[gmx-users] 2 chain protein and VMD

Joaquim Rui de Castro Rodrigues joaquim.rodrigues at ipleiria.pt
Sat Aug 18 12:43:17 CEST 2012


You could do something like this:

set sel1 [atomselect top "residue 0 to 499"]
$sel1 set chain A
set sel2 [atomselect top "residue 500 to 999"]
$sel2 set chain B

Hope this helps,
Rui Rodrigues

De: gmx-users-bounces at gromacs.org [gmx-users-bounces at gromacs.org] Em Nome De Acoot Brett [acootbrett at yahoo.com]
Enviado: sábado, 18 de Agosto de 2012 9:35
Para: Discussion list for GROMACS users
Assunto: [gmx-users] 2 chain protein and VMD

  Dear All,

After the production MD for a 2-chain protein complex (chain A and chain B) was done, I used VMD to observe the trajectory. I want to color the 2 chains in different color.

However it seems during the observation of the trajectory by VMD, VMD treated both of the 2 chains as chain X, and thus the 2 chains cannot be colored differently.

Do you have any method or suggestion to color the 2 chains in different color by VMD in the trajectory observation process?


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