Points placed in IMOD may not have proper scale and alignment when opened in Chimera together with the original MRC map. There are some IMOD settings that can fix this. Jeff wrote:
great,
I don't know if I replied earlier or not, but if the issue comes up with anyone else, setting the magnitude of the IMOD model (which a user would typically do in the IMOD tool 3dmod) to be equal in magnitude to the pixel size listed in the MRC header of the desired/corresponding volume map is enough to ensure the proper scaling; the default for units in 3dmod appears to be nm, while in MRC files it is generally Angstroms. Applying a translation equal to the origin offset that chimera uses in the MRC header is then sufficient to co-register the two.
-J