[PyMOL] overlay ligands inside of protein

2004-12-17 Thread Andrea Spitaleri
Hi everyone, I am quite new here (I have been reading your post in past...) and now I decide to post a question (easy maybe). I couldn't find any answer on Google. I have got two complexes of (protein+ligand)1 and (protein+ligand)2 where the only difference between the two is the different orientat

[PyMOL] object name length

2004-12-17 Thread Björn Kauppi
Hi, all Two short questions. 1. Is it possible to have pymol display more then 16 characters in the object name bars on the right hand side on the GUI? 2. Which ascii characters is allowed in a name? Seems to be only alpha numrerics and "_" and ".". Is there away round this? I tried hyphens but

[PyMOL] overlay ligands inside of protein

2004-12-17 Thread Scott Classen
On Dec 17, 2004, at 1:50 AM, Andrea Spitaleri wrote: Hi everyone, I am quite new here (I have been reading your post in past...) and now I decide to post a question (easy maybe). I couldn't find any answer on Google. I have got two complexes of (protein+ligand)1 and (protein+ligand)2 where the o

[PyMOL] rms output

2004-12-17 Thread Coincon Mathieu
Hi, I'm using pymol to analyse a molecular dynamic simulation. I transformed my trajectory in an NMR style .pdb. It's really nice like that: I can see a movie of my simulation in pymol. Here come my question. I use intra_fit to align all my frames (states). And it's really fast to compute that. I

[PyMOL] FW: Jmol version 10.00 - RELEASED

2004-12-17 Thread Warren DeLano
PyMOL Users & Friends, There is a new kid on the block and he packs quite a punch. His name is Jmol v10 and all who have been looking to put molecular graphics content into a browser or Java applet need to take a close look at this cool new tool. It is a well-engineered free and open-source repl