VMD-L Mailing List

From: Ashar Malik (asharjm_at_gmail.com)
Date: Wed Mar 21 2018 - 02:55:20 CDT

Have a look at "avpos" using measure here:
https://www-s.ks.uiuc.edu/Research/vmd/vmd-1.9.1/ug/node136.html

However, are you sure that is what you are looking for? An average
structure probably will not be a real structure and will probably have
unrealistic bond lengths (i think). Perhaps you want to measure a structure
that is most frequently visited in your trajectory?

On Wed, Mar 21, 2018 at 7:37 PM, Williams Miranda <
williams.miranda_at_ucalgary.ca> wrote:

> Hello
>
> How could I calculate the average structure for a protein from the *dcd
> trajectory using vmd?
>
> Thanks
>
> Williams
> 

-- 
Best,
/A