Hi Claire, If it's only a few H-bonds, probably the quickest is the following:
Select the first atom with ctrl-shift left-mouse button Select the second atom with crtl-shift right-mouse button then issue the command 'distance <Return>' That should draw you a nice dashed bond. Hope it helps a bit, maybe Warren would have better ideas, but good luck! Cheers, Tsjerk Claire Sharpe wrote:
Hi there, Sorry I'm going to ask probably a very basic question but could anyone tell me how to create H-bonds in pymol? I used SPDB viewer to model the interface between two dimers in a tetrameric molecule. I now need to create some good pictures of this for my thesis as SPDB isn't really good enough. I'd like to represent H-bonds (not bond distances just bonds) e.g between ThrOG1 of subunit A and Asp184OD1 of subunit D. I'm presuming that pymol can do this-if so would really appreciate it if anyone could tell me how to enter in the command line as I'm afraid I'm not used to it and thesis deadline looms on thurs! Many thanks, Claire ******************************************************************************* Claire Sharpe Department of Biochemistry University of Cambridge 80, Tennis Court Road Cambridge. CB2 1GA U.K Tel: 01223 766045 Fax: 01223 766002 email: ce...@mole.bio.cam.ac.uk ------------------------------------------------------- This SF.Net email sponsored by: ApacheCon 2003, 16-19 November in Las Vegas. Learn firsthand the latest developments in Apache, PHP, Perl, XML, Java, MySQL, WebDAV, and more! http://www.apachecon.com/ _______________________________________________ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
-- ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -- :) -- :) Tsjerk A. Wassenaar, M.Sc. -- :) Molecular Dynamics Group -- :) Dept. of Biophysical Chemistry -- :) University of Groningen -- :) Nijenborgh 4 -- :) 9747 AG Groningen -- :) The Netherlands -- :) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -- :) -- :) Hi! I'm a .signature virus! -- :) Copy me into your ~/.signature to help me spread! -- :) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~