[chimera-dev] Accessing rotation matrix of molecule models

[Eric Pettersen]

The one thing I would add, and you may know this already, is that if you 
have atom1 and atom2 in Python and want the distance between them after 
transformation, you do:

atom1.xformCoord().dist(atom2.xformCoord())

--Eric

On Thursday, July 18, 2002, at 05:47 PM, Greg Couch wrote:

> On Thu, 18 Jul 2002, Thomas Goddard wrote:
>
>>   When you get atom coordinates with atom.coord() you get the original
>> xyz values from say a PDB file.  The m.openState.xform applied to those
>> coordinates gives you the displayed xyz Chimera coordinates of the atom
>> taking into account the rotation and translation.  So you should apply
>> the xform before comparing distances between atoms in different molecules.
>
> Use atom.xformCoord() to get the transformed coordinate.  Same thing,
> but the transformation is done in C++ instead of Python.
>
> 	Greg
>
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