[gmx-users] How to visualizing gro file in pymol

anu chandra anu80125 at gmail.com
Wed Feb 3 11:33:06 CET 2016

Hello all,

I just finished a short simulation of a membrane protein system and trying
to visualize the final gro file generated from the simulation using Pymol.
Unfortunately, the Pymol failed to visualize the protein in cartoon
representation. Though VMD can do the job, I just wonder is there a way I
can visualize the gro file in Pymol. A quick surfing on web suggested to
use the editconf to convert the .tpr file to .pdb file for visualizing with
Pymol. Unfortunately, here the .tpr file have structural information from
the beginning of the simulation rather than at the end of the simulation.

Any suggestion would be very much appreciated.

Many thanks

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