Hi Tsjerk, Many thanks for your help, once again ;0 It works and it gives what i want. cool !!
Stephane ________________________________________ De : Tsjerk Wassenaar [tsje...@gmail.com] Date d'envoi : vendredi 1 mars 2013 13:56 À : ABEL Stephane 175950 Cc: pymol-users@lists.sourceforge.net Objet : Re: [PyMOL] Pymol Scripts for Coarse grained for non-protein molecules Hi Stephane, You can convert a Gromacs run input file (.tpr) to a pdb file with CONECT records using the Gromacs tool 'editconf' with the '-conect' flag. The CONECT records will be set according to the bonds in the topology. Pymol will read the CONECT records and set the bonds. If you have a trajectory or a snapshot you want to visualize, you can load the convert run input file first, and load the other structure(s) in that object: load tpr.pdb, cg load traj.pdb, cg Hope it helps, Tsjerk On Thu, Feb 28, 2013 at 1:18 PM, ABEL Stephane 175950 <stephane.a...@cea.fr> wrote: > Hi all, > > I am looking for pymol scripts for showing coarse grained representation of > non-protein molecules. I am currently using the sphere representation for > each bead, but the bond between two beads are not shown, so it does not nice > figures. > > Can you help me or give some advices > > Thanks you in advance > > Stephane > ------------------------------------------------------------------------------ > Everyone hates slow websites. So do we. > Make your web apps faster with AppDynamics > Download AppDynamics Lite for free today: > http://p.sf.net/sfu/appdyn_d2d_feb > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net -- Tsjerk A. Wassenaar, Ph.D. post-doctoral researcher Biocomputing Group Department of Biological Sciences 2500 University Drive NW Calgary, AB T2N 1N4 Canada ------------------------------------------------------------------------------ Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_d2d_feb _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
