Hi, For a system with several component in the membrane, I think that InflateGRO 2 would be more appropriate. See http://code.google.com/p/inflategro2/ for the code and the related publication http://pubs.acs.org/doi/full/10.1021/ci3000453
Bests, Baptiste 2013/7/10 Atila Petrosian <atila.petros...@gmail.com> > Dear Justin > > Thanks for your quick reply. > > > I want to study a system containing DOPC and cholesterol and drug. > > I correctly prepared gro files and topology parameters for this system. > > I did previous step (Step Two: Modify the Topology) without problem. > > I have 2 problems. > > 1) After I use trjconv -s em.tpr -f dopc_chol.gro -o dppc_chol_whole.gro > -pbc mol -ur compact, > > When I see dppc_chol_whole.gro using vmd, almost 5 DOPC emerg lipid > structure. > > > 2) In your tutorial, system contains DPPC and KALP and you used: > > perl inflategro.pl system.gro 4 DPPC 14 system_inflated.gro 5 area.dat > > But in my case, system contains DOPC and cholesterol and drug. > > How to do these steps (Scale and shrink the lipid positions)? > > > Best wishes > -- > 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 > -- 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
