[chimerax-users] Move model to specific coordinates of reference model

[Elaine Meng]

Hi Matthias,
Hmmmm...there are a few possibilities, and it also depends on how you want to define the centers of the map and the tomogram.  If you know or can figure out what their centers are, then you can subtract the coordinates of one center from the other and then do exact translations of one model or another along x, y, and/or z using the "move" command, 
<https://rbvi.ucsf.edu/chimerax/docs/user/commands/move.html>

- OR - set map grid origin to specific coordinates using the "volume" command "origin" option (or make a certain grid point have coordinates 0,0,0 with "originIndex" option)
<https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dimensions

Ways to define the center are as center of grid, or as center of mass.  You can get map/tomo center of mass from "measure center"
<https://rbvi.ucsf.edu/chimerax/docs/user/commands/measure.html#center>

You could figure out center of grid coordinates given the grid size (number of points in each dimension), origin, and voxel size, which can all be reported with the "volume settings" command:
<https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#settings>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Mar 18, 2021, at 11:47 AM, Vorländer,Matthias Kopano <matthias.vorlaender at imp.ac.at> wrote:
> 
> Hi there, 
> I am trying to place a model (volume) at specific coordinates of a second volume (the first model is a map and the second model is a tomogram). I have managed to place a sphere at the desired position, but I can’t figure out how do this with a volume file. 
>  
> Example for placing the sphere:
>  
> shape sphere radius 100 center 5243.80,3103.88,1086.01 coordinateSystem #1
>  
> How can I achieve the same but placing a volume at the desired location?
> Thanks a lot,
> Best,
> Matthias