From: Qiang Fu (
Date: Fri Feb 25 2011 - 09:48:45 CST

Dear VMD Users,

I want to draw a figure to show a molecule adsorbed on a metal surface.
However, there is no bond connection between metal atoms even I used the
CPK mode for display, which makes the current version of the figure

>From the discussions on the VMD Mailing list, I know that with the command
"topo addbonds <ID1> <ID2>, one can add a bond between the two atoms <ID1>
and <ID2>. However, there are as many as 64 atoms in our surface system,
which makes it too complicated to achieve in the same way. I know the Tk
Console script might be used to do so, but I have very very little knowledge
about it.

Could you please give me some help? I am very grateful if you could tell me
some convenient way to add bonds among so many atoms within the metal
surface. Thank you very much!

Best Regards!
Qiang Fu

Dr. Qiang Fu
Major in computational chemistry
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