Hello Joel, On 05/11/13 21:31, Joel Tyndall wrote: > Hi Jerome, > > I am guessing you would be referring to the cartoon representation of the > cycic peptide.
and to the CA backbone polygons. This is only a workaround but I would usually display the sticks of the covalently linked N-and C termini (main chain atoms). CONECT and LINK seems to be honoured for sticks, indeed. I feel this provides the viewer a better understanding of the peptide itself as you can see where residue 1 is (amide linkage) rather than guessing. As a matter of fact, I am mainly working on CA backbones, hence the subject of my first message. > > Hope this helps Thanks, Jerome > > -----Original Message----- > From: Jerome BENOIT [mailto:g62993...@rezozer.net] > Sent: Tuesday, 5 November 2013 8:47 p.m. > To: pymol-users@lists.sourceforge.net > Subject: Re: [PyMOL] [WAS: polygonal ring] cyclic peptide > > Hello Again, > > let rephrase my question: > does PyMOL have support for cyclic peptide (ex. 2NS4) ? > > Thanks, > Jerome > > On 29/10/13 17:37, Jerome BENOIT wrote: >> Hello List, >> >> So far I use PyMOL to visualize polygonal chain through an expurged PDB data >> file when the chain is not ring. >> Now I would like to visualize chain rings: what is the best way to make >> PyMOL understand that the two end points coincide ? >> >> Thanks in advance, >> Jerome >> >> ---------------------------------------------------------------------- >> -------- Android is increasing in popularity, but the open development >> platform that developers love is also attractive to malware creators. >> Download this white paper to learn more about secure code signing >> practices that can help keep Android apps secure. >> http://pubads.g.doubleclick.net/gampad/clk?id=65839951&iu=/4140/ostg.c >> lktrk _______________________________________________ >> 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 >> > > ------------------------------------------------------------------------------ > November Webinars for C, C++, Fortran Developers Accelerate application > performance with scalable programming models. Explore techniques for > threading, error checking, porting, and tuning. Get the most from the latest > Intel processors and coprocessors. See abstracts and register > http://pubads.g.doubleclick.net/gampad/clk?id=60136231&iu=/4140/ostg.clktrk > _______________________________________________ > 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 > ------------------------------------------------------------------------------ November Webinars for C, C++, Fortran Developers Accelerate application performance with scalable programming models. Explore techniques for threading, error checking, porting, and tuning. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60136231&iu=/4140/ostg.clktrk _______________________________________________ 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
