[PyMOL] run a pymol command using the terminal

db… I tried the following (from the terminal). Any suggestions? from pymol import cmd cmd.align('1.pdb','2.pdb',cycles=0) Thank you, cedric Can't remember your password? Do you need a strong and secure password? U

Re: [PyMOL] RMSD

Hi Thomas, Thank you, I tried that and it is now 1.9A, still seems high when the overall RMSD is 0.38 ! But, that is definitely something I will keep in mind in the future when calculating the RMSD. Cedric > -Original Message- > From: thomas.hol...@schrodinger.com > Sent

[PyMOL] RMSD

Hi, I was comparing two very similar structures and I got the following results: align pdb1, pdb2, cycles=0 0.38 align pdb1, pdb2 and name ca, cycles=0 0.05 align pdb1, pdb2 and name ca+cb+c+n, cycles=0 0.07 align pdb1, pdb2 and name ca+cb+c+n+o, cycles=0 9.8 I wonder why the addition of th

[PyMOL] sterioscopic 3D using ATI HD6800 under linux

. Could anybody tell me if this works? Maybe a bit off-topic on this list, are there any linux games that use sterioscopic 3D? Best regards and thanks in advance, Cedric -- All the data continuously generated in

[PyMOL] moving molecules using rotation matrix

-0.7924917102 -0.4575097139 0.4032886695 3 86.5815155425 0.1397689115 -0.7798998384 -0.6100990849 Thanks -- .. Dr. Cedric Bauvois Cristallographie des protéines Institut de Recherches Microbiologiques J.-M. Wiame -IRMW