Janet, Unforutnately not. At present, cartoon_transparency must be uniform over the entire cartoon representation. You can split the cartoon into multiple objects to obtain differential transparency, but as you correctly point out, that will cause a break or gap in the cartoon.
Cheers, Warren > -----Original Message----- > From: pymol-users-boun...@lists.sourceforge.net > [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf > Of k...@genesilico.pl > Sent: Wednesday, February 13, 2008 9:38 AM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] partially transparent structure > > I would like to display a protein structure in the following way: > > The first domain of the structure in red cartoons The second > domain of the structure in gray TRANSPARENT cartoons > > I tried splitting the structure into two objects but because > the transition from the first domain to the second one is > inside the secondary structure element the element looks > broken after the split. > > Is there any smart way of drawing partially transparent > structures in pymol? > > Thank you in advance for your help, > Janek Kosinski > > > :. > > > -------------------------------------------------------------- > ----------- > This SF.net email is sponsored by: Microsoft Defy all > challenges. Microsoft(R) Visual Studio 2008. > http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users
