####################################################### # # # LGA # # --------------- # # # # Local-Global Alignment # # A Method for Finding 3-D Similarities # # in Protein Structures # # # # ------------ 05/2009 # # # # Adam Zemla (adamz@llnl.gov) # # Lawrence Livermore National Laboratory, CA # # # ####################################################### # Molecule1: number of CA atoms 34 ( 272), selected 33 , name T0564TS213_1-D1 # Molecule2: number of CA atoms 61 ( 989), selected 33 , name T0564-D1.pdb # PARAMETERS: -3 -ie -o1 -sda -d:4 -swap T0564TS213_1-D1.lga # FIXED Atom-Atom correspondence # GDT and LCS analysis LCS - RMSD CUTOFF 5.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 26 37 - 62 4.95 8.77 LCS_AVERAGE: 39.44 LCS - RMSD CUTOFF 2.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 9 50 - 58 1.77 8.40 LCS_AVERAGE: 12.12 LCS - RMSD CUTOFF 1.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 6 37 - 42 0.89 11.51 LONGEST_CONTINUOUS_SEGMENT: 6 39 - 44 0.82 12.94 LONGEST_CONTINUOUS_SEGMENT: 6 50 - 55 0.87 8.45 LONGEST_CONTINUOUS_SEGMENT: 6 51 - 56 0.96 9.26 LONGEST_CONTINUOUS_SEGMENT: 6 62 - 67 0.71 15.36 LCS_AVERAGE: 8.30 LCS_GDT MOLECULE-1 MOLECULE-2 LCS_DETAILS GDT_DETAILS TOTAL NUMBER OF RESIDUE PAIRS: 33 LCS_GDT RESIDUE RESIDUE SEGMENT_SIZE GLOBAL DISTANCE TEST COLUMNS: number of residues under the threshold assigned to each residue pair LCS_GDT NAME NUMBER NAME NUMBER 1.0 2.0 5.0 0.5 1.0 1.5 2.0 2.5 3.0 3.5 4.0 4.5 5.0 5.5 6.0 6.5 7.0 7.5 8.0 8.5 9.0 9.5 10.0 LCS_GDT R 37 R 37 6 8 26 4 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT Y 38 Y 38 6 8 26 4 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT E 39 E 39 6 8 26 4 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT A 40 A 40 6 8 26 4 8 11 11 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT S 41 S 41 6 8 26 4 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT F 42 F 42 6 8 26 4 6 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT K 43 K 43 6 8 26 3 5 9 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT P 44 P 44 6 8 26 3 5 9 10 12 14 16 16 17 17 19 21 23 25 26 27 28 29 30 31 LCS_GDT L 45 L 45 4 7 26 3 4 5 6 7 8 11 12 15 16 19 21 23 25 26 27 28 29 30 31 LCS_GDT N 46 N 46 4 7 26 3 4 5 6 6 8 11 12 15 16 19 21 23 25 26 27 28 29 30 31 LCS_GDT G 47 G 47 4 7 26 3 4 5 7 9 12 13 15 17 17 19 21 23 25 26 26 28 29 30 31 LCS_GDT G 48 G 48 4 7 26 3 4 9 10 11 14 16 16 17 17 19 21 23 25 26 27 28 29 30 31 LCS_GDT L 49 L 49 4 7 26 3 4 9 10 12 14 16 16 17 17 19 21 23 25 26 27 28 29 30 31 LCS_GDT E 50 E 50 6 9 26 3 5 9 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT K 51 K 51 6 9 26 3 7 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT T 52 T 52 6 9 26 3 7 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT F 53 F 53 6 9 26 3 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT R 54 R 54 6 9 26 3 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 LCS_GDT L 55 L 55 6 9 26 4 8 11 12 13 14 16 16 17 18 19 20 23 25 26 27 28 29 30 31 LCS_GDT Q 56 Q 56 6 9 26 2 5 6 8 12 14 14 16 17 18 19 20 23 25 26 27 28 29 30 31 LCS_GDT A 57 A 57 3 9 26 0 3 5 8 8 11 13 16 17 18 19 20 23 25 26 27 28 29 30 31 LCS_GDT Q 58 Q 58 3 9 26 3 3 3 6 9 11 13 16 16 18 19 20 22 24 26 27 28 29 30 31 LCS_GDT Q 59 Q 59 3 4 26 3 3 3 4 4 5 6 7 10 14 18 19 21 23 26 26 27 27 29 29 LCS_GDT Y 60 Y 60 3 4 26 3 3 3 4 4 5 10 13 