Re: [PyMOL] line width

2004-08-19 Thread Peter Haebel
Hi Brandon, how about creating two new objects create protein2, (selection_1) create protein3, (not selection_1) set line_width=1.2, protein2 set line_width=2.0, protein3 cheers peter On Thursday 19 August 2004 00:38, Brandon Hespenheide wrote: Pymolers, Is it possible to create

RE: [PyMOL] line width

2004-08-19 Thread Warren DeLano
That's good advice, except that you'll lose any bonds between the two selections... the following example will keep those bonds (by duplicating atoms) create protein2, (selection_1) create protein3, ((not selection_1) extend 1) set line_width=1.2, protein2 set line_width=2.0, protein3 Cheers,

RE: [PyMOL] line width

2004-08-19 Thread Christopher Colbert
Hi Warren, Does this work with the transparency setting as well? I had a molecule that I wanted some sticks transparent to see behind them and other sticks solid. The only way I found to do this was to load the molecule twice and draw the transparent sticks from molecule 1 and the solid sticks

[PyMOL] Negative residue index

2004-08-19 Thread Charles Moad
I have only tried this one one pdb, but I opened 1HOZ and the following command throws an error: select 1HOZ and chain A and resi -1 I assume it is the negative number. Is this a bug??? Thanks, Charlie Scientific Data Analysis Lab Indiana University

RE: [PyMOL] Negative residue index

2004-08-19 Thread Warren DeLano
Charles, It's a design limitation that hasn't yet been remedied. For the time being, please just shift residues into a positive range via a command such as the following: alter all, resi=int(resi)+100 Cheers, Warren Note that if you have alphanumeric residue identifers 110A, 110B, then you'll

Re: [PyMOL] PyMOL tutorial (moved and slightly updated)

2004-08-19 Thread D. Joe Anderson
On Fri, Aug 13, 2004 at 05:07:47PM +0200, Michael Banck wrote: On Fri, Aug 13, 2004 at 08:34:17AM -0500, D. Joe Anderson wrote: On Tue, Aug 03, 2004 at 11:31:04AM -0700, chuit...@interchange.ubc.ca wrote: I have a small tutorial for getting started with PyMOL and I have no idea if