Re: [PyMOL] list residues in a selection

On Wednesday 06 July 2005 08:58, Sebastien Gerega wrote: > Is there a way to list the residues that are in a selection? For example > if I use the command "select near, sel01 around 6" how can I obtain a > list of the residues in the "near" selection? Using cmd.get_pdbstr("near") (after "import

Re: [PyMOL] rearranging the coordinates of a PDB file

Hi Vanessa, try also pdb-mode.el (http://stein.bioch.dundee.ac.uk/~charlie/scripts/pdb-mode.html) I have been using it for a while and I found very useful Regards, andrea

[PyMOL] RE: hardware stereo - monitors

Hi there, Try an iiyama HM204DTA (at least in the UK) which will do >100Hz up to 1600x1200. I have one and at 1280x1024 @ 120Hz it works beautifully for me. Regards, Neil. * Neil Ranson PhD University Research Fellow, Astbury Centre for Structural Molecular Bio

Re: [PyMOL] hardware stereo on window XP

Hi Jie Yang, it's getting harder to buy a stereo-capable CRT monitor with all the fancy TFTs. One monitor that I know to be still available is the iiyama Vision Master Pro 514 (HM204DT). It is a 22'' CRT with a maximum horizontal refresh rate of 140 kHz (!) and a maximum vertical refresh rate

Re: [PyMOL] script to write down distances ligand-protein: need feedback

Hi thanks for your reply. Yes it is the id. I found out also that it takes a lot time because is looping in all atoms and in the "active" site. So I fixed that. Anyway more in general, I saw that the manual is lacking of some information useful for who wants to program. I mean, sometimes it doesn't

Re: [PyMOL] list residues in a selection

I asked a similar question a while ago, and Kristan Rother archived the answer at . Here it is: Using PyMOL commands: list=[] iterate (name ca),list.append((resi,resn)) print list [('ASP', '1'), ('CYS', '2'), ('ALA', '3'), ('TRP', '4'), ('HI

[PyMOL] FPS on FC4 with ATI Mobility Radeio 9700

Sebastien, That doesn't sound normal. I have a Dell Latitude w/Radeon Mobility 9000 and I get 30+ FPS for larger proteins. I don't however use, FC4. If you need specs, I can get them for you when I'm near my laptop (later today) -- just let me know. -- Jason On Wed, 2005-07-06 at 06:29 -0700,

RE: [PyMOL] hardware stereo on window XP

Hi, Thank you all for your kind help. From the info I got, there are two choices, one is the IIyama HM204DT, another is viewsonic P225f. IIyama HM204DT is SUPER in all features, but I could not find a seller in US, seems it is popular in Europe but nobody is selling that in US?! That is really sad.

[PyMOL] select residues around

Is there a command to select residues around an object rather than atoms. For example the command "select near, sel01 around 6" selects atoms but I would like to select residues. thanks, Sebastien Gerega