####################################################### # # # 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 39 ( 304), selected 31 , name T0564TS319_1-D1 # Molecule2: number of CA atoms 61 ( 989), selected 31 , name T0564-D1.pdb # PARAMETERS: -3 -ie -o1 -sda -d:4 -swap T0564TS319_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: 27 37 - 63 4.76 7.76 LCS_AVERAGE: 42.25 LCS - RMSD CUTOFF 2.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 10 49 - 58 1.56 7.49 LONGEST_CONTINUOUS_SEGMENT: 10 50 - 59 1.96 8.12 LCS_AVERAGE: 12.96 LCS - RMSD CUTOFF 1.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 9 50 - 58 0.86 7.65 LCS_AVERAGE: 10.26 LCS_GDT MOLECULE-1 MOLECULE-2 LCS_DETAILS GDT_DETAILS TOTAL NUMBER OF RESIDUE PAIRS: 31 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 27 3 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT Y 38 Y 38 6 8 27 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT E 39 E 39 6 8 27 4 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT A 40 A 40 6 8 27 4 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT S 41 S 41 6 8 27 4 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT F 42 F 42 6 8 27 4 7 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT K 43 K 43 5 8 27 3 4 8 10 12 14 16 16 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT P 44 P 44 4 8 27 3 4 7 10 12 14 16 16 18 19 21 22 23 24 25 26 26 26 29 29 LCS_GDT L 45 L 45 4 5 27 3 4 4 4 7 8 10 15 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT N 46 N 46 4 6 27 3 4 4 4 6 7 9 11 14 16 16 19 20 21 23 24 26 26 27 28 LCS_GDT G 47 G 47 5 7 27 4 5 6 7 9 11 12 14 16 17 18 20 22 23 25 26 26 26 29 29 LCS_GDT G 48 G 48 5 8 27 4 5 6 9 10 12 14 16 18 19 21 22 23 24 25 26 26 26 29 29 LCS_GDT L 49 L 49 5 10 27 4 5 7 9 12 14 16 16 18 19 21 22 23 24 25 26 26 26 29 29 LCS_GDT E 50 E 50 9 10 27 4 8 9 12 13 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT K 51 K 51 9 10 27 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT T 52 T 52 9 10 27 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT F 53 F 53 9 10 27 4 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT R 54 R 54 9 10 27 4 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT L 55 L 55 9 10 27 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT Q 56 Q 56 9 10 27 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT A 57 A 57 9 10 27 4 8 11 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT Q 58 Q 58 9 10 27 4 8 11 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT Q 59 Q 59 3 10 27 3 3 4 4 4 6 9 9 17 19 21 22 23 24 25 26 26 26 29 29 LCS_GDT Y 60 Y 60 3 4 27 3 3 4 4 4 5 7 12 16 