[gmx-users] analysing helix dynamics

Mark Abraham Mark.Abraham at anu.edu.au
Fri Nov 18 15:20:55 CET 2011

On 18/11/2011 1:54 PM, jayant james wrote:
> Hi all,
> During MD simulations of a protein,I find that there are two helices
> switch periodically from being parallel and perpendicular to each
> other.  I'd like to plot out the orientation of these two helices with
> respect to each other, is there a command to extract this information?

Check out the options in 7.4 of the manual and see where they lead you.


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