Hi Jan, I can't think of a "nice" way to do this. My only idea is to manually (with the mouse) rotate and translate the proteins and their axis en masse relative to the other items in the your scene, namely your other axis and whatever else you had. This would be very tedious, requiring many switches between rotation and translation and changing the view to see whether the two axes are sufficiently aligned for your purposes. This could be done by selecting the proteins and their axis, and then using the mouse mode to rotate/translate only selected models. See: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/ui.html#mousemode> <https://rbvi.ucsf.edu/chimerax/docs/user/tools/mousemodes.html> Maybe there is some better way to do this exactly in a single command by reporting transformation matrices, doing linear algebra, and then using the calculated relative transformation matrix to reorient the one set of models onto the other, but that is beyond my skill set. Our expert on that kind of thing is at a workshop right now so it is possible you could get a better answer in a day or two. Regards, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Oct 28, 2025, at 10:15 AM, Hübbers, Jan via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hey support, I have defined x, y, z symmetry axis for a protein complex by forcing axis through centroids of the different subunits. I also created x, y ,z axis that meet at the origin of my scene. Is it possible to align the protein axis to the scene axis? Best, Jan