OK...it's as I thought.
That is uploading the "wrong structure" it shows me the map from the "ligand" but on receptors VdW surface.
Thanks all,

Gianluigi Caltabiano
Lab of Computational Medicine,
BioStatistic Dept.
UAB, Universitat Autonoma de Barcelona
Spain
----- Messaggio originale -----
Da: Michael Lerner <mglerner@gmail.com>
A: Gianluigi Caltabiano <chimico01@yahoo.it>
Cc: pymol-users@lists.sourceforge.net
Inviato: Luned́ 2 aprile 2007, 15:40:24
Oggetto: Re: [PyMOL] APBS surface

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 <chimico01@yahoo.it> 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 <summers@hhmi.umbc.edu>
> A: Gianluigi Caltabiano <chimico01@yahoo.it>
> Inviato: Marted́ 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
> >
> >
> >
> >
> >
> >
> >
> >
> > ___________________________________
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> >
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> --
>
>
> *********************************
> 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
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>
>
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--
Biophysics Graduate Student
Carlson Lab, University of Michigan
http://www.umich.edu/~mlerner http://lernerclan.net



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