> My complex heterogenous system has DPPC+ Protein+ligand. I have packed > lipids around protein and ligand using Inflategro method, (APL: 0.79 nm2 > got > after 24th iteration) followed by adding solvent and neutralize the system > by adding CL35 & NA 39, since my system has -3.999 non zero total charge. > Then the minimized system has the energy -2.8989 with Max force= 9.58 > converged normally in step 464 step. > > I used lipid constraints in the file "DPOSRES_LIPID.itp" before NVT > > > There is no grompp error and no problem till NVT, after this > equillibration, > half of the DPPC along with SOL is no showing in VMD. Could any suggestions > on this behavior. > >
I think your particles are still there... Try to adjust VMD settings. Dr. Vitaly Chaban -- 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
