Re: [PyMOL] rainbow coloring from the N to C terminus of multiple backbones shown as ribbons

[Thomas H. <tho...@sc...>]

Hi Ali,

paste this into the PyMOL command line:

unset ribbon_color, (*)
set ribbon_color, default
for name in cmd.get_object_list(): \
  cmd.spectrum(selection=name + " and polymer")

This will do rainbow coloring on each object separately.

The "ribbon_color" setting will override atom colors, that's the reason
why selecting color/rainbow from the menu has no effect in your session.

Hope that helps.

Cheers,
  Thomas

Muhammad Naqvi wrote, On 02/04/13 18:38:
> Hi Folks,
> I have about 2000 pdb files loaded into one session, with their
> backbones shown as ribbons, that have been aligned by select residues
> ranging from 15-19 using the align_all command.
> 
> The problem I have is coloring, right now I have to manually color in
> rainbow into all of the residues by using the command:
> 
> set ribbon_color, "color name", resi __#__
> 
> but the transitions are not smooth.
> 
> In addition, selecting color/rainbow using the all entry does not do
> anything to the color. Changing the color manually for each entry,
> however, works well. I can manually select the color button on each of
> the pdb entries and select rainbow, but its not feasible to do for 2000
> entries. 
> 
> I was wondering if there is an automated way of coloring each ribbon end
> to end in the same rainbow. 
> 
> Best Regards,
> Ali

-- 
Thomas Holder
PyMOL Developer
Schrödinger Contractor