[Chimera-users] Carbon color of 1 chain

Elaine Meng meng at cgl.ucsf.edu
Thu May 16 09:28:56 PDT 2013


Note the following command will color all atoms except carbon by element.  The carbons will remain whatever color they were previously.
 
color byhet

There are usually several ways to do any given thing!
Elaine

On May 14, 2013, at 12:41 PM, Markus Heller <mheller at cdrd.ca> wrote:

> Conrad,
> 
> Just what I was looking for!
> 
> Thanks a lot!
> 
> Markus
> 
> -----Original Message-----
> From: Conrad Huang [mailto:conrad at cgl.ucsf.edu] 
> Sent: Tuesday, May 14, 2013 12:39 PM
> To: Markus Heller
> Cc: chimera-users at cgl.ucsf.edu; Tom Goddard
> Subject: Re: [Chimera-users] Carbon color of 1 chain
> 
> Uh.
> 
> "C" is an alias for all atoms -> "C" is an alias for all carbon atoms
> 
> oops.
> 
> Conrad
> 
> On 5/14/13 12:36 PM, Conrad Huang wrote:
>> If you pick your own colors, you can use something like:
>> 
>> color green C & :.D
>> 
>> to color all carbons in chain D.  "C" is an alias for all atoms (which 
>> you can actually see in the Select -> element menu :-).  "&" is the 
>> intersect operator.  ":.D" means all atoms in chain D.
>> 
>> Conrad
>> 
>> On 5/14/13 12:29 PM, Markus Heller wrote:
>>> Hi Tom,
>>> 
>>> This works, thanks.  Although it seems to be a bit of a roundabout 
>>> way of going about this ... :-/
>>> 
>>> Cheers
>>> 
>>> Markus
>>> 
>>> *From:*Tom Goddard [mailto:goddard at sonic.net]
>>> *Sent:* Tuesday, May 14, 2013 12:11 PM
>>> *To:* Markus Heller
>>> *Cc:* chimera-users at cgl.ucsf.edu
>>> *Subject:* Re: [Chimera-users] Carbon color of 1 chain
>>> 
>>> Hi Markus,
>>> 
>>>   How about Chimera commands
>>> 
>>> color byelement
>>> 
>>> ~color element.C
>>> 
>>> The first line colors the carbons gray, and the second says to unset 
>>> their color, which makes them default to the color set for each molecule.
>>> 
>>> Tom
>>> 
>>> On May 14, 2013, at 11:42 AM, Markus Heller <mheller at cdrd.ca 
>>> <mailto:mheller at cdrd.ca>> wrote:
>>> 
>>> 
>>> 
>>> Hello,
>>> 
>>> I don't seem to be able to figure out how to color a scene by 
>>> element, but with different carbon colors for different chains.
>>> 
>>> I can't figure out how to get an expression like
>>> 
>>> "color green, chain C C"
>>> 
>>> Or something like that ...
>>> 
>>> How to go about this?
>>> 
>>> Thanks and Cheers
>>> 
>>> Markus
>>> 
>>> --
>>> 
>>> *Markus Heller, Ph.D.*
>>> 
>>> NMR Scientist
>>> 
>>> CDRD - The Centre for Drug Research and Development
>>> 
>>> 2405 Wesbrook Mall, Fourth Floor | Vancouver, BC  V6T 1Z3 | Main: 
>>> (604)
>>> 827-1147
>>> 
>>> Direct: (604) 827-1122| F: (604) 827-1299 | E:mheller at cdrd.ca 
>>> <mailto:kessabar at cdrd.ca>|www.cdrd.ca <x-msg://116/www.cdrd.ca>
>>> 
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>> 
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