[chimerax-users] a question about CMM files

[Elaine Meng]

Hi Pranav,
ChimeraX uses whatever physical units of distance your data files have in them.  For most volume data (which would define the locations of the markers you put on that data) and essentially all atomic structures, this is Angstroms.
I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Jul 15, 2022, at 2:36 AM, Pranav Shah via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
> 
> Hi Team,
> How are XYZ coords represented in ChimeraX?
> I have a volume of 794x794x272 sampled @15Å/px. When I place markers
> in the volume and save the resultant marker file, the coords for the
> points are as follows-
> 
> <marker_set name="markers">
> <marker id="1" x="6950.3" y="6659.4" z="2010" r="1" g="1" b="0" radius="15"/>
> <marker id="2" x="6977.7" y="6381.5" z="2010" r="1" g="1" b="0" radius="15"/>
> <marker id="3" x="9747.8" y="3926.7" z="2010" r="1" g="1" b="0" radius="15"/>
> </marker_set>
> 
> Such large numbers seem to imply that the dimensions are measured in
> physical units (Å in this case). Is this correct?
> 
> Best,
> Pranav
> --
> Pranav Shah
> Postdoctoral Research Fellow.
> 
> Division of Structural Biology,
> Wellcome Trust Centre for Human Genetics,
> University of Oxford,
> Roosevelt Drive, Oxford OX3 7BN,
> UK
> 
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