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT H 61 H 61 3 5 27 1 3 4 11 12 14 14 17 18 20 21 22 23 24 25 26 26 26 29 29 LCS_GDT A 62 A 62 6 6 27 3 4 6 11 12 14 14 17 18 20 20 22 23 24 25 26 26 26 29 29 LCS_GDT L 63 L 63 6 6 27 3 5 6 6 9 9 14 15 18 18 19 21 22 24 25 26 26 26 29 29 LCS_GDT T 64 T 64 6 6 18 4 5 6 6 6 6 9 10 12 15 15 18 20 21 24 25 25 26 29 29 LCS_GDT V 65 V 65 6 6 18 4 5 6 6 6 6 9 10 12 12 15 16 18 20 21 23 23 26 29 29 LCS_GDT G 66 G 66 6 6 17 4 5 6 6 6 6 9 10 12 12 15 16 18 20 21 22 23 24 26 26 LCS_GDT D 67 D 67 6 6 17 4 5 6 6 6 6 7 9 9 12 13 16 18 20 21 23 25 26 29 29 LCS_AVERAGE LCS_A: 21.82 ( 10.26 12.96 42.25 ) 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 5 8 12 14 14 15 16 17 18 20 21 22 23 24 25 26 26 26 29 29 GDT PERCENT_AT 8.20 13.11 19.67 22.95 22.95 24.59 26.23 27.87 29.51 32.79 34.43 36.07 37.70 39.34 40.98 42.62 42.62 42.62 47.54 47.54 GDT RMS_LOCAL 0.22 0.54 0.90 1.25 1.25 1.53 1.74 2.21 2.43 2.89 3.15 3.36 3.57 3.87 4.15 4.48 4.48 4.48 6.14 6.14 GDT RMS_ALL_AT 9.28 9.10 9.33 8.96 8.96 8.68 8.88 8.10 8.25 8.09 8.84 8.31 8.23 8.13 7.85 7.75 7.75 7.75 6.89 6.89 # Checking swapping # possible swapping detected: Y 38 Y 38 # possible swapping detected: E 39 E 39 # possible swapping detected: F 42 F 42 # 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 1.319 0 0.228 1.101 4.674 75.119 62.165 LGA Y 38 Y 38 1.902 0 0.069 0.127 2.291 72.857 72.937 LGA E 39 E 39 2.457 0 0.115 0.731 3.667 57.500 57.354 LGA A 40 A 40 3.014 0 0.083 0.095 4.011 65.238 59.619 LGA S 41 S 41 1.285 0 0.174 0.626 2.695 69.048 71.746 LGA F 42 F 42 2.883 0 0.040 0.117 3.892 54.167 64.892 LGA K 43 K 43 5.412 0 0.583 0.955 11.788 26.310 15.185 LGA P 44 P 44 8.268 0 0.154 0.170 11.526 7.976 4.626 LGA L 45 L 45 5.746 0 0.060 0.057 9.364 11.190 30.952 LGA N 46 N 46 12.503 0 0.106 1.041 15.320 0.119 0.060 LGA G 47 G 47 12.821 0 0.516 0.516 12.821 0.000 0.000 LGA G 48 G 48 10.669 0 0.098 0.098 11.254 1.071 1.071 LGA L 49 L 49 7.947 0 0.126 0.156 10.778 11.071 6.190 LGA E 50 E 50 3.684 0 0.053 1.111 5.282 40.714 52.487 LGA K 51 K 51 1.822 0 0.231 0.954 5.743 75.119 64.021 LGA T 52 T 52 1.220 0 0.177 1.099 3.022 79.286 73.333 LGA F 53 F 53 0.458 0 0.178 0.205 0.778 95.238 92.208 LGA R 54 R 54 0.770 0 0.055 1.043 4.284 88.214 77.143 LGA L 55 L 55 1.170 0 0.013 0.056 1.512 85.952 81.548 LGA Q 56 Q 56 1.109 0 0.039 0.243 1.977 81.429 83.492 LGA A 57 A 57 1.140 0 0.624 0.593 3.046 73.571 75.143 LGA Q 58 Q 58 1.477 0 0.660 0.503 7.271 61.905 42.804 LGA Q 59 Q 59 7.139 0 0.048 0.060 13.686 14.881 6.772 LGA Y 60 Y 60 6.061 0 0.594 1.599 15.049 33.571 11.587 LGA H 61 H 61 3.670 0 