VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Tue Dec 08 2015 - 13:45:12 CST

On Tue, Dec 8, 2015 at 2:08 PM, Mariano Smoler <marianosmoler_at_gmail.com> wrote:
> Hi, I´m back on VMD, hoping VMD can make what I need to do.
>
> I need to work with multiple monomers (I have already got this file) to
> emulate, as much closer as it is possible, the polymer.
>
> So, I loaded the four repetitions of my monomer but I can´t make them to be
> at a defined distance from each other.
>
> Is it possible to do this with VMD? Can I build a static 3D polymer just
> from the monomer file, with fixed distaces?

how about using the replicatemols command of the topotools plugin?

https://sites.google.com/site/akohlmey/software/topotools/topotools---documentation#TOC-replicatemol-mol-nx-ny-nz-

if you leave out the terminating atoms, you could also define bonds
between them to make a real polymer...

axel.

>
> Thanks to all,
>
> Mariano. 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.