Dear all, I recently upgraded to Ubuntu 12.04 (pymol version 1.4.1-3). Since I did the upgrade, mutations done with the mutagenesis wizard lead to incorrect atom numbering in the saved pdb file. Before, the problem definitely did not exist. I read the recent post in this forum concerning this, but the pymol version 1.4 seems to lead to this problem, too.
Here an example: ATOM 1 N MET A 7 72.739 -17.539 8.852 1.00 36.46 N TER 2 MET A 7 ATOM 0 N ALA A 12 77.920 -8.244 14.624 1.00 0.00 N TER 1 ALA A 12 ATOM 2 CA MET A 7 73.836 -17.058 9.739 1.00 35.87 C TER 3 MET A 7 ATOM 1 CA ALA A 12 77.603 -6.935 15.187 1.00 0.00 C TER 2 ALA A 12 ATOM 3 C MET A 7 74.382 -18.171 10.623 1.00 36.04 C TER 4 MET A 7 ATOM 2 CB ALA A 12 78.933 -6.222 15.489 1.00 0.00 C TER 3 ALA A 12 ATOM 4 O MET A 7 73.676 -18.689 11.489 1.00 36.57 O TER 5 MET A 7 ATOM 3 C ALA A 12 76.716 -6.146 14.255 1.00 0.00 C TER 4 ALA A 12 ATOM 5 CB MET A 7 73.338 -15.921 10.634 1.00 34.58 C TER 6 MET A 7 ATOM 4 O ALA A 12 77.070 -6.025 13.073 1.00 0.00 O TER 5 ALA A 12 ATOM 6 CG MET A 7 72.989 -14.645 9.899 1.00 33.55 C ATOM 7 SD MET A 7 72.558 -13.328 11.053 1.00 30.82 S ATOM 8 CE MET A 7 74.184 -12.785 11.572 1.00 31.08 C ATOM 9 N THR A 8 75.645 -18.528 10.413 1.00 36.23 N ATOM 10 CA THR A 8 76.278 -19.573 11.207 1.00 35.81 C ATOM 11 C THR A 8 76.461 -19.071 12.633 1.00 34.75 C ATOM 12 O THR A 8 76.529 -19.861 13.578 1.00 35.68 O ATOM 13 CB THR A 8 77.662 -19.947 10.646 1.00 37.30 C ATOM 14 OG1 THR A 8 78.530 -18.810 10.723 1.00 38.49 O ATOM 15 CG2 THR A 8 77.544 -20.390 9.196 1.00 38.06 C ATOM 16 N GLY A 9 76.539 -17.750 12.779 1.00 32.20 N ATOM 17 CA GLY A 9 76.713 -17.161 14.096 1.00 27.95 C ATOM 18 C GLY A 9 76.334 -15.690 14.126 1.00 24.78 C ATOM 19 O GLY A 9 76.080 -15.092 13.083 1.00 24.20 O [...] Can somebody help me out? Thanks in advance, Caro ------------------------------------------------------------------------------ Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download AppDynamics Lite for free today: http://p.sf.net/sfu/appdyn_sfd2d_oct _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
