Hi Maria, The following shows filled rings and sticks for the nucleosides:
set cartoon_ring_finder, 1 set cartoon_ring_mode, 3 as cartoon To not show filled rings for the nucleobases, you can hide cartoon for the sidechain selection, and show sticks instead (the sidechain selection keyword was introduced in PyMOL 1.7.0): hide cartoon, sidechain show sticks, sidechain extend 1 See also: http://pymolwiki.org/index.php/Overview_of_nucleic_acid_cartoons Hope that helps. Cheers, Thomas On 20 Jan 2016, at 10:10, COSTA Maria <maria.co...@i2bc.paris-saclay.fr> wrote: > Hello, > > I am using Pymol to visualize nucleic acid structures ( I'm a new user) and I > would like to be able to display the functional groups of bases A, G, T/U, C > with sticks while using the cartoon mode : cartoon_ring_finder, 1 or 2 for > the ribose_phosphate backbone of the molecule. Can you please tell me how to > achieve that ? > For the moment the only thing I found was to display the 'cartoon' and the > 'stick' modes at the same time to get the sticks corresponding to the > functional groups of the bases but then I also visualize all the sticks of > the riboses and phosphates which makes my drawings 'overloaded'. I hope I was > clear enough. > > Many thanks in advance for your answers, > > Maria > > CNRS > France -- Thomas Holder PyMOL Principal Developer Schrödinger, Inc. ------------------------------------------------------------------------------ Site24x7 APM Insight: Get Deep Visibility into Application Performance APM + Mobile APM + RUM: Monitor 3 App instances at just $35/Month Monitor end-to-end web transactions and take corrective actions now Troubleshoot faster and improve end-user experience. Signup Now! http://pubads.g.doubleclick.net/gampad/clk?id=267308311&iu=/4140 _______________________________________________ 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
