[Chimera-users] Script for positioning particles according the coordinates.

Eric Pettersen pett at cgl.ucsf.edu
Mon Feb 7 10:47:41 PST 2011

Hi Alexander,
	If you just want spheres for your particles, if you reformat your  
file into "XYZ" format then Chimera can read that:



                         Eric Pettersen
                         UCSF Computer Graphics Lab

On Feb 7, 2011, at 10:26 AM, Tom Goddard wrote:

> Hi Alexander,
>   By "particle" do you mean an atomic molecular model (e.g. PDB  
> file)?  Do you already know the desired rotation and translation for  
> each particle?  Or do you want to calculate those fits?  What you  
> want is probably possible but I need more details to give specific  
> advice.  Chimera is not memory efficient with its molecular models,  
> so if your particles are proteins with several thousand atoms and  
> you want to load 300 of them, you will need a lot of memory (~2  
> Kbytes / atom).
>     Tom
>> Dear colleagues,
>> I would like to fit about 300 particles inside of the map according  
>> to it coordinates (X,Y,Z) what I have found before.  Is it possible  
>> to make this procedure automatically, such that program would load  
>> one particle, shift it according to its coordinates (change pixel  
>> size if necessary) and so on?
>> Thank you in advance,
>> Alexander
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