Re: Why Vmd didn't show the Pt-Cl bond

From: Edward Patrick Obrien (
Date: Wed May 19 2004 - 20:10:40 CDT

My guess is that VMD uses an algorithm to display bonds if two atoms of a
given type are within a predefined distance. Just because a bond is shown
on vmd doesn't mean it actually exists.

Once you create a .psf file (which will contain bonding info) for this pdb
you can load it also into vmd after you have loaded the .pdb file, and this
should then remove the erroneously displayed bond.


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