Hi Stephane,
You can convert a Gromacs run input file (.tpr) to a pdb file with
CONECT records using the Gromacs tool 'editconf' with the '-conect'
flag. The CONECT records will be set according to the bonds in the
topology. Pymol will read the CONECT records and set the bonds. If you
have a trajectory or a snapshot you want to visualize, you can load
the convert run input file first, and load the other structure(s) in
that object:
load tpr.pdb, cg
load traj.pdb, cg
Hope it helps,
Tsjerk
On Thu, Feb 28, 2013 at 1:18 PM, ABEL Stephane 175950
stephane.a...@cea.fr wrote:
Hi all,
I am looking for pymol scripts for showing coarse grained representation of
non-protein molecules. I am currently using the sphere representation for
each bead, but the bond between two beads are not shown, so it does not nice
figures.
Can you help me or give some advices
Thanks you in advance
Stephane
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