You should try, as jared suggested for the surface, to set the color of the sticks only for your selection: set stick_color, color, selection this should't affect the helix, if I'm not wrong.
Another way, is to select only the atoms in the sidechain and color only them. Something like color red, res 5 and not (n. C or n. N or n. O or n. CA) Hope this helps On 7/11/14 11:20 AM, sunyeping wrote: > Dear Gianluca, > > I followed Jared's instruction and then show surface, but the surface is > still an incomplete plane, unlike what I wish as in the sample. > > And I have another question: > > I show a residue in a helix of cartoon representation as sticks, and > give it a color different from the cartoons of the helix, but the new > color extented to the helix. How chould I prevent this happening? > cartoon_discrete_colors seems doesn't work. > > Best Regard. > > Yeping Sun > > Institute of Microbiology, Chinese Academy of Sciences > > > ------------------------------------------------------------------ > 发件人：Gianluca Santoni <[email protected]> > 发送时间：2014年7月11日(星期五) 14:59 > 收件人：孙业平 <[email protected]> > 抄 送：pymol-users <[email protected]> > 主 题：Re: [PyMOL] RE： what is the pymol representation in this figure? > > Dear Yeping, > you should check Jared's reponse to your message. > I think he gave you all the hints you need. > :) > Gian > > On 7/11/14 8:27 AM, sunyeping wrote: > > > > 发送时间：2014年7月10日(星期四) 21:20 > > 收件人：pymol-users <[email protected]> > > 主 题：Re: [PyMOL] what is the pymol representation in this figure? > > > > It should be a solid surface with transparency on, > > if I'm not getting it wrong. > > > > Dear Gianluca, > > > > Thank you for the response, but how to set the side chain of the > > selected residues as solid surface? I used the command > > > > show surface, sele > > > > but the surface appears not like the sample figure in which there seems > > to be a 3D volume around the sticks representations of the side chains, > > instead, the surface shown is just a plane aside the sticks > > representation. So what is the proper way to obtain the effects in the > > sample figure? > > > > Best Regards. > > > > Yeping > > > > On 7/10/14 12:40 PM, sunyeping wrote: > > > Dear all, > > > > > > Could anyone tell me how the figure attached to the following web site > > > or the attach file is drawn? In What pymol repersentation of the > > > residues is shown? > > > > > > http://cashero.lingw.net/ > > > > > > Yeping Sun > > > > > > > > > > > > > > > > > > > > > ------------------------------------------------------------------------------ > > > Open source business process management suite built on Java and Eclipse > > > Turn processes into business applications with Bonita BPM Community > > Edition > > > Quickly connect people, data, and systems into organized workflows > > > Winner of BOSSIE, CODIE, OW2 and Gartner awards > > > http://p.sf.net/sfu/Bonitasoft > > > > > > > > > > > > _______________________________________________ > > > PyMOL-users mailing list ([email protected]) > > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > > Archives: http://www.mail-archive.com/[email protected] > > > > > > > > > -- > > Gianluca Santoni, > > Dynamop Group > > Institut de Biologie Structurale > > 6 rue Jules Horowitz > > 38027 Grenoble Cedex 1 > > France > > _________________________________________________________ > > Please avoid sending me Word or PowerPoint attachments. > > See http://www.gnu.org/philosophy/no-word-attachments.html > > > > > ------------------------------------------------------------------------------ > > Open source business process management suite built on Java and Eclipse > > Turn processes into business applications with Bonita BPM Community > Edition > > Quickly connect people, data, and systems into organized workflows > > Winner of BOSSIE, CODIE, OW2 and Gartner awards > > http://p.sf.net/sfu/Bonitasoft > > _______________________________________________ > > PyMOL-users mailing list ([email protected]) > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > Archives: http://www.mail-archive.com/[email protected] > > > -- > Gianluca Santoni, > Dynamop Group > Institut de Biologie Structurale > 6 rue Jules Horowitz > 38027 Grenoble Cedex 1 > France > _________________________________________________________ > Please avoid sending me Word or PowerPoint attachments. > See http://www.gnu.org/philosophy/no-word-attachments.html > > ------------------------------------------------------------------------------ > Open source business process management suite built on Java and Eclipse > Turn processes into business applications with Bonita BPM Community Edition > Quickly connect people, data, and systems into organized workflows > Winner of BOSSIE, CODIE, OW2 and Gartner awards > http://p.sf.net/sfu/Bonitasoft > _______________________________________________ > PyMOL-users mailing list ([email protected]) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/[email protected] -- Gianluca Santoni, Dynamop Group Institut de Biologie Structurale 6 rue Jules Horowitz 38027 Grenoble Cedex 1 France _________________________________________________________ Please avoid sending me Word or PowerPoint attachments. See http://www.gnu.org/philosophy/no-word-attachments.html ------------------------------------------------------------------------------ Open source business process management suite built on Java and Eclipse Turn processes into business applications with Bonita BPM Community Edition Quickly connect people, data, and systems into organized workflows Winner of BOSSIE, CODIE, OW2 and Gartner awards http://p.sf.net/sfu/Bonitasoft _______________________________________________ PyMOL-users mailing list ([email protected]) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/[email protected]
