PyMOL doesn't know where the electrostatic potential map comes from. If you load up a map and a structure, it will show the potential from that map on that structure.
On 4/2/07, Gianluigi Caltabiano <[email protected]> wrote:
Yes....I have already done as wrote.... My question is....what if I up load ligand surface with receptor structure? Will it, as I think, shows me the potential of ligand on the receptor surface (giving me as sort of negative of ligand surface on receptor's)??? Thank for your answer, Gianluigi Caltabiano Lab of Computational Medicine, BioStatistic Dept. UAB, Universitat Autonoma de Barcelona Spain ----- Messaggio originale ----- Da: Mike Summers <[email protected]> A: Gianluigi Caltabiano <[email protected]> Inviato: Martedì 27 marzo 2007, 20:14:37 Oggetto: Re: [PyMOL] APBS surface You need to "create" individual proteins and then create maps for the individual protein; e.g, create A,(structure and residues_of_A_only) Mike On Tue, Mar 27, 2007 at 01:35:56PM +0000, Gianluigi Caltabiano wrote: > Hi everyone, > I am working with a protein-protein complex and I have calculated for each protein, let's say A and B, apbs electrostatic surfaces. > Everything works fine. > My question is: > I have uploaded the structure of protein A and the surface of protein B. > What it shows to me is a "blank" surface for most of the protein A but the part where protein B interact whit it. I think, but I would have confimations, that I am, in some way, "projecting" potential values of protein's surface B on the surface of protein A, like having a "negative" of the B interactions. It seems it works like this since I know both rotein's interacting residues and now I am facing interacting patch of residues from protein B on their counnter part on protein A. > Am I wrong? > > Thank for your answer, in advance, > > > > Gianluigi Caltabiano > Lab of Computational Medicine, > BioStatistic Dept. > UAB, Universitat Autonoma de Barcelona > Spain > > > > > > > > > ___________________________________ > L'email della prossima generazione? Puoi averla con la nuova Yahoo! Mail: > http://it.docs.yahoo.com/nowyoucan.html > ------------------------------------------------------------------------- > Take Surveys. Earn Cash. Influence the Future of IT > Join SourceForge.net's Techsay panel and you'll get the chance to share your > opinions on IT & business topics through brief surveys-and earn cash > http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > _______________________________________________ > PyMOL-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/pymol-users -- ********************************* Michael F. Summers Department of Chemistry and Biochemistry and Howard Hughes Medical Institute University of Maryland Baltimore County 1000 Hilltop Circle Baltimore, MD 21250 Phone: (410)-455-2527 FAX: (410)-455-1174 Email: [email protected] Web: www.hhmi.umbc.edu ________________________________ L'email della prossima generazione? Puoi averla con la nuova Yahoo! Mail ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ PyMOL-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/pymol-users
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