Siv, I'd recommend adding CONECT records to your PDB file to explicitly connect the atoms -- PyMOL will honor those, and you should see pretty much what you described. Note that PyMOL cannot draw a cartoon well without the amide backbone being present.
Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 USA . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 . mailto:war...@delsci.com > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Siv Midtun Hollup > Sent: Wednesday, March 01, 2006 5:08 AM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] models with reduced coordinate sets > > Hi, > > I have pdb files with c alpha coordinates and a centroid > coordinate set for each residue, and I'd like to make a > ball-and-stick model where all the c alpha atoms are > connected like a backbone, and the centroids are connected to > the appropriate c alpha atom. Can this be done in pymol, and > if so, how? :) > > For the moment I'm running pymol 0.98. > > Thanks in advance, > Siv > > > -- > Siv Hollup - s...@ii.uib.no (NOTE: new email adress) PhD > student Dept. of Informatics University of Bergen, Norway > - Blessed are the flexible, for they can be tied into knots. - > > > ------------------------------------------------------- > This SF.Net email is sponsored by xPML, a groundbreaking > scripting language > that extends applications into web and mobile media. Attend > the live webcast > and join the prime developer group breaking into this new > coding territory! > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=110944&bid=241720&; > dat=121642 > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > > > >
