VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Feb 09 2015 - 15:28:59 CST

Hi,
  Try using the atom type or element fields to assign the color
you want instead, I think that should circumvent this issue.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Feb 03, 2015 at 09:56:20PM +0200, Debasish Mandal wrote:
> Hello VMD users,
> I am working on the dynamics of protein
> substrate complex. The substrate, a organic molecule, possess a chlorine
> atom. I wants to prepare topology using VMD paratool but it is
> not Recognizing Cl atom. could you please provide me any idea how to solve
> it? In VMD window Cl atom shows the same color as of carbon atom. Please
> let me know how to change it?
>
> Your help will be greatly appreciated.
>
> Thanks & Regards
>
> Debasish 

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