The author of InflateGRO, Christian Kandt, is now at Univ. of Bonn. All his work is here: http://www.csb.bit.uni-bonn.de/inflategro.html
On 2011-08-17 03:03:50PM -0500, Sara baretller wrote: > Thank you > > yes i removed the Remove unnecessary lines ... i found the inflategro.pl > <http://inflategro.pl/> > when i click on the rl inflategro.pl<http://inflategro.pl/> it gives me > Firefox can't find the server at inflategro.pl<http://inflategro.pl>. > > > > > > <http://inflategro.pl/> > On Wed, Aug 17, 2011 at 3:17 PM, Justin A. Lemkul > <jalem...@vt.edu<mailto:jalem...@vt.edu>> wrote: > > > Sara baretller wrote: > I am doing the protein in lipid tutorial . > http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/membrane_protein/02_topology.html > > Pack the lipids around the protein, i dont see where is the script perl > inflategro.pl<http://inflategro.pl> <http://inflategro.pl> > > > I googled It and did not find it. Can you please send me the script or tell > me where I can find it > > > > Then Google again :) If you search "Inflategro" it is the first result that > comes up. > > > Also I used the cat KALP_newbox.gro dppc128_whole.gro > system.gro > > so I checked the system.gro in vmd and did not load anything. I was able to > vew the KALP_newbox.gro and the dppc128_whole.gro but not the system.gro > > do I have to organize the system.gro because I can see that the protein in > numbered from 1 to … then the lipids start from 1 ….end .. will that cause a > problem > > > Numbering is irrelevant. You probably didn't clean up the file as instructed > in the tutorial: > > "Remove unnecessary lines (the box vectors from the KALP structure, the > header information from the DPPC structure) and update the second line of the > coordinate file (total number of atoms) accordingly." > > -Justin > > -- > ======================================== > > Justin A. Lemkul > Ph.D. Candidate > ICTAS Doctoral Scholar > MILES-IGERT Trainee > Department of Biochemistry > Virginia Tech > Blacksburg, VA > jalemkul[at]vt.edu<http://vt.edu> | (540) 231-9080<tel:%28540%29%20231-9080> > > http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin > > ======================================== > -- > gmx-users mailing list gmx-users@gromacs.org<mailto: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<mailto: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 -- ================================================================== Peter C. Lai | University of Alabama-Birmingham Programmer/Analyst | BEC 257 Genetics, Div. of Research | 1150 10th Avenue South p...@uab.edu | Birmingham AL 35294-4461 (205) 690-0808 | ================================================================== -- 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