13 17 19 20 22 24 26 27 28 29 30 31 LCS_GDT H 61 H 61 3 4 26 3 3 5 6 7 11 12 16 17 18 19 20 22 24 26 27 28 29 30 31 LCS_GDT A 62 A 62 6 7 26 4 5 6 6 8 11 13 16 17 18 19 20 23 24 26 27 28 29 30 31 LCS_GDT L 63 L 63 6 7 18 4 5 6 6 6 10 11 14 16 18 19 20 23 25 26 27 28 29 30 31 LCS_GDT T 64 T 64 6 7 17 4 5 6 6 6 7 8 12 13 15 19 21 23 25 26 26 28 29 30 31 LCS_GDT V 65 V 65 6 7 17 4 5 6 6 6 7 7 10 11 12 13 16 23 23 24 25 25 28 28 31 LCS_GDT G 66 G 66 6 7 17 3 5 6 6 6 7 8 10 11 14 14 17 22 22 24 24 25 26 28 28 LCS_GDT D 67 D 67 6 7 17 3 5 6 6 6 7 7 9 13 15 17 20 23 23 24 25 27 29 30 31 LCS_GDT Q 68 Q 68 3 7 17 3 3 3 5 7 8 10 12 14 15 19 21 23 25 26 27 28 29 30 31 LCS_GDT G 69 G 69 3 3 15 3 3 5 6 7 9 11 12 14 17 19 21 23 25 26 27 28 29 30 31 LCS_AVERAGE LCS_A: 19.95 ( 8.30 12.12 39.44 ) GLOBAL_DISTANCE_TEST (summary information about detected largest sets of residues (represented by selected AToms) that can fit under specified thresholds) GDT DIST_CUTOFF 0.50 1.00 1.50 2.00 2.50 3.00 3.50 4.00 4.50 5.00 5.50 6.00 6.50 7.00 7.50 8.00 8.50 9.00 9.50 10.00 GDT NUMBER_AT 4 8 11 12 13 14 16 16 17 18 19 21 23 25 26 27 28 29 30 31 GDT PERCENT_AT 6.56 13.11 18.03 19.67 21.31 22.95 26.23 26.23 27.87 29.51 31.15 34.43 37.70 40.98 42.62 44.26 45.90 47.54 49.18 50.82 GDT RMS_LOCAL 0.22 0.74 0.94 1.33 1.38 1.64 2.14 2.14 2.56 3.04 3.35 4.24 4.54 5.06 4.95 5.40 5.54 5.75 6.04 6.31 GDT RMS_ALL_AT 11.79 11.07 10.97 10.29 10.55 10.63 11.17 11.17 10.99 8.94 9.90 8.75 9.23 7.40 8.77 7.37 7.39 7.20 7.06 6.99 # Checking swapping # possible swapping detected: E 39 E 39 # possible swapping detected: F 42 F 42 # possible swapping detected: E 50 E 50 # possible swapping detected: F 53 F 53 # possible swapping detected: Y 60 Y 60 # possible swapping detected: D 67 D 67 # Molecule1 Molecule2 DISTANCE Mis MC All Dist_max GDC_mc GDC_all LGA R 37 R 37 2.878 0 0.171 1.041 4.223 50.357 62.468 LGA Y 38 Y 38 2.129 0 0.165 1.278 8.390 73.452 43.452 LGA E 39 E 39 1.172 0 0.189 1.055 4.286 81.548 63.704 LGA A 40 A 40 1.700 0 0.016 0.034 1.750 72.857 72.857 LGA S 41 S 41 1.696 0 0.013 0.607 2.049 72.857 71.508 LGA F 42 F 42 1.666 0 0.139 1.177 5.043 75.000 60.260 LGA K 43 K 43 1.229 0 0.559 0.959 5.185 75.476 63.968 LGA P 44 P 44 2.508 0 0.475 1.041 5.630 46.190 39.252 LGA L 45 L 45 9.058 0 0.633 1.263 12.972 5.119 2.560 LGA N 46 N 46 9.495 0 0.209 0.910 9.580 5.000 2.976 LGA G 47 G 47 6.939 0 0.220 0.220 7.579 23.810 23.810 LGA G 48 G 48 3.336 0 0.708 0.708 4.426 52.262 52.262 LGA L 49 L 49 2.552 0 0.049 1.331 5.140 69.286 58.452 LGA E 50 E 50 1.646 0 0.057 0.711 2.741 66.905 64.074 LGA K 51 K 51 3.018 0 0.161 1.225 4.874 59.167 48.466 LGA T 52 T 52 1.757 0 0.123 0.163 2.220 70.833 72.925 LGA F 53 F 53 2.096 0 0.097 1.364 4.669 73.095 58.182 LGA R 54 R 54 0.722 0 0.068 0.757 3.047 90.476 72.208 LGA L 55 L 55 2.229 0 0.138 0.164 4.806 54.524 49.940 LGA Q 56 Q 56 5.764 0 0.286 1.188 6.953 22.262 24.815 LGA A 57 A 57 10.632 0 0.522 0.538 12.514 0.357 0.286 LGA Q 58 Q 58 11.655 0 0.439 1.278 16.896 0.357 0.159 LGA Q 59 Q 59 11.143 0 0.225 0.759 16.633 0.000 0.000 LGA Y 60 Y 60 12.277 0 0.634 0.757 21.079 0.000 0.000 LGA H 61 H 61 13.014 0 0.628 1.355 16.288 0.000 0.000 LGA A 62 A 62 12.754 0 0.572 0.513 13.119 0.000 0.000 LGA L 63 L 63 14.463 0 0.097 1.027 17.814 0.000 0.060 LGA T 64 T 64 19.774 0 0.037 0.125 23.560 0.000 0.000 LGA V 65 V 65 23.006 