Hi, If you get the 0.8-pre prerelease version of coot, there's a fantastic new feature that makes this much easier. Instead of File->Save Symmetry Coordinates, you just center on the symmetry copy that you want to use as the master copy and select Extensions->Modelling->Symm Shift Reference Chain Here, and then it just moves the original copy of that chain to the new symmetry position. Once you've adjusted all the chains to what you want, you just save the model. No more need for emacs or grep or even vi!
Regards, Randy Read On 21 Nov 2013, at 18:24, Phil Jeffrey <pjeff...@princeton.edu> wrote: > * Open molecular replacement solution in Coot > * Display crystal packing (Draw>Cell & Symmetry), perhaps as Calphas only > * Find the symmetry-related instance of copyB that is in the correct position > relative to copyA according to your preferences > * Use File>Save Symmetry Coordinates to write the structure transposed by > that operator (note: select the menu option, then click on the copyB instance) > * Since Coot will write the entire structure transposed by that symop, > assemble the desired solution from copyA from the mol.rep. solution and copyB > from the transposed solution. I'm a Luddite so I use emacs and/or grep for > this. > > Phil Jeffrey > Princeton > > > 11/21/13 1:11 PM, Appu kumar wrote: >> Dear All, >> I think i have not explained my problem precisely. This >> may be weird one but let me elaborate more. I have have a protein >> moleculeA, having N-term, and C-term end. Structurally, it is dimer >> with anti-parallel arrangement i.e N-terminal of one copyA of molecule >> form dimer in such a way that it copyB would be arranged in >> antiparallel fashioned (N-term of copyA is besides C-term of CopyB). >> So when i am searching for two copy of molecule in phaser it is giving >> me two copy of molecule in parallel arrangement. So my question is, >> how to tell phaser that after fixing the orientation of first copy, to >> change the orientation of 2nd copy with respect to first one so that >> their n-teminal and c-terminal lies beside each other. I am looking >> for your valuable suggestion. >> Thank you >> ------ 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: rj...@cam.ac.uk Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
