Re: [PyMOL] ball-and-sticks, controlling bond color

[Michael G. L. <ml...@um...>]

set stick_color, grey

the image looks a little more like

set stick_color, grey90

but I can't quite tell.

-michael

--
www.umich.edu/~mlerner |                        _  |Michael Lerner
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On Wed, 15 Feb 2006, Mat...@im... wrote:

> pym...@li... wrote on 02/15/2006 05:36:51 PM:
>
>> Hi all,
>>
>> There is a beautiful ball-and-stick image on pymol-wiki that I am
>> trying to replicate (http://www.pymolwiki.org/index.php/Ball_and_Stick).
>>
>> The wiki image has grey bonds and light blue balls for carbon, dark
>> blue for nitrogen, and red balls for oxygen.  My problem is that all
>> my bonds and balls are the same color, and I can't figure out how to
>> make the bonds a grey color, distinct from the atom ball colors.
>> And I'm trying to script this.
>>
>
>
>
> Hi Marilyn -
>
> You probably can't do it all with one object.  Create another object which
> is a duplicate of the one you're working with, then show spheres on object
> #1 and sticks on object #2.  You can then color the balls and the sticks
> separately, since each object gets its own set of colors.
>
> For example:
>
> PyMOL>create obj1, 1FLT and chain w
> Selector: found 797 atoms.
> Executive: object "obj1" created.
> PyMOL>create obj2, 1FLT and chain w
> Selector: found 797 atoms.
> Executive: object "obj2" created.
> PyMOL>color gray, obj2
> Executive: Colored 797 atoms and 1 object.
> PyMOL>color green, obj1
> Executive: Colored 797 atoms and 1 object.
> PyMOL>show spheres, obj1
> PyMOL>show sticks, obj2
> PyMOL>set stick_radius, 0.1
> Setting: stick_radius set to 0.10000.
> PyMOL>set sphere_scale, 0.25
> Setting: sphere_scale set to 0.25000.
>
>
> This gives a ball-and-stick of one chain where the balls are all green and
> the sticks are all gray.  Modify as needed....
>
> - Matt
>
>
> --
> Matthew Franklin                     phone:(917)606-4116
> Senior Scientist, ImClone Systems      fax:(212)645-2054
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