0 0.612 0.572 26.249 0.000 0.000 LGA G 66 G 66 24.188 0 0.146 0.146 24.188 0.000 0.000 LGA D 67 D 67 20.443 0 0.586 1.336 21.308 0.000 0.000 LGA Q 68 Q 68 18.863 0 0.126 0.858 21.356 0.000 0.000 LGA G 69 G 69 21.172 0 0.623 0.623 21.172 0.000 0.000 # RMSD_GDC results: CA MC common percent ALL common percent GDC_mc GDC_all NUMBER_OF_ATOMS_AA: 33 132 132 100.00 263 263 100.00 61 SUMMARY(RMSD_GDC): 6.940 6.765 7.783 18.708 16.535 #CA N1 N2 DIST N RMSD GDT_TS LGA_S3 LGA_Q SUMMARY(GDT) 34 61 4.0 16 2.14 25.820 22.738 0.716 LGA_LOCAL RMSD: 2.135 Number of atoms: 16 under DIST: 4.00 LGA_ASGN_ATOMS RMSD: 11.172 Number of assigned atoms: 33 Std_ASGN_ATOMS RMSD: 6.940 Standard rmsd on all 33 assigned CA atoms Unitary ROTATION matrix and the SHIFT vector superimpose molecules (1=>2) X_new = -0.722493 * X + 0.457875 * Y + -0.518028 * Z + -3.563525 Y_new = -0.526356 * X + 0.121539 * Y + 0.841533 * Z + 1.520734 Z_new = 0.448278 * X + 0.880669 * Y + 0.153194 * Z + 29.886351 Euler angles from the ROTATION matrix. Conventions XYZ and ZXZ: Phi Theta Psi [DEG: Phi Theta Psi ] XYZ: -2.511977 -0.464838 1.398568 [DEG: -143.9257 -26.6333 80.1320 ] ZXZ: -2.589798 1.416996 0.470837 [DEG: -148.3845 81.1879 26.9770 ] # END of job REMARK ---------------------------------------------------------- REMARK Citing LGA: REMARK Zemla A., LGA - a Method for Finding 3D Similarities in REMARK Protein Structures, Nucleic Acids Research, 2003, V. 31, REMARK No. 13, pp. 3370-3374. REMARK ---------------------------------------------------------- REMARK Superimposed MOLECULES (1=>2) Output: 1 molecule REMARK 1: T0564TS213_1-D1 REMARK 2: T0564-D1.pdb REMARK GDT and LCS analysis REMARK FIXED Atom-Atom correspondence REMARK LGA parameters: -3 -ie -o1 -sda -d:4 -swap T0564TS213_1-D1.lga REMARK #CA N1 N2 DIST N RMSD LGA_S3 RMSD_global REMARK SUMMARY: 34 61 4.0 16 2.14 22.738 6.94 REMARK ---------------------------------------------------------- MOLECULE T0564TS213_1-D1 REMARK This file has been preprocessed by preprocess_pdbv2.1.00.100503REMARK PFRMAT TS REMARK TARGET T0564 REMARK MODEL 1 REFINED REMARK PARENT N/A ATOM 1 N MET 36 -13.972 0.875 5.547 1.00 0.00 N ATOM 2 CA MET 36 -13.424 2.117 5.007 1.00 0.00 C ATOM 3 C MET 36 -12.401 1.819 3.882 1.00 0.00 C ATOM 4 O MET 36 -11.495 0.999 4.054 1.00 0.00 O ATOM 5 CB MET 36 -12.756 2.893 6.154 1.00 0.00 C ATOM 6 CG MET 36 -13.692 3.473 7.165 1.00 0.00 C ATOM 7 SD MET 36 -12.862 4.302 8.488 1.00 0.00 S ATOM 8 CE MET 36 -14.184 5.579 9.028 1.00 0.00 C ATOM 9 N ARG 37 -12.427 2.684 2.886 1.00 0.00 N ATOM 10 CA ARG 37 -11.539 2.657 1.734 1.00 0.00 C ATOM 11 C ARG 37 -10.603 3.873 1.785 1.00 0.00 C ATOM 12 O ARG 37 -11.068 5.015 1.898 1.00 0.00 O ATOM 13 CB ARG 37 -12.309 2.748 0.466 1.00 0.00 C ATOM 14 CG ARG 37 -12.809 1.534 -0.237 1.00 0.00 C ATOM 15 CD ARG 37 -13.462 1.943 -1.589 1.00 0.00 C ATOM 16 NE ARG 37 -14.894 2.272 -1.500 1.00 0.00 N ATOM 17 CZ ARG 37 -15.466 3.369 -2.075 1.00 0.00 C ATOM 18 NH1 ARG 37 -14.729 4.312 -2.735 1.00 0.00 H ATOM 19 NH2 ARG 37 -16.815 3.539 -1.951 1.00 0.00 H ATOM 20 N TYR 38 -9.300 3.610 1.672 1.00 0.00 N ATOM 21 CA TYR 38 -8.331 4.679 1.738 1.00 0.00 C ATOM 22 C TYR 38 -7.452 4.680 0.493 1.00 0.00 C ATOM 23 O TYR 38 -6.532 3.845 0.396 1.00 0.00 O ATOM 24 CB TYR 38 -7.502 4.539 3.060 1.00 0.00 C ATOM 25 CG TYR 38 -6.485 5.669 3.257 1.00 0.00 C ATOM 26 CD1 TYR 