Dear all, I've just been baffled for a while with a pdb that showed a strange behavior upon changing the representation from cylindrical cartoon helices to normal cartoon helices. It seemed to me that helices were disappearing.
A picture of the effect is here: http://www.msf.bio.ic.ac.uk/images/helices.png The arrows show pairs of normal helices merged into single short cylindrical helices. At some point, I realized the problem was the definition of pairs of helices as one continuous secondary-structure element (encircled). Running dss on the file fixed everything. I'm left wondering whether PyMOL should realize it's being fooled by the secondary structure predictions in egregious cases like this. I looked hard at the structure with cylindrical helices and started to interpret differences to a homologous structure, which seemed to have additional helices, and in perpendicular orientations. Best regards. Andreas -- Andreas Förster Crystallization and Xray Facility Manager Centre for Structural Biology Imperial College London ------------------------------------------------------------------------------ Android is increasing in popularity, but the open development platform that developers love is also attractive to malware creators. Download this white paper to learn more about secure code signing practices that can help keep Android apps secure. http://pubads.g.doubleclick.net/gampad/clk?id=65839951&iu=/4140/ostg.clktrk _______________________________________________ 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
