Dear intekhab, a few suggestions: - are you sure of the space group or might there be alternatives? - is you protein globular or modular, i.e., is it worth running MR with stable subdomains one after the other? - try a poly-alanine model (e.g. chainsaw can do this for you, pdbset probably, too) - did you get overloads? If so, collect a low resolution pass to get correct intensities even at the poor resolution end. - what is your low resolution limit? Did you use the default or could you extend it? - did your crystal(s) suffer from radiation damage? It might be worth collection only a complete data set with not too high multiplicity.
Good luck, Tim On Fri, May 21, 2010 at 08:01:10PM +0900, intekhab alam wrote: > Hi all > I am trying to do molecular replacement with low resolution (4Å) using > Molrep and Phaser. > > Overall R-factor is 11.3%, completeness 95.4%, I/sigma 2, and Chi^2 0.95. > > Identities between my protein and templates were more than 80%. > > I couldn’t get correct solution. > > Rotation function, translation score, and contrast were low, and they had no > significance, though I changed the range of resolution. > > Molrep suggested solution coordinates clashed with symmetry molecules. > > I tried MR after remove clashed regions, but another clashes happened. > > In the case of phaser, there were many clashes, too. > > Please, give me any suggestion. > Should I concern about any options when I run MR programs? > > Hope you guys will be interested to answer!!!!!! > Thanks in advance > > > -- > INTEKHAB ALAM > LABORATORY OF STRUCTURAL BIOINFORMATICS > KOREA UNIVERSITY, SEOUL -- -- Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A
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