38 -5.285 5.669 2.531 1.00 0.00 C ATOM 27 CD2 TYR 38 -6.695 6.664 4.224 1.00 0.00 C ATOM 28 CE1 TYR 38 -4.327 6.665 2.743 1.00 0.00 C ATOM 29 CE2 TYR 38 -5.737 7.659 4.434 1.00 0.00 C ATOM 30 CZ TYR 38 -4.534 7.651 3.716 1.00 0.00 C ATOM 31 OH TYR 38 -3.558 8.636 3.899 1.00 0.00 H ATOM 32 N GLU 39 -7.350 5.887 -0.051 1.00 0.00 N ATOM 33 CA GLU 39 -6.585 6.142 -1.213 1.00 0.00 C ATOM 34 C GLU 39 -5.185 6.617 -0.748 1.00 0.00 C ATOM 35 O GLU 39 -5.010 7.767 -0.315 1.00 0.00 O ATOM 36 CB GLU 39 -7.224 7.221 -2.130 1.00 0.00 C ATOM 37 CG GLU 39 -6.300 7.539 -3.361 1.00 0.00 C ATOM 38 CD GLU 39 -5.875 8.952 -3.572 1.00 0.00 C ATOM 39 OE1 GLU 39 -5.673 9.768 -2.689 1.00 0.00 O ATOM 40 OE2 GLU 39 -5.717 9.208 -4.784 1.00 0.00 O ATOM 41 N ALA 40 -4.197 5.807 -1.071 1.00 0.00 N ATOM 42 CA ALA 40 -2.818 6.019 -0.723 1.00 0.00 C ATOM 43 C ALA 40 -1.918 5.744 -1.943 1.00 0.00 C ATOM 44 O ALA 40 -2.083 4.733 -2.651 1.00 0.00 O ATOM 45 CB ALA 40 -2.505 5.084 0.458 1.00 0.00 C ATOM 46 N SER 41 -0.818 6.464 -1.937 1.00 0.00 N ATOM 47 CA SER 41 0.168 6.401 -2.979 1.00 0.00 C ATOM 48 C SER 41 1.377 5.560 -2.504 1.00 0.00 C ATOM 49 O SER 41 2.050 5.949 -1.526 1.00 0.00 O ATOM 50 CB SER 41 0.558 7.832 -3.360 1.00 0.00 C ATOM 51 OG SER 41 1.052 8.639 -2.307 1.00 0.00 O ATOM 52 N PHE 42 1.660 4.459 -3.220 1.00 0.00 N ATOM 53 CA PHE 42 2.739 3.530 -2.856 1.00 0.00 C ATOM 54 C PHE 42 3.567 3.115 -4.082 1.00 0.00 C ATOM 55 O PHE 42 2.972 2.926 -5.153 1.00 0.00 O ATOM 56 CB PHE 42 2.048 2.338 -2.166 1.00 0.00 C ATOM 57 CG PHE 42 3.054 1.337 -1.541 1.00 0.00 C ATOM 58 CD1 PHE 42 3.426 0.179 -2.246 1.00 0.00 C ATOM 59 CD2 PHE 42 3.560 1.596 -0.254 1.00 0.00 C ATOM 60 CE1 PHE 42 4.358 -0.684 -1.653 1.00 0.00 C ATOM 61 CE2 PHE 42 4.438 0.705 0.355 1.00 0.00 C ATOM 62 CZ PHE 42 4.843 -0.429 -0.361 1.00 0.00 C ATOM 63 N LYS 43 4.919 3.044 -3.923 1.00 0.00 N ATOM 64 CA LYS 43 5.747 2.697 -5.112 1.00 0.00 C ATOM 65 C LYS 43 6.415 1.256 -5.070 1.00 0.00 C ATOM 66 O LYS 43 7.295 1.177 -5.873 1.00 0.00 O ATOM 67 CB LYS 43 6.800 3.781 -5.113 1.00 0.00 C ATOM 68 CG LYS 43 6.567 5.218 -4.836 1.00 0.00 C ATOM 69 CD LYS 43 6.408 6.079 -6.047 1.00 0.00 C ATOM 70 CE LYS 43 7.205 7.381 -6.087 1.00 0.00 C ATOM 71 NZ LYS 43 7.106 8.026 -7.504 1.00 0.00 N ATOM 72 N PRO 44 6.487 0.420 -3.929 1.00 0.00 N ATOM 73 CA PRO 44 6.982 -0.854 -4.273 1.00 0.00 C ATOM 74 C PRO 44 6.490 -1.497 -5.601 1.00 0.00 C ATOM 75 O PRO 44 7.197 -1.334 -6.569 1.00 0.00 O ATOM 76 CB PRO 44 6.923 -1.703 -2.951 1.00 0.00 C ATOM 77 CG PRO 44 7.942 -0.781 -2.185 1.00 0.00 C ATOM 78 CD PRO 44 7.334 0.612 -2.487 1.00 0.00 C ATOM 79 N LEU 45 5.153 -1.352 -5.758 1.00 0.00 N ATOM 80 CA LEU 45 4.229 -1.858 -6.821 1.00 0.00 C ATOM 81 C LEU 45 4.905 -1.968 -8.165 1.00 0.00 C ATOM 82 O LEU 45 5.273 -0.898 -8.685 1.00 0.00 O ATOM 83 CB LEU 45 3.077 -0.930 -6.776 1.00 0.00 C ATOM 84 CG LEU 45 1.636 -1.279 -6.875 1.00 0.00 C ATOM 85 CD1 LEU 45 1.210 -2.279 -5.813 1.00 0.00 C ATOM 86 CD2 LEU 45 0.847 0.034 -6.670 1.00 0.00 C ATOM 87 N ASN 46 4.706 -3.092 -8.867 1.00 0.00 N ATOM 88 CA ASN 46 5.510 -3.284 -10.026 1.00 0.00 C ATOM 89 C ASN 46 6.903 -2.826 -9.477 1.00 0.00 C ATOM 90 O ASN 46 7.518 -2.044 -10.187 1.00 0.00 O ATOM 91 CB ASN 46 5.122 -2.331 -11.209 1.00 0.00 C ATOM 92 CG ASN 46 4.031 -2.890 -12.031 1.00 0.00 C ATOM 93 OD1 ASN 46 3.479 -3.948 -11.732 1.00 0.00 O ATOM 94 ND2 ASN 