0.672 1.543 7.904 41.786 26.190 LGA A 62 A 62 3.687 0 0.680 0.620 5.541 36.548 42.190 LGA L 63 L 63 6.514 0 0.127 0.803 10.177 10.238 12.321 LGA T 64 T 64 13.178 0 0.151 1.054 15.081 0.000 0.000 LGA V 65 V 65 18.181 0 0.072 0.127 22.313 0.000 0.000 LGA G 66 G 66 20.752 0 0.251 0.251 20.752 0.000 0.000 LGA D 67 D 67 16.039 0 0.066 1.064 17.110 0.000 0.000 # RMSD_GDC results: CA MC common percent ALL common percent GDC_mc GDC_all NUMBER_OF_ATOMS_AA: 31 124 124 100.00 250 250 100.00 61 SUMMARY(RMSD_GDC): 6.824 6.701 7.293 20.822 19.476 #CA N1 N2 DIST N RMSD GDT_TS LGA_S3 LGA_Q SUMMARY(GDT) 39 61 4.0 17 2.21 26.639 23.803 0.737 LGA_LOCAL RMSD: 2.206 Number of atoms: 17 under DIST: 4.00 LGA_ASGN_ATOMS RMSD: 8.099 Number of assigned atoms: 31 Std_ASGN_ATOMS RMSD: 6.824 Standard rmsd on all 31 assigned CA atoms Unitary ROTATION matrix and the SHIFT vector superimpose molecules (1=>2) X_new = -0.921227 * X + 0.312854 * Y + -0.231222 * Z + -3.466879 Y_new = -0.233109 * X + 0.031914 * Y + 0.971927 * Z + 10.717757 Z_new = 0.311450 * X + 0.949265 * Y + 0.043529 * Z + 33.695419 Euler angles from the ROTATION matrix. Conventions XYZ and ZXZ: Phi Theta Psi [DEG: Phi Theta Psi ] XYZ: -2.893753 -0.316719 1.524973 [DEG: -165.7999 -18.1466 87.3745 ] ZXZ: -2.908034 1.527254 0.317030 [DEG: -166.6181 87.5052 18.1645 ] # 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: T0564TS319_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 T0564TS319_1-D1.lga REMARK #CA N1 N2 DIST N RMSD LGA_S3 RMSD_global REMARK SUMMARY: 39 61 4.0 17 2.21 23.803 6.82 REMARK ---------------------------------------------------------- MOLECULE T0564TS319_1-D1 REMARK This file has been preprocessed by preprocess_pdbv2.1.00.100503REMARK PFRMAT TS REMARK TARGET T0564 REMARK MODEL 1 REMARK PARENT N/A ATOM 1 N VAL 29 -26.931 17.786 5.498 1.00 0.00 N ATOM 2 CA VAL 29 -26.873 19.135 4.890 1.00 0.00 C ATOM 3 C VAL 29 -26.887 19.066 3.403 1.00 0.00 C ATOM 4 O VAL 29 -27.906 19.342 2.769 1.00 0.00 O ATOM 5 H1 VAL 29 -26.929 17.696 6.394 1.00 0.00 H ATOM 6 H2 VAL 29 -26.285 17.185 5.322 1.00 0.00 H ATOM 7 H3 VAL 29 -27.633 17.248 5.333 1.00 0.00 H ATOM 8 CB VAL 29 -25.628 19.911 5.357 1.00 0.00 C ATOM 9 CG1 VAL 29 -25.487 21.210 4.578 1.00 0.00 C ATOM 10 CG2 VAL 29 -25.702 20.188 6.851 1.00 0.00 C ATOM 11 N SER 30 -25.733 18.688 2.819 1.00 0.00 N ATOM 12 CA SER 30 -25.582 18.669 1.396 1.00 0.00 C ATOM 13 C SER 30 -26.287 17.489 0.809 1.00 0.00 C ATOM 14 O SER 30 -26.338 16.384 1.365 1.00 0.00 O ATOM 16 CB SER 30 -24.101 18.649 1.015 1.00 0.00 C ATOM 18 OG SER 30 -23.937 18.534 -0.388 1.00 0.00 O ATOM 19 N PRO 31 -26.893 17.792 -0.304 1.00 0.00 N ATOM 20 CA PRO 31 -27.617 16.855 -1.120 1.00 0.00 C ATOM 21 C PRO 31 -26.748 15.894 -1.869 1.00 0.00 C ATOM 22 O PRO 31 -27.217 14.797 -2.167 1.00 0.00 O ATOM 23 CB PRO 31 -28.392 17.740 -2.100 1.00 0.00 C ATOM 24 CD PRO 31 -27.063 19.198 -0.744 1.00 0.00 C ATOM 25 CG PRO 31 -27.632 19.024 -2.125 1.00 0.00 C ATOM 26 N ALA 32 -25.495 16.269 -2.199 1.00 0.00 N ATOM 27 CA ALA 32 -24.680 15.338 -2.924 1.00 0.00 C ATOM 28 C ALA 32 -23.438 15.071 -2.138 1.00 0.00 C ATOM 29 O ALA 32 -22.889 15.955 -1.482 1.00 0.00 O ATOM 31 CB ALA 32 -24.355 15.882 -4.307 1.00 0.00 C ATOM 32 N GLY 33 -22.976 13.809 -2.188 1.00 0.00 N ATOM 33 CA GLY 33 -21.774 13.430 -1.510 1.00 0.00 C ATOM 34 C GLY 33 -21.004 12.569 -2.458 1.00 0.00 C ATOM 35 O GLY 33 -21.572 11.992 -3.384 1.00 0.00 O ATOM 37 N THR 34 -19.678 12.454 -2.246 1.00 0.00 N ATOM 38 CA THR 34 -18.865 11.644 -3.105 1.00 0.00 C ATOM 39 C THR 34 -18.483 10.408 -2.342 1.00 0.00 C ATOM 40 O THR 34 -18.947 10.195 -1.224 1.00 0.00 O ATOM 42 CB THR 34 -17.618 12.409 -3.587 1.00 0.00 C ATOM 44 OG1 THR 34 -16.765 12.689 -2.470 1.00 0.00 O ATOM 45 CG2 THR 34 -18.019 13.726 -4.234 1.00 0.00 C ATOM 46 N SER 35 -17.651 9.540 -2.954 1.00 0.00 N ATOM 47 CA SER 35 -17.282 8.260 -2.397 1.00 0.00 C ATOM 48 C SER 35 -16.334 8.382 -1.241 1.00 0.00 C ATOM 49 O SER 35 -15.507 9.290 -1.178 1.00 0.00 O ATOM 51 CB SER 35 -16.655 7.369 -3.471 1.00 0.00 C ATOM 53 OG SER 35 -15.411 7.892 -3.904 1.00 0.00 O ATOM 54 N MET 36 -16.489 7.462 -0.259 1.00 0.00 N ATOM 55 CA MET 36 -15.622 7.357 0.879 1.00 0.00 C ATOM 56 C MET 36 -14.287 6.764 0.514 1.00 0.00 C ATOM 57 O MET 36 -13.264 7.210 1.035 1.00 0.00 O ATOM 59 CB MET 36 -16.276 6.516 1.976 1.00 0.00 C ATOM 60 SD MET 36 -18.055 6.276 4.087 1.00 0.00 S ATOM 61 CE MET 36 -18.857 4.882 3.299 1.00 0.00 C ATOM 62 CG MET 36 -17.464 7.187 2.648 1.00 0.00 C ATOM 63 N ARG 37 -14.238 5.773 -0.400 1.00 0.00 N ATOM 64 CA ARG 37 -13.041 5.007 -0.682 1.00 0.00 C ATOM 65 C ARG 37 -11.896 5.904 -1.046 1.00 0.00 C ATOM 66 O ARG 37 -12.068 6.911 -1.725 1.00 0.00 O ATOM 68 CB ARG 37 -13.300 4.005 -1.809 1.00 0.00 C ATOM 69 CD ARG 37 -14.432 1.904 -2.585 1.00 0.00 C ATOM 71 NE ARG 37 -15.319 0.799 -2.231 1.00 0.00 N ATOM 72 CG ARG 37 -14.214 2.856 -1.420 1.00 0.00 C ATOM 73 CZ ARG 37 -15.629 -0.203 -3.048 1.00 0.00 C ATOM 76 NH1 ARG 37 -16.445 -1.164 -2.640 1.00 0.00 H ATOM 79 NH2 ARG 37 -15.121 -0.239 -4.273 1.00 0.00 H ATOM 80 N TYR 38 -10.673 5.557 -0.581 1.00 0.00 N ATOM 81 CA TYR 38 -9.547 6.407 -0.855 1.00 0.00 C ATOM 82 C TYR 38 -8.498 5.636 -1.583 1.00 0.00 C ATOM 83 O TYR 38 -8.024 4.616 -1.088 1.00 0.00 O ATOM 85 CB