I'm new at pymol, and I'm trying to use the commands rms and rms_cur. I have two pdb files, with two proteins in each. First, I load the files
> load 1acb_321000.pdb, c321 > load 1acb_dock.pdb, dock then I select the backbone of the B chain of each complex, > select lc, /c321//b//ca+c+n+o > select lr, /dock//b//ca+c+n+o Everything works until here. Each selection is showed on the screen, and they are 207 atoms each. Now I want to get the rms value without superimposing: > rms_cur lc, lr but it does not work: ExecutiveRMS-Error: No atoms selected. It also does not work with rms or fit commands, although it works with align: > align lc, lr Match: read scoring matrix. Match: assigning 69 x 69 pairwise scores. MatchAlign: aligning residues (69 vs 69)... ExecutiveAlign: 207 atoms aligned. ExecutiveRMS: 5 atoms rejected during cycle 1 (RMS=0.01). ExecutiveRMS: 2 atoms rejected during cycle 2 (RMS=0.01). Executive: RMS = 0.006 (200 to 200 atoms) I've seen that someone has reported a bug at debian's, under the version 0.99rc6: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=486254 I've tried the 1.0r2-1 version (commming with ubuntu, apt-get), and compliling the source code from the svn of the current version, 1.2-x. Same results. Hope someone can help me, albert
