> > Today's Topics: > > 1. how to make selected residues blurry? (sunyeping) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Fri, 30 Nov 2018 12:14:21 +0800 > From: "sunyeping" <sunyep...@aliyun.com> > To: "pymol-users" <pymol-users@lists.sourceforge.net> > Subject: [PyMOL] how to make selected residues blurry? > Message-ID: > <87ef2902-5906-4a7a-8fb2-960353cebf36.sunyep...@aliyun.com> > Content-Type: text/plain; charset="utf-8" > > Dear all, > > Could you please check this figure at the following link? > https://drive.google.com/file/d/1Uh9JRh7x0sjv-zGp_0ZKPc1cnWotkZA0/view?usp=sharing > > The structure in blue in this figure is prepared from chain A of pdb id 4gms. > Some residues are highlighted and look sharp ( as indicated in the figure: > 130-loop, 150-loop, 190-helix and 220-loop, and the corresponding residues > are: residues 134-138, 155-163, 188-195, 221-228, respectively), while other > part of the structure look blurry. > > I wish to repeat this visual effect but don't know how. I try to select the > residues and use "set transparency" command: > set transparency, 0.8, sele > but it doesn't work. > > Could anyone help me figure it out? With sincere thanks. > > Arthur
The residues that are farther back from the viewer are increasingly transparent. The effect is called depth cueing, basically causing the residues farther back to appear to get lost in the fog. set depth_cue, 1 # turn on depth cueing will switch the effect on. The front and back clipping planes define the range, although you can keep more of the front unfogged by additionally adjusting the fog_start value see https://pymolwiki.org/index.php/Depth_cue Annemarie ____________________________________________________________ Dr. Annemarie Honegger Dept. of Biochemistry Zürich University Winterthurerstrasse 190 8057 Zürich Switzerland e-mail: honeg...@bioc.uzh.ch phone: +41 44 635 55 62 fax: +41 44 635 57 12 _______________________________________________ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
