VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Thu Jan 16 2014 - 19:35:23 CST

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On Thu, Jan 16, 2014 at 5:53 PM, Sanjib Chowdhury <sanjib_at_udel.edu> wrote:
> Hi,
>
>
>
> When I visualize my water model in VMD using cpk or bond drawing method, it
> shows bonding between H in the water

that is likely because VMD doesn't know that it is a hydrogen from the
information that you provide.

> molecule. How I can avoid this? I guess I need to change the bond order
> cut-off value. How can I change it in VMD?

you cannot.

axel.

>
>
> I will appreciate your suggestion.
>
>
>
> Thanks,
>
> Sanjib
>
>

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.

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