Re: [PyMOL] How to draw clashes in pymol

[Gianluca S. <gia...@ib...>]

Why don't you to modify the show_bump.py file?
You could try playing with the line
cmd.show_as('cgo', name)
and change cgo to, for exemple, dots
and see what happens.

Cheers

On 8/29/14 4:30 PM, Bondurant wrote:
> Hello community,
> I would like to draw a figure similar to this one
> http://www.cell.com/cms/attachment/615980/4968633/gr1.jpg
> showing the clashes between a potential ligand and the protein. The only
> way i know how to do this in pymol is using the show_bumps plugin, but i
> don't really like the "red disks" format.
> Could anyone tell me how i could easily draw something similar to those
> red spikes from the example to represent the clashes in pymol or any
> other program? I'm able to do it using molprobity and kinemage, but
> there's no much possibilities for editing and to get it in printing quality.
> Thanks
>
>
> ------------------------------------------------------------------------------
> Slashdot TV.
> Video for Nerds.  Stuff that matters.
> http://tv.slashdot.org/
>
>
>
> _______________________________________________
> PyMOL-users mailing list (PyM...@li...)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pym...@li...
>


-- 
Gianluca Santoni,
Dynamop Group
Institut de Biologie Structurale
6 rue Jules Horowitz							
38027 Grenoble Cedex 1						
France	
_________________________________________________________
Please avoid sending me Word or PowerPoint attachments.
See http://www.gnu.org/philosophy/no-word-attachments.html