46 3.625 -2.254 -13.112 1.00 0.00 N ATOM 95 N GLY 47 7.488 -3.576 -8.532 1.00 0.00 N ATOM 96 CA GLY 47 8.692 -3.051 -7.839 1.00 0.00 C ATOM 97 C GLY 47 9.485 -2.013 -8.697 1.00 0.00 C ATOM 98 O GLY 47 10.294 -2.391 -9.544 1.00 0.00 O ATOM 99 N GLY 48 9.521 -0.790 -8.105 1.00 0.00 N ATOM 100 CA GLY 48 10.090 0.437 -8.676 1.00 0.00 C ATOM 101 C GLY 48 9.029 1.477 -9.219 1.00 0.00 C ATOM 102 O GLY 48 9.469 2.600 -9.476 1.00 0.00 O ATOM 103 N LEU 49 7.783 1.101 -9.558 1.00 0.00 N ATOM 104 CA LEU 49 6.831 2.036 -10.156 1.00 0.00 C ATOM 105 C LEU 49 5.854 2.669 -9.142 1.00 0.00 C ATOM 106 O LEU 49 5.284 1.970 -8.303 1.00 0.00 O ATOM 107 CB LEU 49 6.059 1.250 -11.256 1.00 0.00 C ATOM 108 CG LEU 49 5.252 2.010 -12.328 1.00 0.00 C ATOM 109 CD1 LEU 49 6.113 3.052 -13.024 1.00 0.00 C ATOM 110 CD2 LEU 49 4.737 1.003 -13.341 1.00 0.00 C ATOM 111 N GLU 50 5.629 3.968 -9.341 1.00 0.00 N ATOM 112 CA GLU 50 4.634 4.699 -8.492 1.00 0.00 C ATOM 113 C GLU 50 3.219 4.487 -9.116 1.00 0.00 C ATOM 114 O GLU 50 2.948 4.818 -10.297 1.00 0.00 O ATOM 115 CB GLU 50 4.881 6.184 -8.499 1.00 0.00 C ATOM 116 CG GLU 50 3.861 6.974 -7.607 1.00 0.00 C ATOM 117 CD GLU 50 3.999 8.462 -7.619 1.00 0.00 C ATOM 118 OE1 GLU 50 3.916 8.913 -8.786 1.00 0.00 O ATOM 119 OE2 GLU 50 4.183 9.137 -6.620 1.00 0.00 O ATOM 120 N LYS 51 2.373 3.886 -8.348 1.00 0.00 N ATOM 121 CA LYS 51 0.974 3.663 -8.661 1.00 0.00 C ATOM 122 C LYS 51 0.101 3.932 -7.425 1.00 0.00 C ATOM 123 O LYS 51 0.467 3.561 -6.307 1.00 0.00 O ATOM 124 CB LYS 51 0.761 2.272 -9.193 1.00 0.00 C ATOM 125 CG LYS 51 1.142 2.068 -10.627 1.00 0.00 C ATOM 126 CD LYS 51 0.676 0.751 -11.191 1.00 0.00 C ATOM 127 CE LYS 51 1.582 -0.417 -10.805 1.00 0.00 C ATOM 128 NZ LYS 51 0.872 -1.668 -11.025 1.00 0.00 N ATOM 129 N THR 52 -1.101 4.505 -7.588 1.00 0.00 N ATOM 130 CA THR 52 -2.005 4.847 -6.451 1.00 0.00 C ATOM 131 C THR 52 -3.239 3.907 -6.428 1.00 0.00 C ATOM 132 O THR 52 -3.889 3.764 -7.468 1.00 0.00 O ATOM 133 CB THR 52 -2.435 6.346 -6.619 1.00 0.00 C ATOM 134 OG1 THR 52 -1.388 7.303 -6.575 1.00 0.00 O ATOM 135 CG2 THR 52 -3.457 6.750 -5.501 1.00 0.00 C ATOM 136 N PHE 53 -3.683 3.464 -5.238 1.00 0.00 N ATOM 137 CA PHE 53 -4.835 2.565 -5.038 1.00 0.00 C ATOM 138 C PHE 53 -5.501 2.742 -3.613 1.00 0.00 C ATOM 139 O PHE 53 -4.900 3.368 -2.751 1.00 0.00 O ATOM 140 CB PHE 53 -4.270 1.134 -5.219 1.00 0.00 C ATOM 141 CG PHE 53 -3.064 0.862 -4.357 1.00 0.00 C ATOM 142 CD1 PHE 53 -1.787 1.172 -4.842 1.00 0.00 C ATOM 143 CD2 PHE 53 -3.141 0.314 -3.077 1.00 0.00 C ATOM 144 CE1 PHE 53 -0.645 0.965 -4.063 1.00 0.00 C ATOM 145 CE2 PHE 53 -2.016 0.113 -2.272 1.00 0.00 C ATOM 146 CZ PHE 53 -0.749 0.431 -2.778 1.00 0.00 C ATOM 147 N ARG 54 -6.592 1.986 -3.285 1.00 0.00 N ATOM 148 CA ARG 54 -7.367 2.067 -2.008 1.00 0.00 C ATOM 149 C ARG 54 -7.205 0.807 -1.053 1.00 0.00 C ATOM 150 O ARG 54 -7.464 -0.327 -1.570 1.00 0.00 O ATOM 151 CB ARG 54 -8.800 2.254 -2.432 1.00 0.00 C ATOM 152 CG ARG 54 -9.339 3.591 -2.780 1.00 0.00 C ATOM 153 CD ARG 54 -10.859 3.481 -2.816 1.00 0.00 C ATOM 154 NE ARG 54 -11.251 3.344 -4.217 1.00 0.00 N ATOM 155 CZ ARG 54 -11.364 4.504 -4.906 1.00 0.00 C ATOM 156 NH1 ARG 54 -11.538 5.661 -4.265 1.00 0.00 H ATOM 157 NH2 ARG 54 -11.197 4.430 -6.238 1.00 0.00 H ATOM 158 N LEU 55 -6.968 0.875 0.334 1.00 0.00 N ATOM 159 CA LEU 55 -6.777 -0.352 1.245 1.00 0.00 C ATOM 160 C LEU 55 -6.725 -0.228 