From: Josh Vermaas (
Date: Fri Nov 20 2015 - 07:54:16 CST

Hi James,

You'll want to use pbctools, a VMD plugin, to rewrap your trajectory.
See the docs:


On 11/20/2015 02:45 AM, James Lord wrote:
> Hi All,
> I made a movie in vmd using movie maker but the periodic boundary
> condition I have is making the movie horrible as my protein is getting
> out and in of the periodic box. Any comments on how to remove this and
> make it nicer ( I am looking for solutions in VMD not the MD softwares
> such as Gromacs etc.).
> Cheers,
> James