[gmx-users] During mdrun my protein moves towards edges

[Diogo Vila Viçosa]

You do not have a "problem" you only have the "normal" protein diffusion.

Take a look in trjconv tool.

http://manual.gromacs.org/programs/gmx-trjconv.html

Option -center will be your best friend I guess.

Diogo Vila-Viçosa



Em seg, 11 de mai de 2015 às 10:14, Seera Suryanarayana <palusoori at gmail.com>
escreveu:

> Dear gromacs users
>
> I have been running the real mdrun after equilibration. mdrun has been
> submitted for 500ns. After some time(150ns) the protein moves towards
> edges. I want the internal moments only, but whole protein moves all sides
> of box rather than at centre of the box. Kindly tell me how to overcome
> above mentioned problem and what could be the reason?
>
> Thanks in Advance
> Surya
> Graduate student
> India.
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