I believe that you can only apply the cartoon setting to an entire obj (object). And so you are correct in trying to duplicate the nucleotide so you can apply one setting to it, while allowing the other setting to display the rest of them. But that doesn’t work either since the program will only allow one display type at a time. There may be a complex way to override it but I do not know it.
The way I have gotten around this in the past is to set up the entire object the way you want it, then render it once with each setting. Then open both of the resulting images in photoshop or similar program. Put them both into one file as layers. Then delete most of one of the files (say the top one) so only the single nucleotide is left in the cartoon setting that you want in that layer. The rest of the image will appear from the bottom layer. Then you can flatten the image and save it. It’s fast and works great. > On Aug 2, 2016, at 9:41 AM, COSTA Maria <maria.co...@i2bc.paris-saclay.fr> > wrote: > > Dear pymol-users, > > I’m still learning how to use pymol to do basic things. > At present, I’m working with a nucleic acid molecule that is colored by > sequence domains (each domain is a different objet). All the domains are > displayed in the cartoon mode, with backbone as dumbbell and > cartoon_ring_finder,0 (no nucleobases or riboses displayed). Now, I would > like to display only the first residue of one of the domains as > cartoon_ring_finder,2 (ring only for nucleobases) and then color it entirely > (dumbbell + ribose stick + base ring) with a different color from the rest of > the domain sequence. The problem is that it does not work ! > > I tried to copy that nucleotide into a new objet to manipulate it > independently but all the arguments I write in the command line do not apply > to it, nothing is changing on the screen. The only thing that works is the > menu on the right, use the objet line corresponding to this residue, display > it entirely as sticks and then change the color of the sticks. But that’s not > what I need! > > Do you have any ideas how to display the desired nucleotide? > > Many thanks in advance, > > Maria > ------------------------------------------------------------------------------ > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net > <mailto:PyMOL-users@lists.sourceforge.net>) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > <https://lists.sourceforge.net/lists/listinfo/pymol-users> > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > <http://www.mail-archive.com/pymol-users@lists.sourceforge.net> H. Adam Steinberg 7904 Bowman Rd Lodi, WI 53555 608/592-2366
------------------------------------------------------------------------------
_______________________________________________ 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
