[Chimera-users] Disulfide bonds

Moritz Bitzhenner bitzhenner at googlemail.com
Thu Dec 6 06:06:03 PST 2012


Hi Elaine

Thank you very much. So I have exactly what I wanted, thanks to you.

Greetings Moritz

Am 05.12.2012 18:05, schrieb Elaine Meng:
> On Dec 5, 2012, at 1:20 AM, Moritz Bitzhenner wrote:
>
>> Hi Elaine,
>> You are a lifesaver. Thank you very much, it all worked perfectly. Now I have a nice colourful ribbon structure protein with disulfide bonds. The middle of the bond is coloured in yellow, the rest of the sidechain is coloured in light grey. Can I change the colour of the grey sidechain without changing the colour of the AA in the ribbon structure? But it´s not that important.
>>
>> I also created a movie of the rotating protein. (Command line: roll). Can I decrease the speed of the rotation?
>>
>> With best regards from Germany and many thanks for your help.
>> Moritz
> Hi Moritz,
> Greetings to you in Germany!
>
> You can specify that coloring should apply only to atoms/bonds (not ribbons, surfaces, etc.) using the Color Actions dialog.  Menu: Actions... Color... all options, and then in that dialog see the "Coloring applies to" section.
>
> The same thing can be done in the command line, for example:
>
> color goldenrod,a :cys
>
> ...means to make atoms-only of Cys residues the color named goldenrod.
>
> Each command has a manual page, which you can see with the "help" command (e.g. commands "help roll" "help color") so I recommend looking at those for more details such as how to control the speed of roll.  See also the general information on making movies:
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/movies.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> P.S. best to send to chimera-users at cgl.ucsf.edu so that others can benefit
>
>



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