Hi, If the linear arrangement is defined as 'biological assembly' in the PDB file, you can use "Biological Unit" script in http://www.pymolwiki.org/index.php/BiologicalUnit to quickly generate it.
Best regards, Takanori Nakane On 2014-08-27 11:57, Spencer Bliven wrote: > Sometimes it is easier to see the overall structure when looking at a > single unit cell rather than the symmetry mates within a certain > distance. You might want to try the supercell [3] script. Otherwise I > tend to generate symmetry mates multiple times and then hide or delete > the ones that don't match the expected biological assembly. > > -Spencer > > On Fri, Aug 15, 2014 at 9:26 AM, sunyeping <sunyep...@aliyun.com> > wrote: > >> Dear pymol users, >> >> I want to operate a structure whose crystal structure has one >> molecule in one asymmetry unit. I try to display its polymer. I >> loaded the structure and used "generate" command in the pymol GUI >> interface: A>generate>symmetry mates>4A, and then many copies of >> this molecure appeared but in a quite disoder pattern. According to >> the paper that published this structure, it is a polymer arranged in >> a linear pattern. Could you tell me how can I display this linear >> polymer? Thanks in advance. >> >> Yeping Sun >> >> Institute of Microbiology, Chinese Academy of Sciences >> >> > ------------------------------------------------------------------------------ >> >> _______________________________________________ >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> [1] >> Archives: >> http://www.mail-archive.com/pymol-users@lists.sourceforge.net [2] > > > > Links: > ------ > [1] https://lists.sourceforge.net/lists/listinfo/pymol-users > [2] http://www.mail-archive.com/pymol-users@lists.sourceforge.net > [3] http://www.pymolwiki.org/index.php/Supercell > > ------------------------------------------------------------------------------ > Slashdot TV. > Video for Nerds. Stuff that matters. > http://tv.slashdot.org/ > > _______________________________________________ > 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 ------------------------------------------------------------------------------ Slashdot TV. Video for Nerds. Stuff that matters. http://tv.slashdot.org/ _______________________________________________ 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
