From: andrea (
Date: Wed Oct 15 2014 - 15:38:14 CDT


have look here:

you can then use the amber topology and convert them to NAMD input using

hope it helps


On 15/10/2014 17:02, Anjela Manandhar wrote:
> I need to simulate a protein with GTP and GDP in it. I could not find
> the parameter files for GTP and GDP. Do I need to build one? If yes,
> how can I do that?
> Thanks
> Anjela Manandhar

Andrea Spitaleri PhD
Principal Investigator AIRC
D3 - Drug Discovery & Development
Istituto Italiano di Tecnologia
Via Morego, 30 16163 Genova
cell: +39 3485188790