Hi Partha, load your structure and map into PyMOL like this:
PyMOL> load your.pdb PyMOL> load your_2fofc.map, format=ccp4 or: PyMOL> load your_2fofc.ccp4 Hope that helps. Cheers, Thomas Munshi, Parthapratim wrote, On 06/13/13 21:20: > Hi > > I am having some issues with the isomesh plot in PyMol. The map at same > sigma level in Coot and PyMol varies by a certain factor. From google > search, I notice that I am not the only one had such problem and > following was the relevant post some years ago. Now, how do I mimic coot > in case I want to load my own pdb and maps but not fetch? I did try the > following steps with my pdb and maps but while loading it doesn't like > type=2fofc and async keywords. > > Any help on this would be highly appreciating. > > Thanks > Partha > > In PyMOL: > >>> # mimic Coot >>> set orthoscopic >>> set line_width, 5 >>> # get the data >>> fetch 1cll, async=0 >>> fetch 1cll, type=2fofc, async=0 >>> # create the map; carve 2.5 Ang from the polymer >>> isomesh 1cll_map,1cll_2fofc, 1.06, poly, carve=2.5 >>> # find example residue >>> orient i. 78 >>> # color >>> color magenta, e. N >>> color tv_yellow, e. C > >>> In Coot: >>> * Fetch 1CLL and its map from EDS >>> * zoom to residue 78 >>> * scroll to 1.06 sigma -- Thomas Holder PyMOL Developer Schrödinger Contractor ------------------------------------------------------------------------------ This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
