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For questions about polar or non-polar chemical species, or their comparison. Also, for questions where polar or non-polar solvents have an effect.

8
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I have found one simple way to do this via Molden: Open the .xyz file via Molden: gmolden myfile.xyz Click the "Create Surfaces ...etc." button Click Solv. Acc. Surface Click Elec. Pot. Mapped Cl …
answered Jun 21 '17 by khaverim
8
votes
I think this qualifies as a separate answer, using VMD. I converted the .xyz file to .pdb format (or at least some variant of the strict convention). Thus the file looks like below. The columns are m …
answered Jun 21 '17 by khaverim