From: Axel Kohlmeyer (
Date: Mon Feb 27 2012 - 13:30:49 CST

On Mon, Feb 27, 2012 at 1:38 PM, Anthony Cruz Balberdi
<> wrote:
> Hi:
> I am trying to use VMD for doing  some analysis of my simulation. I notice
> that VMD was able to write the resid in hexadecimal but it is not able to
> read it back. I decided to edit the pdb plugin so can be use for my
> analysis.

when VMD writes a hexadecimal resid, you are in trouble,
since your structure doesn't comply with PDB rules anymore.
better to use a different file format. in many ways, pdb is a
horrible format, since it has a very low accuracy for coordinates.

> I was able to compiled the new pdb plugin. In order to be able to test it in
> vmd, I need to compile VMD with the new plug in or just put it in the plug
> in molfile directory of the precompiled VMD?

you just copy the plugin over, however, for it to be recognized,
you have to step up the (minor) version number to tell VMD
that your plugin is newer as and should override the compiled
in plugin.


> Best Regards,
> Anthony

Dr. Axel Kohlmeyer
College of Science and Technology
Temple University, Philadelphia PA, USA.