Hi Alexander, by default PyMOL recognized secondary structure as the minimum consensus over all states. So if a residue is not recognized as helix or sheet in _all_ states, it will be assigned as loop. You might be happy with this:
# type after loading the file dss state=1 For detailed explanation what values are valid for the "state" argument see the PyMOLWiki page: http://pymolwiki.org/index.php/Dss Cheers, Thomas On 10/26/2011 11:04 AM, Alexander Schulz wrote: > Hi everyone, > > I'm quite new to Pymol and I hope that I don't ask something that has > been answered several times before, but I didn't find anything about > this topic that could solve my problem. > > I've prepared a .pdb file containing one protein at different times in > the simulation. I'd like to prepare a video from this file, which is why > I'd like to keep everything in one .pdb file. > > When I select "cartoon" as a representation, the backbone is visualized > as a tibe (as always), but no secondary strucutres are recognized. When > I copy one of the snaphots out of the .pdb and open in seperately, the > secondary structure is shown correctly. > > How can I make Pymol show the structure of the multible states in one > file correctly? > > Thanks in advance for answers! > > Cheers, > Alexander -- Thomas Holder MPI for Developmental Biology ------------------------------------------------------------------------------ The demand for IT networking professionals continues to grow, and the demand for specialized networking skills is growing even more rapidly. Take a complimentary Learning@Cisco Self-Assessment and learn about Cisco certifications, training, and career opportunities. http://p.sf.net/sfu/cisco-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
