Hi Alex, To alter secondary structure properties of atoms use the alter command:
# make all atoms in the my_helix selection become alpha helices alter my_helix, ss='h' PyMOL will only draw, to the best of its ability, the helical representation. It will not adjust the atom coordinates for you. Cheers, -- Jason On Thu, Aug 9, 2012 at 3:58 PM, Alex Truong <atru...@bu.edu> wrote: > Hi All, > > I'm trying to manually model a linker region using computational information > (such as which residues are predicted to be in helical form, etc.). I have > the sequence in PyMOL as an unmodeled linear chain (or whatever the program > chose to do with bond angles when I manually generated the sequence). I'm > now trying to force specific lengths of residues to take the alpha-helical > form in that area. Is there any way to do so? And if I do, would PyMOL > automatically manipulate the atoms in space to have sensical placements as > to minimize clashes, or would it just forcibly twirl that section into a > helix? > > Thanks, > > Alex > > ------------------------------------------------------------------------------ > Live Security Virtual Conference > Exclusive live event will cover all the ways today's security and > threat landscape has changed and how IT managers can respond. Discussions > will include endpoint security, mobile security and the latest in malware > threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ > _______________________________________________ > 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 -- Jason Vertrees, PhD PyMOL Product Manager Schrödinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ 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
