Hi Anna, On Sat, Aug 20, 2011 at 2:30 AM, Anna James <annajamesmat...@hotmail.com> wrote: > > Is there any program/code/software which can give me the secondary structure > region in a given PDB file ? > > like : > ./ executable pdb1.pdb > answer would be : > > alpha helical : 1- 8 residues > beta sheet : 17-29 residues > etc... so on > > > OR can this be done in Pymol ,I tried using dss but I guess it's purpose in > quiet entirely different > Please advise
There's a script for that--actually three, on the PyMOLWiki. You might have to do a little customization for your particular application. Please see, http://www.pymolwiki.org/index.php/Iterate_sses http://www.pymolwiki.org/index.php/Ss http://www.pymolwiki.org/index.php/WriteSS and choose the one that looks most promising. Cheers, -- Jason -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 ------------------------------------------------------------------------------ Get a FREE DOWNLOAD! and learn more about uberSVN rich system, user administration capabilities and model configuration. Take the hassle out of deploying and managing Subversion and the tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2 _______________________________________________ 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