2.854 1.00 0.00 C ATOM 161 O LEU 55 -6.757 0.896 3.344 1.00 0.00 O ATOM 162 CB LEU 55 -5.453 -1.000 0.835 1.00 0.00 C ATOM 163 CG LEU 55 -5.470 -1.770 -0.480 1.00 0.00 C ATOM 164 CD1 LEU 55 -4.161 -2.516 -0.588 1.00 0.00 C ATOM 165 CD2 LEU 55 -6.621 -2.773 -0.559 1.00 0.00 C ATOM 166 N GLN 56 -6.809 -1.338 3.721 1.00 0.00 N ATOM 167 CA GLN 56 -6.623 -1.583 5.239 1.00 0.00 C ATOM 168 C GLN 56 -6.730 -3.071 5.908 1.00 0.00 C ATOM 169 O GLN 56 -7.827 -3.641 5.819 1.00 0.00 O ATOM 170 CB GLN 56 -7.574 -0.665 6.009 1.00 0.00 C ATOM 171 CG GLN 56 -9.031 -0.992 5.885 1.00 0.00 C ATOM 172 CD GLN 56 -9.876 0.186 6.330 1.00 0.00 C ATOM 173 OE1 GLN 56 -11.050 0.040 6.681 1.00 0.00 O ATOM 174 NE2 GLN 56 -9.374 1.408 6.327 1.00 0.00 N ATOM 175 N ALA 57 -5.715 -3.643 6.704 1.00 0.00 N ATOM 176 CA ALA 57 -5.651 -4.974 7.481 1.00 0.00 C ATOM 177 C ALA 57 -4.164 -5.439 7.902 1.00 0.00 C ATOM 178 O ALA 57 -3.258 -4.599 7.864 1.00 0.00 O ATOM 179 CB ALA 57 -6.294 -6.039 6.579 1.00 0.00 C ATOM 180 N GLN 58 -3.938 -6.644 8.501 1.00 0.00 N ATOM 181 CA GLN 58 -2.649 -7.332 8.897 1.00 0.00 C ATOM 182 C GLN 58 -1.364 -6.458 9.205 1.00 0.00 C ATOM 183 O GLN 58 -1.440 -5.512 9.996 1.00 0.00 O ATOM 184 CB GLN 58 -2.429 -8.455 7.838 1.00 0.00 C ATOM 185 CG GLN 58 -3.536 -9.497 8.022 1.00 0.00 C ATOM 186 CD GLN 58 -3.368 -10.417 9.245 1.00 0.00 C ATOM 187 OE1 GLN 58 -4.280 -10.320 10.214 1.00 0.00 O ATOM 188 NE2 GLN 58 -2.373 -11.292 9.335 1.00 0.00 N ATOM 189 N GLN 59 -0.190 -7.056 8.846 1.00 0.00 N ATOM 190 CA GLN 59 1.149 -6.454 9.129 1.00 0.00 C ATOM 191 C GLN 59 1.955 -6.099 7.847 1.00 0.00 C ATOM 192 O GLN 59 3.054 -5.566 8.023 1.00 0.00 O ATOM 193 CB GLN 59 1.974 -7.307 10.129 1.00 0.00 C ATOM 194 CG GLN 59 1.459 -7.119 11.571 1.00 0.00 C ATOM 195 CD GLN 59 2.288 -7.965 12.595 1.00 0.00 C ATOM 196 OE1 GLN 59 1.669 -8.920 13.063 1.00 0.00 O ATOM 197 NE2 GLN 59 3.479 -7.520 12.809 1.00 0.00 N ATOM 198 N TYR 60 1.465 -6.535 6.647 1.00 0.00 N ATOM 199 CA TYR 60 2.101 -6.301 5.396 1.00 0.00 C ATOM 200 C TYR 60 0.923 -6.008 4.410 1.00 0.00 C ATOM 201 O TYR 60 -0.279 -6.105 4.737 1.00 0.00 O ATOM 202 CB TYR 60 3.001 -7.486 5.002 1.00 0.00 C ATOM 203 CG TYR 60 2.277 -8.717 4.667 1.00 0.00 C ATOM 204 CD1 TYR 60 1.819 -9.504 5.688 1.00 0.00 C ATOM 205 CD2 TYR 60 2.015 -9.029 3.356 1.00 0.00 C ATOM 206 CE1 TYR 60 1.074 -10.626 5.408 1.00 0.00 C ATOM 207 CE2 TYR 60 1.280 -10.158 3.059 1.00 0.00 C ATOM 208 CZ TYR 60 0.802 -10.955 4.070 1.00 0.00 C ATOM 209 OH TYR 60 -0.030 -12.024 3.767 1.00 0.00 H ATOM 210 N HIS 61 1.286 -5.514 3.250 1.00 0.00 N ATOM 211 CA HIS 61 0.357 -5.098 2.222 1.00 0.00 C ATOM 212 C HIS 61 -0.082 -6.263 1.294 1.00 0.00 C ATOM 213 O HIS 61 0.747 -7.062 0.849 1.00 0.00 O ATOM 214 CB HIS 61 1.041 -4.055 1.359 1.00 0.00 C ATOM 215 CG HIS 61 1.809 -3.007 2.045 1.00 0.00 C ATOM 216 ND1 HIS 61 3.129 -2.742 1.746 1.00 0.00 N ATOM 217 CD2 HIS 61 1.414 -2.137 3.002 1.00 0.00 C ATOM 218 CE1 HIS 61 3.518 -1.745 2.551 1.00 0.00 C ATOM 219 NE2 HIS 61 2.498 -1.353 3.313 1.00 0.00 N ATOM 220 N ALA 62 -1.277 -6.112 0.722 1.00 0.00 N ATOM 221 CA ALA 62 -1.874 -7.095 -0.182 1.00 0.00 C ATOM 222 C ALA 62 -2.275 -6.426 -1.541 1.00 0.00 C ATOM 223 O ALA 62 -3.268 -5.688 -1.594 1.00 0.00 O ATOM 224 CB ALA 62 -3.100 -7.705 0.517 1.00 0.00 C ATOM 225 N LEU 63 -1.452 -6.630 -2.570 1.00 0.00 N ATOM 226 CA LEU 63 -1.727 -6.136 -3.915 1.00 