Thanks Jerome!

It worked! I also checked out your website and your tutorial in French. They're both great!


From: Jerome PANSANEL <>
Subject: Re: [PyMOL] Selecting residues on surface only
Date: Wed, 11 Jan 2006 17:26:55 +0100


Le Mercredi 11 Janvier 2006 17:27, Charlotte Habegger-Polomat a =E9crit=A0:
Hello Pymol users!

As a fairly unexperienced user of Pymol, I have not yet found a way to
select all residues in one of the cavities in my protein of interest.
When I render the protein as a surface, I can't select and visualize the
individual residues in the cleft.

You can use the clipping planes when you want to explore the core of your=20
protein (shift+right-button, move mouse up/down).
Another way is to select your ligand inside your cavity, then select around
(menu A -> around -> 6 A for your ligand selection) and then select S->=20

When not rendered as a surface, I=20
can't seem to select only residues on the surface and not those buried

Is there a straightforward way to do this (select and visualize the
residues on the (outside) surface of a cavity, with their labels)?

I publish today a pre-release of a PyMOL tutorial in french :

You can take a look !

Jerome Pansanel