Fred, You might try "super" instead of align (same syntax).
Failing that, you can use "pair_fit" with explicit selections -- just make sure the number of atoms is the same in each of the selections. Cheers, Warren > -----Original Message----- > From: Kerff Frédéric [mailto:fke...@ulg.ac.be] > Sent: Wednesday, October 21, 2009 5:51 AM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] Secondary Structure Matching > > Hello, > > Is there a way to perform secondary structure matching with > Pymol. I already tried the align function with different > selections without any success but the 2 proteins obviously > share the same fold with low sequence identity. > I know it can be done in other software like Coot but I'd > like to avoid having to switch from one program to another > all the time. > Thank you. > > Fred > > > -- > Frédéric Kerff > Chargé de recherche F.R.S.-FNRS > Cristallographie des protéines > Centre d'Ingénierie des Protéines > Université de Liège - Bat B5a > B4000 Liège (Sart-Tilman) > Tel.: +32 (0)4 3663620 > Fax: +32 (0)4 3663772 > > > -------------------------------------------------------------- > ---------------- > Come build with us! The BlackBerry(R) Developer Conference in SF, CA > is the only developer event you need to attend this year. > Jumpstart your > developing skills, take BlackBerry mobile applications to > market and stay > ahead of the curve. Join us from November 9 - 12, 2009. Register now! > http://p.sf.net/sfu/devconference > _______________________________________________ > 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 > ------------------------------------------------------------------------------ Come build with us! The BlackBerry(R) Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart your developing skills, take BlackBerry mobile applications to market and stay ahead of the curve. Join us from November 9 - 12, 2009. Register now! http://p.sf.net/sfu/devconference _______________________________________________ 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
