Dear Rahman, I have no idea how you tried to do the slicing. If you fit the maps successfully, then they are already superimposed, right? Then you could just make a thin slice of everything together by dragging the global clipping planes in the Side View, and only show one map at a time or both together by using the “S” (Shown) checkboxes in the Model Panel. Both the Side View and Model Panel can be opened from the Favorites menu. Global clipping: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/clipping.html#global> Model panel: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/modelpanel.html> I hope this helps, 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 May 3, 2017, at 12:53 AM, MOHD HOMAIDUR RAHMAN <rahmanhpu@gmail.com> wrote:
Dear Chimera user's I am trying to super impose molecular dynamics calculated density on cryo EM density and then slice densities to visualize each in different colors.
I fitted density successfully now during slicing their X Y Z co-ordinate is not matching. The similar analysis were publish in Marzinek et al., 2016, Structure 24, 1–11 August 2, 2016 http://dx.doi.org/10.1016/j.str.2016.05.014
Please see figure 3 for more details and image attached here. Thank Regards Rahman