0.00 C ATOM 227 C LEU 63 -2.888 -6.923 -4.562 1.00 0.00 C ATOM 228 O LEU 63 -3.036 -8.135 -4.342 1.00 0.00 O ATOM 229 CB LEU 63 -0.438 -6.250 -4.734 1.00 0.00 C ATOM 230 CG LEU 63 0.795 -5.989 -3.907 1.00 0.00 C ATOM 231 CD1 LEU 63 0.516 -4.870 -2.898 1.00 0.00 C ATOM 232 CD2 LEU 63 1.188 -7.266 -3.158 1.00 0.00 C ATOM 233 N THR 64 -3.569 -6.299 -5.523 1.00 0.00 N ATOM 234 CA THR 64 -4.639 -6.947 -6.250 1.00 0.00 C ATOM 235 C THR 64 -4.358 -6.930 -7.760 1.00 0.00 C ATOM 236 O THR 64 -3.763 -5.981 -8.297 1.00 0.00 O ATOM 237 CB THR 64 -5.970 -6.341 -5.861 1.00 0.00 C ATOM 238 OG1 THR 64 -6.374 -6.407 -4.505 1.00 0.00 O ATOM 239 CG2 THR 64 -7.161 -6.938 -6.705 1.00 0.00 C ATOM 240 N VAL 65 -4.659 -8.034 -8.433 1.00 0.00 N ATOM 241 CA VAL 65 -4.539 -8.157 -9.876 1.00 0.00 C ATOM 242 C VAL 65 -5.006 -6.877 -10.651 1.00 0.00 C ATOM 243 O VAL 65 -4.254 -6.454 -11.529 1.00 0.00 O ATOM 244 CB VAL 65 -5.311 -9.400 -10.331 1.00 0.00 C ATOM 245 CG1 VAL 65 -5.536 -9.637 -11.835 1.00 0.00 C ATOM 246 CG2 VAL 65 -4.866 -10.725 -9.662 1.00 0.00 C ATOM 247 N GLY 66 -6.073 -6.187 -10.245 1.00 0.00 N ATOM 248 CA GLY 66 -6.498 -4.981 -10.926 1.00 0.00 C ATOM 249 C GLY 66 -5.468 -3.856 -10.803 1.00 0.00 C ATOM 250 O GLY 66 -5.151 -3.262 -11.835 1.00 0.00 O ATOM 251 N ASP 67 -5.095 -3.405 -9.628 1.00 0.00 N ATOM 252 CA ASP 67 -4.090 -2.412 -9.405 1.00 0.00 C ATOM 253 C ASP 67 -2.773 -2.765 -10.174 1.00 0.00 C ATOM 254 O ASP 67 -2.271 -1.890 -10.904 1.00 0.00 O ATOM 255 CB ASP 67 -3.850 -2.154 -7.907 1.00 0.00 C ATOM 256 CG ASP 67 -5.056 -1.481 -7.275 1.00 0.00 C ATOM 257 OD1 ASP 67 -5.785 -0.710 -7.939 1.00 0.00 O ATOM 258 OD2 ASP 67 -5.259 -1.767 -6.063 1.00 0.00 O ATOM 259 N GLN 68 -2.123 -3.863 -9.847 1.00 0.00 N ATOM 260 CA GLN 68 -0.956 -4.286 -10.564 1.00 0.00 C ATOM 261 C GLN 68 -1.341 -5.366 -11.633 1.00 0.00 C ATOM 262 O GLN 68 -1.566 -6.527 -11.371 1.00 0.00 O ATOM 263 CB GLN 68 -0.088 -4.927 -9.542 1.00 0.00 C ATOM 264 CG GLN 68 0.514 -6.294 -9.652 1.00 0.00 C ATOM 265 CD GLN 68 1.787 -6.465 -8.843 1.00 0.00 C ATOM 266 OE1 GLN 68 1.870 -7.393 -8.007 1.00 0.00 O ATOM 267 NE2 GLN 68 2.766 -5.564 -9.121 1.00 0.00 N ATOM 268 N GLY 69 -1.435 -4.849 -12.794 1.00 0.00 N ATOM 269 CA GLY 69 -1.760 -5.609 -13.970 1.00 0.00 C ATOM 270 C GLY 69 -0.604 -5.554 -14.973 1.00 0.00 C ATOM 271 O GLY 69 -0.452 -6.464 -15.788 1.00 0.00 O ATOM 272 OXT GLY 69 -0.079 -4.437 -15.138 1.00 0.00 O TER END ########################## # # # ACE results: # # # ########################## Number of atoms possible to evaluate: 263 MEASURES: ANGLES RMS : model <-> target (MC: PHI+PSI) DIHED RMS: ARMSMC PC NP PP TN ALL . . . . . . . . . . 93.72 30.8 26 22.2 117 ARMSMC SECONDARY STRUCTURE . . 92.07 16.7 12 18.2 66 ARMSMC SURFACE . . . . . . . . 94.05 37.5 16 18.8 85 ARMSMC BURIED . . . . . . . . 93.20 20.0 10 31.2 32 ARMSMC (SC: CHI1) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 106.05 37.5 8 17.4 46 ARMSSC1 RELIABLE SIDE CHAINS . 106.05 37.5 8 19.5 41 ARMSSC1 SECONDARY STRUCTURE . . 100.55 25.0 4 13.8 29 ARMSSC1 SURFACE . . . . . . . . 111.27 50.0 4 12.5 32 ARMSSC1 BURIED . . . . . . . . 100.55 25.0 4 28.6 14 ARMSSC1 (SC: CHI2) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 114.54 20.0 5 18.5 27 ARMSSC2 RELIABLE SIDE CHAINS . 127.41 0.0 4 18.2 22 ARMSSC2 SECONDARY STRUCTURE . . 135.29 0.0 3 17.6 17 ARMSSC2 SURFACE . . . . . . . . 