Hi Floris,
I'm not entirely sure whether these are object/selection or global
properties. But have you tried specifying the selection?
set spec_reflect, 0, protein
Haven't tried it myself, though.
Cheers,
Tsjerk
On Jan 9, 2015 4:07 PM, "Floris van Eerden" <f.j.van.eer...@rug.nl> wrote:
> Dear all,
>
> My question is if I can set for different molecules in my system, how much
> they reflect light during ray-tracing
>
> My current system is a protein which contains some cofactors.
> The cofactors are coloured according to their B value and the protein is
> shown as a transparant grey surface.
> When I start Ray-tracing, I get a quite nice picture. The problem is
> however that the transparant surface is reflecting the light, and becomes
> therefore at some places not transparant, which makes it kinda difficult to
> see the cofactors in the protein (which are the most important). I played
> around with all the spec_reflect, spec_direct settings. When I set
> spec_reflect to 0, there are no reflections anymore, but the image becomes
> rather dull.
> I was wondering if it is possible to select somehow to make only the
> cofactors inside the protein reflect the light, but not the protein
> surface. In VMD you can do this for example by making molecules from
> different ‘materials’, e.g. you can make your cofactors from a reflective
> material, and your protein surface from a non reflective, transparant
> material. Is something similar possible in Pymol???
>
> Thanks for your suggestions,
>
> Floris
>
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