On Sep 16, 2009, at 3:05 PM, Peter Grey wrote:
I am trying to solve a big RNA/protein complex at 5A resolution. Phases come from MR solution with a partial model in Phaser. Thanks to NCS the map after density modification in RESOLVE is of reasonable quality for this resolution and new secondary structures, out side of the model, can be detected. I would like to improve the maps and model with something like a poor man's version of AutoBuild. An Autobuild for very low resolutions that does not include refinement but iteratively carries out density modification and identification of helices/ strands outside of the model with phenix.find_helices_strand. Does this sound feasible, Are there already scripts the follow such a scheme ?
Use a command like this: phenix.autobuild model.pdb data.mtz seq_file=seq.dat rebuild_in_place=False helices_strands_only=True refine=False (This is from the most recent documentation - but I think it's the same in 1.4-3.) I'm not sure whether helices_strands_only works for RNA too, although AutoBuild certainly does build RNA. ------------------- Nathaniel Echols Lawrence Berkeley Lab 510-486-5136 [email protected]