In addition to the comments below, i don't think simply selecting the ligand will do, you have to create it as a new object as noted below (not at Pymol WS now or I would verify). Once you select the ligand, go to Actions button and choose [create new object]. a new object will be created, probably called obj01. you should be able to show the surface for this object now.
hope this helps. best of luck! cheers, nick -----Original Message----- From: "Andrew Colasanti" <acolasa...@gmail.com> To: pymolbb <pymol-users@lists.sourceforge.net> Date: Thu, 2 Nov 2006 09:19:04 -0500 Subject: Re: [PyMOL] Ligand Surface Representation Did you create a new object for the ligand? Try creating 2 objects, one for ligand and one for protein w/o ligand. Andrew On 11/2/06, Simon Holton <simon.hol...@embl-hamburg.de> wrote: > Hi Folks, > > I'm trying to generate a surface for a ligand which is part of a > ligand-protein complex. I realise this is the other way around to > normal, but somehow when I select the ligand in pymol and then 'show > surface, ligand', absolutely nothing happens. No error, but no > surface. The same happens if I just open a pdb file describing the > ligand alone. Other representations work, but the problem is not PDB > specific. I'm using the macpymol X11 hybrid (0.98) > > Any suggestions? > > Cheers > > SImon > > ------------------------------------------------------------------------- > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > ------------------------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users ________________________________________ Nicholas Noinaj University of Kentucky College of Medicine Department of Molecular and Cellular Biochemistry The Center for Structural Biology Biomedical Biological Sciences Research Building, Rm 236 741 S. Limestone Lexington, Ky 40536 Lab: 859-323-8183 Cell: 859-893-4789 Home: 859-228-0978 noi...@uky.edu noinaj.com
