Michael, That's because sheet's aren't flat -- cartoons aren't reality.
set cartoon_flat_sheets, off set cartoon_smooth_loops, off In order to force the cartoons to follow the true CA trace. Cheers, Warren -- mailto:war...@delanoscientific.com Warren L. DeLano, Ph.D. Principal Scientist DeLano Scientific LLC Voice (650)-346-1154 Fax (650)-593-4020 > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Michael Bovee > Sent: Friday, November 07, 2003 8:50 AM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] aa residues disconnected from 'fancy helices'? > > > Hi all, > I'm just starting to try out PyMOL (fink package 0.90-2, running > through Apple's X11beta2, on a Lombard G3PB, MacOS 10.2.4). > Its much easier to learn that I thought it would be! Well > done Warren, > and codevelopers! One puzzling thing I've noticed: when I build a > model of my protein of interest using 'set > cartoon_fancy_helices,1' and > then show sidechains for several key catalytic residues, I find that > the amino acids that reside along beta sheet or alpha helix regions > appear properly connected to the alpha carbon backbone > representation, > but sidechains of amino acids that reside on 'strand' regions appear > to float in midair and do not connect to the strand backbone. Anyone > else seen this behaviour? > > Thanks! > --Michael Bovee > University of Vermont > > > > ------------------------------------------------------- > This SF.net email is sponsored by: SF.net Giveback Program. > Does SourceForge.net help you be more productive? Does it > help you create better code? SHARE THE LOVE, and help us help > YOU! Click Here: http://sourceforge.net/donate/ > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/p> ymol-users >
