Hello, I have system with solute is surrounded by 256 solvent molecules. I run the simulation for 20 ns. I save the snap shot at 500 ps using following command.
trjconv -f 3.trr -s 3.tpr -n 500-1.ndx -b 500.0 -e 501.0 -dt 1.0 -pbc nojump -center -o 500-11.pdb I tried to keep the solute at the center box. In visualization, the solute is not at center , its close to box edges. How can I keep the solute at the center. I am using Gromacs 4.0.7 version. Thanks Nilesh -- gmx-users mailing list gmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
