model pdb file and would like to extract the last frame or any other frame from it.
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