TYR 38 -8.988 6.991 0.445 1.00 0.00 C ATOM 86 CG TYR 38 -9.950 7.905 1.169 1.00 0.00 C ATOM 88 OH TYR 38 -12.598 10.407 3.173 1.00 0.00 H ATOM 89 CZ TYR 38 -11.722 9.580 2.509 1.00 0.00 C ATOM 90 CD1 TYR 38 -10.557 7.504 2.352 1.00 0.00 C ATOM 91 CE1 TYR 38 -11.437 8.333 3.021 1.00 0.00 C ATOM 92 CD2 TYR 38 -10.248 9.165 0.667 1.00 0.00 C ATOM 93 CE2 TYR 38 -11.126 10.007 1.323 1.00 0.00 C ATOM 94 N GLU 39 -8.085 6.131 -2.766 1.00 0.00 N ATOM 95 CA GLU 39 -7.014 5.519 -3.495 1.00 0.00 C ATOM 96 C GLU 39 -5.789 6.301 -3.159 1.00 0.00 C ATOM 97 O GLU 39 -5.705 7.501 -3.423 1.00 0.00 O ATOM 99 CB GLU 39 -7.321 5.514 -4.994 1.00 0.00 C ATOM 100 CD GLU 39 -6.603 4.834 -7.318 1.00 0.00 C ATOM 101 CG GLU 39 -6.255 4.840 -5.843 1.00 0.00 C ATOM 102 OE1 GLU 39 -7.798 4.680 -7.645 1.00 0.00 O ATOM 103 OE2 GLU 39 -5.680 4.982 -8.146 1.00 0.00 O ATOM 104 N ALA 40 -4.804 5.649 -2.525 1.00 0.00 N ATOM 105 CA ALA 40 -3.628 6.387 -2.208 1.00 0.00 C ATOM 106 C ALA 40 -2.478 5.504 -2.532 1.00 0.00 C ATOM 107 O ALA 40 -2.562 4.281 -2.419 1.00 0.00 O ATOM 109 CB ALA 40 -3.646 6.811 -0.747 1.00 0.00 C ATOM 110 N SER 41 -1.371 6.106 -2.991 1.00 0.00 N ATOM 111 CA SER 41 -0.235 5.299 -3.305 1.00 0.00 C ATOM 112 C SER 41 0.614 5.231 -2.080 1.00 0.00 C ATOM 113 O SER 41 0.573 6.127 -1.237 1.00 0.00 O ATOM 115 CB SER 41 0.523 5.881 -4.499 1.00 0.00 C ATOM 117 OG SER 41 1.075 7.149 -4.185 1.00 0.00 O ATOM 118 N PHE 42 1.412 4.158 -1.932 1.00 0.00 N ATOM 119 CA PHE 42 2.239 4.112 -0.764 1.00 0.00 C ATOM 120 C PHE 42 3.477 4.854 -1.097 1.00 0.00 C ATOM 121 O PHE 42 4.316 4.375 -1.860 1.00 0.00 O ATOM 123 CB PHE 42 2.515 2.662 -0.360 1.00 0.00 C ATOM 124 CG PHE 42 1.304 1.934 0.148 1.00 0.00 C ATOM 125 CZ PHE 42 -0.937 0.586 1.094 1.00 0.00 C ATOM 126 CD1 PHE 42 0.452 1.282 -0.727 1.00 0.00 C ATOM 127 CE1 PHE 42 -0.663 0.611 -0.260 1.00 0.00 C ATOM 128 CD2 PHE 42 1.016 1.899 1.501 1.00 0.00 C ATOM 129 CE2 PHE 42 -0.099 1.228 1.968 1.00 0.00 C ATOM 130 N LYS 43 3.615 6.057 -0.516 1.00 0.00 N ATOM 131 CA LYS 43 4.761 6.857 -0.799 1.00 0.00 C ATOM 132 C LYS 43 5.946 6.099 -0.307 1.00 0.00 C ATOM 133 O LYS 43 6.963 5.994 -0.996 1.00 0.00 O ATOM 135 CB LYS 43 4.632 8.230 -0.136 1.00 0.00 C ATOM 136 CD LYS 43 3.493 10.465 -0.051 1.00 0.00 C ATOM 137 CE LYS 43 2.432 11.358 -0.674 1.00 0.00 C ATOM 138 CG LYS 43 3.581 9.128 -0.768 1.00 0.00 C ATOM 142 NZ LYS 43 2.304 12.654 0.046 1.00 0.00 N ATOM 143 N PRO 44 5.837 5.525 0.856 1.00 0.00 N ATOM 144 CA PRO 44 6.907 4.704 1.323 1.00 0.00 C ATOM 145 C PRO 44 6.857 3.430 0.553 1.00 0.00 C ATOM 146 O PRO 44 5.820 3.125 -0.038 1.00 0.00 O ATOM 147 CB PRO 44 6.608 4.518 