Dear all, 

I need to merge two maps in MATLAB using alignment data from chimera. Inputs:  two maps of the same box size, origin. I use matrixget -  to report translation and rotation matrices for the aligned map . Translation operation works well when transferred into MATLAB (briefly, translation matrix gets converted in eulers and pased on to tom_rotate command in MATLAB, TOM package). However the x y z translation coordinates (the fourth column top to bottom in matrixget - output) are way off the real translation when using tom_shift command in MATLAB, TOM.

I found out that if I open the rotated map and fit it again, it gives close to correct translation matrix.

What's going wrong here? Does anyone have a solution how to overlay 3D arrays in MATLAB using chimera-reported transformation matrices?

Many thanks,

Oleksiy 

Dr Oleksiy Kovtun
Research Fellow
Briggs group
MRC Laboratory of Molecular Biology
Francis Crick Avenue
Cambridge
CB2 0QH
UK

Tel: + 44 1223 267551
Email: okovtun@mrc-lmb.cam.ac.uk