VMD-L Mailing List

From: Benjamin Bouvier (benjamin.bouvier_at_ibcp.fr)
Date: Mon Sep 28 2009 - 14:54:09 CDT

On Mon, 28 Sep 2009 20:38:32 +0200, Elias Ahadi <eahadi_at_uwo.ca> wrote:

> Hello,
>
> I have written my own MD program. I am simulating a model protein chain
> in a water cluster. For visualization, I use VMD v1.8.4 to read/display
> the outputted results (coordinates) in either PDB or XYZ format. The
> problem is that VMD does not read the CONECT command in PDB to properly
> display the chain links. Is there any options within VMD or another
> visualization program that can display this feature?
>
> Really appreciate if anyone can help.
>
> Elias

Not sure about VMD, but I know Pymol honors the CONECT card if your atoms
are defined as HETATM instead of ATOM.
Cheers,

Benjamin