On Tuesday 10,January,2012 09:43 PM, James Starlight wrote: > Deal all! > > I'm intresting about representation of the polarr contacts between > ligand and protein > > 1) Usually I'm ussing Present-> Ligand sites option for that purposes > but in my current case I'm working with GFP where tree residues form > chromofore group of that protein. > > So I want to assign that three residues as the ligand and finally find > polar contacts between that chromophore and surrounding polar residues. > How I could do this assignment? > > 2) Also I'm looking in possible way to represent Names of residues wich > forrm my ligand binding pocket. Always I represent names of residues via > Label option. But if I choose Label -> res.names all names will be > represented but i want to represent only the names of residues wich form > polar contact with ligand. > > James
Sorry a bit off-list-topic. the Ligplot+ can do this pretty well. http://www.ebi.ac.uk/thornton-srv/software/LigPlus/ ------------------------------------------------------------------------------ Write once. Port to many. Get the SDK and tools to simplify cross-platform app development. Create new or port existing apps to sell to consumers worldwide. Explore the Intel AppUpSM program developer opportunity. appdeveloper.intel.com/join http://p.sf.net/sfu/intel-appdev _______________________________________________ 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
