VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Oct 20 2010 - 10:23:25 CDT

Hi,
  You can add an ion using the molefacture plugin and you can
interactively edit bonds in VMD. If intend to run this as a
simulation that still leaves the issue of having force field parameters
for your ion, which you'll likely have to solve for yourself.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Oct 20, 2010 at 02:55:36PM +0800, Joyce Tan wrote:
> Hi,
>
> I would like to add an cadmium ion which would be connecting 4 sulphur
> atoms from 4 cysteines through covalent bonds.
>
> Is vmd capable to do this or is there any plugin to add the cadmium ions
> and bonding formation?
>
> Regards,
> Joyce 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078