73.08 50.0 2 10.0 20 ARMSSC2 BURIED . . . . . . . . 135.29 0.0 3 42.9 7 ARMSSC2 (SC: CHI3) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 136.33 0.0 2 11.8 17 ARMSSC3 RELIABLE SIDE CHAINS . 136.33 0.0 2 16.7 12 ARMSSC3 SECONDARY STRUCTURE . . 143.20 0.0 1 8.3 12 ARMSSC3 SURFACE . . . . . . . . 129.09 0.0 1 7.1 14 ARMSSC3 BURIED . . . . . . . . 143.20 0.0 1 33.3 3 ARMSSC3 (SC: CHI4) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 0.00 0.0 0 0.0 6 ARMSSC4 RELIABLE SIDE CHAINS . 0.00 0.0 0 0.0 6 ARMSSC4 SECONDARY STRUCTURE . . 0.00 0.0 0 0.0 5 ARMSSC4 SURFACE . . . . . . . . 0.00 0.0 0 0.0 6 ARMSSC4 BURIED . . . . . . . . 0.00 0.0 0 0.0 0 ARMSSC4 COORDINATES RMS : model <-> target TEST (CA) RMS = 6.94 (Number of atoms: 33) (CA) RMS: CRMSCA NP PP TN ALL . . . . . . . . . . 6.94 33 54.1 61 CRMSCA CRN = ALL/NP . . . . . 0.2103 CRMSCA SECONDARY STRUCTURE . . 5.31 11 33.3 33 CRMSCA SURFACE . . . . . . . . 7.43 24 53.3 45 CRMSCA BURIED . . . . . . . . 5.43 9 56.2 16 CRMSCA (MC) RMS: CRMSMC NP PP TN ALL . . . . . . . . . . 6.95 161 53.8 299 CRMSMC SECONDARY STRUCTURE . . 5.52 54 33.1 163 CRMSMC SURFACE . . . . . . . . 7.42 117 53.2 220 CRMSMC BURIED . . . . . . . . 5.49 44 55.7 79 CRMSMC (SC) RMS: CRMSSC NP PP TN ALL . . . . . . . . . . 9.24 131 17.6 745 CRMSSC RELIABLE SIDE CHAINS . 8.72 107 15.3 699 CRMSSC SECONDARY STRUCTURE . . 8.14 45 10.5 429 CRMSSC SURFACE . . . . . . . . 9.88 98 17.7 555 CRMSSC BURIED . . . . . . . . 7.03 33 17.4 190 CRMSSC (ALL) RMS: CRMSALL NP PP TN ALL . . . . . . . . . . 8.10 263 26.6 989 CRMSALL SECONDARY STRUCTURE . . 6.85 89 15.9 561 CRMSALL SURFACE . . . . . . . . 8.69 194 26.4 735 CRMSALL BURIED . . . . . . . . 6.14 69 27.2 254 CRMSALL Accuracy of estimates of atomic coordinate errors: model <-> target (CA) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.341 1.000 0.500 33 54.1 61 ERRCA SECONDARY STRUCTURE . . 5.012 1.000 0.500 11 33.3 33 ERRCA SURFACE . . . . . . . . 6.830 1.000 0.500 24 53.3 45 ERRCA BURIED . . . . . . . . 5.037 1.000 0.500 9 56.2 16 ERRCA (MC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.336 1.000 0.500 161 53.8 299 ERRMC SECONDARY STRUCTURE . . 5.149 1.000 0.500 54 33.1 163 ERRMC SURFACE . . . . . . . . 6.826 1.000 0.500 117 53.2 220 ERRMC BURIED . . . . . . . . 5.032 1.000 0.500 44 55.7 79 ERRMC (SC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 8.482 1.000 0.500 131 17.6 745 ERRSC RELIABLE SIDE CHAINS . 8.146 1.000 0.500 107 15.3 699 ERRSC SECONDARY STRUCTURE . . 7.716 1.000 0.500 45 10.5 429 ERRSC SURFACE . . . . . . . . 9.127 1.000 0.500 98 17.7 555 ERRSC BURIED . . . . . . . . 6.569 1.000 0.500 33 17.4 190 ERRSC (ALL) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 7.321 1.000 0.500 263 26.6 989 ERRALL SECONDARY STRUCTURE . . 6.317 1.000 0.500 89 15.9 561 ERRALL SURFACE . . . . . . . . 7.917 1.000 0.500 194 26.4 735 ERRALL BURIED . . . . . . . . 5.647 1.000 0.500 69 27.2 254 ERRALL DISTANCES: Percent of total atoms where distance (target <-> model) in global superposition is less than: 1 , 2 , 3 , 5 , 10 Angstroms D < 1 D < 2 D < 3 D < 5 D < 10 NP TN CA (N) 0 1 4 12 30 33 61 DISTCA CA (P) 0.00 1.64 6.56 19.67 49.18 61 DISTCA CA (RMS) 0.00 1.71 2.39 3.58 6.19 DISTCA ALL (N) 0 6 22 78 214 263 989 DISTALL ALL (P) 0.00 0.61 2.22 7.89 21.64 989 DISTALL ALL (RMS) 0.00 1.66 2.36 3.69 6.48 DISTALL END of the results output