Re: [PyMOL] Ball and stick model
http://pymolwiki.org/index.php/Ball_and_Stick ? You used the handmade method on that page. Generally, I like using the preset better. On Sun, Feb 1, 2015 at 11:42 PM, Seera Suryanarayana paluso...@gmail.com wrote: Dear Pymol Users I would like to represent the protein what I have in ball and stick model. I have done it by executing the command lines as following hide all show spheres show sticks set sphere_scale, 0.3 set stick_radius, 0.1 My question is can I do it by any other method? Means from pymol interface..!! Surya Graduate student India. -- Dive into the World of Parallel Programming. The Go Parallel Website, sponsored by Intel and developed in partnership with Slashdot Media, is your hub for all things parallel software development, from weekly thought leadership blogs to news, videos, case studies, tutorials and more. Take a look and join the conversation now. http://goparallel.sourceforge.net/ ___ 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 -- Dive into the World of Parallel Programming. The Go Parallel Website, sponsored by Intel and developed in partnership with Slashdot Media, is your hub for all things parallel software development, from weekly thought leadership blogs to news, videos, case studies, tutorials and more. Take a look and join the conversation now. http://goparallel.sourceforge.net/___ 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
Re: [PyMOL] ball and stick representation of water molecule
Dear Leila, stick_ball setting can only be applied to whole object and not atoms for all I know. So, to do ball (oxygen) and sticks (hydrogen) representations is : show sticks, solvent show spheres, solvent and e. O set sphered_scale, 0.3, solvent and e. O You can adjust the size of the sphere with the last setting. Hope it will help you. Joseph On Sun, Jul 17, 2011 at 1:49 PM, leila karami karami.lei...@gmail.comwrote: Dear pymol users how to show water molecules as ball and stick representation (O atom: ball and H atoms: stick)? any help will highly appreciated. -- AppSumo Presents a FREE Video for the SourceForge Community by Eric Ries, the creator of the Lean Startup Methodology on Lean Startup Secrets Revealed. This video shows you how to validate your ideas, optimize your ideas and identify your business strategy. http://p.sf.net/sfu/appsumosfdev2dev ___ 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 -- Joseph ANDRE 11 Rue de Valence 75005 Paris - FRANCE 33(0)6 75 04 64 00 -- AppSumo Presents a FREE Video for the SourceForge Community by Eric Ries, the creator of the Lean Startup Methodology on Lean Startup Secrets Revealed. This video shows you how to validate your ideas, optimize your ideas and identify your business strategy. http://p.sf.net/sfu/appsumosfdev2dev___ 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
RE: [PyMOL] Ball and stick
Tony, First, enable stick_ball show sticks set stick_ball, on That will put rounded-ends on sticks. If you wall a ball stick representation, then also do something like the following: set stick_radius, 0.12 set stick_ball_ratio, 2 And if you want bond valences as well: set valence, on Cheers, Warren -Original Message- From: pymol-users-ad...@lists.sourceforge.net [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of Tony Giannetti Sent: Sunday, April 11, 2004 10:55 PM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Ball and stick I've noticed that 'stick_ball' was an added feature to PyMol in a recent version, however I can't seem to get it to work. I can change the stick_ball_ratio, but MacPyMol 0.95 doesn't recognize stick_ball in any format. Does anyone know how to create ball-and-stick representations in this version? Thanks, Tony --- This SF.Net email is sponsored by: IBM Linux Tutorials Free Linux tutorial presented by Daniel Robbins, President and CEO of GenToo technologies. Learn everything from fundamentals to system administration.http://ads.osdn.com/?ad_id=1470alloc_id=3638op=click ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
