Dear chimera users, I have a problem with saving a cryoEM map after rotating/translating it. I've used the 'fit in map' option to superpose 2 maps (in ccp4 format) This seems to work fine, but when I save the reoriented map (in any of the available formats), and try to open it, it is back to the original position. Is there any way to save the reoriented map file? Best regards, Filip Van Petegem -- Filip Van Petegem, PhD Associate Professor The University of British Columbia Dept. of Biochemistry and Molecular Biology 2350 Health Sciences Mall - Rm 2.356 Vancouver, V6T 1Z3 phone: +1 604 827 4267 email: filip.vanpetegem@gmail.com http://crg.ubc.ca/VanPetegem/
Hi Filip, Ah yes, a commonly asked question. The problem is that map formats do not accomodate rotation information. Please see here for solutions for "saving maps after fitting": <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#afterfitting> Best, 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 Sep 13, 2012, at 12:24 PM, Filip Van Petegem wrote:
Dear chimera users,
I have a problem with saving a cryoEM map after rotating/translating it. I've used the 'fit in map' option to superpose 2 maps (in ccp4 format) This seems to work fine, but when I save the reoriented map (in any of the available formats), and try to open it, it is back to the original position.
Is there any way to save the reoriented map file?
Best regards,
Filip Van Petegem
Hi Filip, Another way to do it, if you are somewhat comfortable with python, is to use sparx, as described on this page: http://sparx-em.org/sparxwiki/align_chimera This will give you the Euler angles which describe the rotations, and can be converted to most of the common angle conventions (spider, EMAN, imagic, ...). Bill Filip Van Petegem wrote:
Dear chimera users,
I have a problem with saving a cryoEM map after rotating/translating it. I've used the 'fit in map' option to superpose 2 maps (in ccp4 format) This seems to work fine, but when I save the reoriented map (in any of the available formats), and try to open it, it is back to the original position.
Is there any way to save the reoriented map file?
Best regards,
Filip Van Petegem
-- William J. Rice, Ph.D. Senior Scientist New York Structural Biology Center 89 Convent Avenue, NY, NY 10027
participants (3)
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Elaine Meng -
Filip Van Petegem -
William Rice