[Chimera-users] Map Orientation for Symmetry Plug-in
goddard at cgl.ucsf.edu
Tue Feb 6 16:02:58 PST 2007
Ok, I made the "fit map in map" tool print out a point on the rotation
axis. The new code for use with Chimera 1.2318 is here:
The zip file contains a directory FitMap that you put in your Chimera
or on Mac
For more installation details see
This FitMap directory replaces your existing one.
After restarting Chimera you can fit a helically symmetric map in a
rotated copy of itself then get the axis point (shown in Favorites /
Reply Log) and adjust the map origin (volume dialog Features / Origin
and Scale) to put the axis point at (0,0,0). I described this in more
detail in my previous message:
The output of the axis point will be included in the next Chimera
snapshot due out in one to three weeks.
The matrix you sent me had no rotation, just a translation by 52 along
z. You will need to rotate the map copy before fitting to get a
meaningful rotation axis point. In fact I suspect the accuracy will be
increased for rotations near 180 degrees rather than small rotations
(e.g. 30 degrees).
Albion Baucom wrote:
> Thanks Tom.
> OK, here is my rotation matrix after following your instructions
> 0.99944468 -0.03326699 0.00190528 -0.09024247
> 0.03326443 0.99944566 0.00136109 0.10539160
> -0.00194951 -0.00129696 0.99999726 52.82194789
> Sorry, I forgot how to compute the rotation axis vector from this
> matrix ... its been awhile since I had to do that manually ... its
> pretty simple if I remember right.
> Any code to automate this would be greatly appreciated.
> Thanks again!
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