VMD-L Mailing List

From: andrea (andrea.spitaleri_at_iit.it)
Date: Wed Oct 15 2014 - 15:38:14 CDT

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Hi,

have look here:

http://www.pharmacy.manchester.ac.uk/bryce/amber/

you can then use the amber topology and convert them to NAMD input using
acpype.py:

https://code.google.com/p/acpype/wiki/TutorialNAMD

hope it helps

and

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
http://www.iit.it/en/d3-people/andrea-spitaleri.html
ORCID: http://orcid.org/0000-0003-3012-3557

• Next message: Tristan Croll: "RE: GTP and GDP parameter files"
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• In reply to: Anjela Manandhar: "GTP and GDP parameter files"
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