Tutorial-l Mailing List

From: JC Gumbart (gumbart_at_ks.uiuc.edu)
Date: Tue Jul 31 2007 - 15:15:15 CDT

Your question is very vague and confusing. Have you done the VMD and
NAMD tutorials yet? The appendices in the NAMD tutorial discussing
the different file types (including the parameter file) will be
particularly helpful.

All you need to simulate a water box is the VMD solvate plugin, a
simple configuration file (can be adapted from the NAMD tutorial) and
any of the standard parameter files, such as the one included with
the NAMD tutorial. Also, you may find the water case study (on our
website) interesting.

On Jul 31, 2007, at 11:09 AM, Sathish Gurupatham wrote:

> hi all,
> i am simulating water molecule to understand namd.
> i got some o/p but i know its wrong.
> where can i have the para,conf files for a water molecule?
> pls help me.
> thanks.
>
> Choose the right car based on your needs. Check out Yahoo! Autos
> new Car Finder tool.

**
** Visit http://www.greatcircle.com/majordomo/ for more info on majordomo
**