set transparency=0.5 #for optimal view ray 1024, 768 there are more transparency options. Type "set transparency" when in console and press TAB two times to see the full list of available commands
SDA On Wed, 2008-02-13 at 09:38 -0800, pymol-users-requ...@lists.sourceforge.net wrote: > Message: 8 > Date: Wed, 13 Feb 2008 18:37:41 +0100 (CET) > From: k...@genesilico.pl > Subject: [PyMOL] partially transparent structure > To: pymol-users@lists.sourceforge.net > Message-ID: > <45816.82.210.151.209.1202924261.squir...@mail.genesilico.pl> > Content-Type: text/plain;charset=iso8859-2 > > 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 >
