Hello Wojtek, a more straightforward approach is to use the rigid body refinement implemented in Situs. http://situs.biomachina.org/fguide.html
After placing your pdb into the map via the colores program, you can refine the positions of individual portions using collage, by splitting your pdb into separate pdb files for each rigid body. No need to do any conversion. All you need is the pdb and the EM map downloaded from the EMDB. All are very simple to run and the documentation is very good. Regards, Filip -- 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.vanpete...@gmail.com http://crg.ubc.ca/VanPetegem/ On Fri, Jul 13, 2012 at 8:28 AM, Wojtek Potrzebowski <wpotr...@genesilico.pl > wrote: > Dear all, > I want to refine a model of the complex that consists of rigid subunits > using an electron microscopy electron density map. > I've tried to use phenix for this purpose. Thus I have to back-FT the > electron density map to a mtz reflection file. > I've experienced problem using sfall for this purpose, but cinvfft has > done a job (I can read a resulting file with mtzdmp). > However phenix doesn't read this file properly (data labels box is empty). > Can anyone help me on this, please? > I am looking forward to hearing from you, > Wojtek >
