[Chimera-users] Grouping of bonds/atoms

Elaine Meng meng at cgl.ucsf.edu
Wed Dec 23 09:21:30 PST 2009

Hi Thomas,
There isn't a keyboard shortcut except selection undo (left arrow,  
only remembers one previous state), but if I understand you correctly  
there are some possibilities for making your life easier:

(a) you can name a selection with "Select... Name Selection" (or  
command namesel) and then later simply use that name in commands or re- 
select it with "Select... Named Selections... [name]"

(b) if it is something that can be described with a command-line atom  
specification string, you can avoid selecting altogether and just  
alias the specification.  The alias can then be used in subsequent  

For example:

alias inhibitor :/isHet & ~ solvent
show inhibitor
alias sheetset :25-38,127-136,145-170,196-212
ribbon sheetset
alias sheeta sheetset & :.a
color dodger blue sheeta

Thanks for the holiday wishes -- Merry Christmas to you too!

Elaine C. Meng, Ph.D.
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Dec 23, 2009, at 1:16 AM, Dipl.-Ing. Thomas Mitterfellner wrote:

> Hello!
> I'd like to group a certain set of bonds (or atoms), so that I can  
> select them quickly without having to select each item manually  
> every time I decide to change a property like size, style or color.  
> I know that selecting a pseudobond and pressing the UP key selects  
> all pseudobonds. Is it possible to do that for a user-defined subset  
> of bonds too?
> Thank you,
> Thomas
> P.S.: Merry Christmas to the Chimera team!

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