Hi Erika, The basic problem is that the map file formats don't allow for rotation/translation information. If you fit a map to an atomic structure, it is better to save the PDB file relative to the map rather than vice versa. For example, use "File... Save PDB" in the menu and make sure to choose the option to "save relative to" the map model. For saving a map fitted to another map, you could just save the Chimera session, which will preserve the orientations of the different models. However, if you want to save a map file to use in other programs, it is necessary to resample the map that you fit on the grid of the map you fit into. Resampling interpolates data values so you may lose a little resolution. You can create a resampled map with the "vop resample" command and then save that new map with the Volume Viewer dialog or "volume" command. <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/ vop.html#resample> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Feb 26, 2010, at 4:46 AM, Erika Mancini wrote:

Dear Chimera users, is it possible, after moving maps around, to save them into their new positions? I tried save map from volume viewer, but maps are saved in their original positions. Thanks! erika