Re: [PyMOL] Ray-tracing inner surface backside

[Robert I. <imm...@gm...>]

Paul,

I'm actually quite interested in an answer to this question as well.=20
An example of what I have been able to do is this:

http://kinemage.biochem.duke.edu/~immormino/neca_new.png

I like using this type of rendering to look at a protein cavity from
inside the protein.  For me it has been helpful in presenting the VDWs
interaction of ligands in the pocket.

To render this picture:

set surface_color, slate
set ray_interior_color, grey
set transparency, .3
set transparency_mode, 0
ray

The one thing that kinda bothers me with this approach is that
transparency_mode=3D0 is called fast and ugly in the GUI.  But this is
the only way that i have found to get this effect. Other ( better )
suggestions would be appreciated.

-bob





On 4/4/06, Paul Wilhelm Elsinghorst <pa...@un...> wrote:
>  Hi folks,
>
>
>  what I did for now is that I selected a subset of residues that sit arou=
nd
> a cavity. Then I showed the surface of the original protein inside the
> selection to get only the inside surface of the cavity. Now it looks sort=
 of
> like a hose with inside and outside just as I wanted.
>
>
>  Now I'd like to raytrace this and I find no texture on the outside surfa=
ce,
> which is actually just the back of the inside. I put a picture on
> http://pwe.no-ip.org/other/Pymol.png to illustrate my
> problem. See how the inner surface has texture and its back doesn't!
>
>
>  How can I get this fixed? Any ideas?
>
>
>  Paul