[Chimera-users] euler angle

Tom Goddard goddard at sonic.net
Fri Apr 19 17:00:13 PDT 2013

Hi Jim,

   Chimera does not output Euler angles.  The "measure rotation" command 
(e.g. me rot #0 #1) will report to the Reply Log the relative position 
of two models as a 3 by 4 matrix (3 by 3 rotation plus a translation 
vector), and also reports as a rotation about an axis through a 
specified point and shift along that axis.  Euler angles only would 
handle the rotation, not the relative translation between two maps.  We 
don't use them because there is more than one convention defining Euler 
angles and we haven't seen much need.  What software do you want to use 
that takes them as input?


-------- Original Message --------
Subject: Re: [Chimera-users] euler angle
From: Jingchuan Sun
To: chimera Mailing List
Date: 4/19/13 2:16 PM
> Hi Elaine,
> Could I obtain euler angles after I rotate a single map to some 
> special orientation or save it as a MRC file (not in the situation of 
> fitting one map to another)?
> Thanks!
> Jim
> On Fri, Apr 19, 2013 at 4:14 PM, Elaine Meng wrote:
>     Hi Jim,
>     Simply saving a map to a file after fitting will not save its new
>     orientation, because the map file formats  do not include
>     rotation/translation information. However, you can create a new
>     map on the grid of another map by resampling.  For details, please
>     see this section on "saving after fitting":
>     <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#afterfitting>
>     There is a "Transform Coordinates" tool (in menu under Tools...
>     Movement) with which you can apply Euler angles if you already
>     knew them, but the information above is probably more relevant to
>     your situation.
>     I hope this helps,
>     Elaine
>     -----
>     Elaine C. Meng, Ph.D.
>     UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
>     Department of Pharmaceutical Chemistry
>     University of California, San Francisco
>     On Apr 19, 2013, at 12:21 PM, Jingchuan Sun wrote:
>     >
>     > Hi,
>     > After I rotate a volume to a specific orientation, and "save map
>     as" in "volume viewer", the saved volume are still in the original
>     orientation. Could I save it in the new orientation.
>     >
>     > If I could display the current euler angles, I can rotate it in
>     other software. But how could I display euler angle after rotation?
>     > Thanks!
>     > Jim
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> Chimera-users at cgl.ucsf.edu
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