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From: Yuxing L. <Yux...@UT...> - 2015-02-12 21:30:09
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Hi all, I was trying to show low resolution surface representation for very large structures following the example at http://www.pymolwiki.org/index.php/Huge_surfaces. I was able to do it for the PDB 1AON using PyMOL>fetch 1aon, type=cif PyMOL>set gaussian_resolution, 10 PyMOL>map_new map, gaussian, 10, 1aon, 10 ObjectMap: Map created. ObjectMap: Computing Gaussian map for 58870 atom positions. ObjectMap: Normalizing: mean = 1.537536 & stdev = 2.457675. Executive: object "map" created. PyMOL>isosurface surf, map, 1.0 Executive: object "surf" created. Isosurface: created "surf", setting level to 1.000 ObjectSurface: updating "surf". But for some recent huge structures that are only available in mmCIF format, like 3J3Y, the isosurface command produces nothing. PyMOL>fetch 3j3y, type=cif PyMOL>set gaussian_resolution, 10 PyMOL>map_new map, gaussian, 10, 3j3y, 10 ObjectMap: Map created. ObjectMap: Computing Gaussian map for 2116800 atom positions. Executive: object "map" created. PyMOL>isosurface surf, map, 1 Any ideas? It is run in Pymol 1.7.4.0 on a computer with Windows 7 and 4GB memory. Thanks. Yuxing Liao ________________________________ UT Southwestern Medical Center The future of medicine, today. |