VMD-L Mailing List

From: Joaquim Rui de Castro Rodrigues (joaquim.rodrigues_at_ipleiria.pt)
Date: Tue Dec 08 2015 - 14:17:13 CST

Hi,

You can translate the monomer by using atomselections. For example,
set sel [atomselect $molid "all"]
$sel moveby {100 0 0}
where $molid is the ID of your nth monomer. Then save the coordinates with $sel writepdb.

HTH,
Rui Rodrigues

________________________________________
De: owner-vmd-l_at_ks.uiuc.edu [owner-vmd-l_at_ks.uiuc.edu] Em Nome De Mariano Smoler [marianosmoler_at_gmail.com]
Enviado: terça-feira, 8 de Dezembro de 2015 19:08
Para: vmd-l_at_ks.uiuc.edu
Assunto: vmd-l: Defining space coordinates for multiple structures

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?

Thanks to all,

Mariano.