In such circumstances, one of the most common issues is that the space group is incorrect, which is often because twinning gives higher apparent symmetry. If (for example) the true space group is P3, there will be solutions in P321 that place the molecules correctly around the 3-fold axis (so they give a better than random score in the translation search), but the extra symmetry causes clashes. Have you looked at the results of twinning tests?
If that doesn't explain your problem, you could send me the log file from one of the Phaser runs (probably offline) and I could see if there are any hints of other explanations in the output. Best wishes, Randy Read On 27 Mar 2013, at 08:32, Rojan Shrestha <[email protected]> wrote: > Hello, > > I am trying phasing using homology models with Phaser. We obtained very high > TFZ scores with many clashes. The number of clashes are around more than 100. > The space group is P321. We tried two other space groups P3121 and P3221 but > both gave same problem. Can you help on this problem? > > Regards, > > Rojan ------ Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills Road E-mail: [email protected] Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
