[gmx-users] PBC

Morteza Khabiri khabiri at greentech.cz
Wed Jun 2 19:48:08 CEST 2010

Dear users

I have a dimer protein in the water box. It was run for 30ns.
during the simulation dimer split to two monomer. This things happen bc of
PBC. ( I checked it by vmd pbc option )
to have a two monomer together during trajectories (for visualization)
I have used the following command:

trjconv  -s .tpr -f .xtc -o   -boxcenter tric -pbc mol

but it is not working.
Is there any other method or command which I could implement pbc in

Thanks in advance


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