Did you run the simulation using Amber? This is the Amber support mailing
list.
On Sat, Nov 23, 2024, 9:23 AM Kankana Bhattacharjee <
kankana.bhattacharjee_phd21.ashoka.edu.in> wrote:
>
> Dear Sir,
>
> Actually this CG MD simulation is performed using MARTINI. Can I use
> cpptraj ? Kindly advise,
>
> Thanks & Regards
> Kankana Bhattacharjee
>
> On Sat, Nov 23, 2024 at 7:47 PM Carlos Simmerling <
> carlos.simmerling.gmail.com> wrote:
>
>> Have you tried using cpptraj?
>> https://amberhub.chpc.utah.edu/autoimage/
>>
>> On Fri, Nov 22, 2024, 11:50 PM Kankana Bhattacharjee via AMBER <
>> amber.ambermd.org> wrote:
>>
>>> Dear AMBER users,
>>>
>>> I'm working on applying PBC correction to a trimeric protein complex
>>> from a
>>> CG MD simulation. It is found that, one monomeric unit of the complex is
>>> positioned in its periodic image. I would appreciate any suggestions on
>>> how
>>> to proceed.
>>> Thanks & Regards
>>> Kankana Bhattacharjee
>>> Ph.D. Scholar
>>> Department of Chemistry
>>> Ashoka University
>>> Sonipat, Haryana
>>> _______________________________________________
>>> AMBER mailing list
>>> AMBER.ambermd.org
>>> http://lists.ambermd.org/mailman/listinfo/amber
>>>
>>
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Received on Sat Nov 23 2024 - 06:30:02 PST