2.811 1.00 0.00 C ATOM 148 CD PRO 44 4.729 5.682 1.896 1.00 0.00 C ATOM 149 CG PRO 44 5.126 4.652 2.915 1.00 0.00 C ATOM 150 N LEU 45 7.970 2.682 0.534 1.00 0.00 N ATOM 151 CA LEU 45 8.049 1.462 -0.208 1.00 0.00 C ATOM 152 C LEU 45 7.050 0.530 0.373 1.00 0.00 C ATOM 153 O LEU 45 6.419 -0.261 -0.329 1.00 0.00 O ATOM 155 CB LEU 45 9.468 0.893 -0.155 1.00 0.00 C ATOM 156 CG LEU 45 10.542 1.680 -0.909 1.00 0.00 C ATOM 157 CD1 LEU 45 11.923 1.112 -0.626 1.00 0.00 C ATOM 158 CD2 LEU 45 10.264 1.673 -2.405 1.00 0.00 C ATOM 159 N ASN 46 6.877 0.614 1.696 1.00 0.00 N ATOM 160 CA ASN 46 5.976 -0.279 2.344 1.00 0.00 C ATOM 161 C ASN 46 6.534 -1.645 2.135 1.00 0.00 C ATOM 162 O ASN 46 5.798 -2.626 2.047 1.00 0.00 O ATOM 164 CB ASN 46 4.561 -0.108 1.790 1.00 0.00 C ATOM 165 CG ASN 46 3.497 -0.624 2.738 1.00 0.00 C ATOM 166 OD1 ASN 46 3.634 -0.517 3.957 1.00 0.00 O ATOM 169 ND2 ASN 46 2.430 -1.185 2.181 1.00 0.00 N ATOM 170 N GLY 47 7.876 -1.728 2.045 1.00 0.00 N ATOM 171 CA GLY 47 8.543 -2.990 1.923 1.00 0.00 C ATOM 172 C GLY 47 8.420 -3.497 0.527 1.00 0.00 C ATOM 173 O GLY 47 8.422 -4.706 0.306 1.00 0.00 O ATOM 175 N GLY 48 8.312 -2.580 -0.452 1.00 0.00 N ATOM 176 CA GLY 48 8.192 -3.005 -1.814 1.00 0.00 C ATOM 177 C GLY 48 8.230 -1.776 -2.658 1.00 0.00 C ATOM 178 O GLY 48 8.763 -0.749 -2.255 1.00 0.00 O ATOM 180 N LEU 49 7.683 -1.873 -3.882 1.00 0.00 N ATOM 181 CA LEU 49 7.611 -0.739 -4.751 1.00 0.00 C ATOM 182 C LEU 49 6.474 0.111 -4.331 1.00 0.00 C ATOM 183 O LEU 49 5.646 -0.278 -3.510 1.00 0.00 O ATOM 185 CB LEU 49 7.464 -1.187 -6.207 1.00 0.00 C ATOM 186 CG LEU 49 8.606 -2.032 -6.775 1.00 0.00 C ATOM 187 CD1 LEU 49 8.285 -2.488 -8.190 1.00 0.00 C ATOM 188 CD2 LEU 49 9.913 -1.253 -6.754 1.00 0.00 C ATOM 189 N GLU 50 6.441 1.337 -4.876 1.00 0.00 N ATOM 190 CA GLU 50 5.357 2.210 -4.570 1.00 0.00 C ATOM 191 C GLU 50 4.151 1.644 -5.255 1.00 0.00 C ATOM 192 O GLU 50 4.149 1.462 -6.472 1.00 0.00 O ATOM 194 CB GLU 50 5.673 3.637 -5.022 1.00 0.00 C ATOM 195 CD GLU 50 4.972 6.062 -5.084 1.00 0.00 C ATOM 196 CG GLU 50 4.606 4.656 -4.654 1.00 0.00 C ATOM 197 OE1 GLU 50 6.115 6.265 -5.542 1.00 0.00 O ATOM 198 OE2 GLU 50 4.114 6.962 -4.962 1.00 0.00 O ATOM 199 N LYS 51 3.086 1.340 -4.489 1.00 0.00 N ATOM 200 CA LYS 51 1.907 0.851 -5.137 1.00 0.00 C ATOM 201 C LYS 51 0.747 1.559 -4.543 1.00 0.00 C ATOM 202 O LYS 51 0.787 1.984 -3.386 1.00 0.00 O ATOM 204 CB LYS 51 1.797 -0.667 -4.976 1.00 0.00 C ATOM 205 CD LYS 51 2.718 -2.944 -5.496 1.00 0.00 C ATOM 206 CE LYS 51 3.856 -3.721 -6.136 1.00 0.00 C ATOM 207 CG LYS 51 2.925 -1.444 -5.636 1.00 0.00 C ATOM 211 NZ LYS 51 3.650 -5.192 -6.036 1.00 0.00 N ATOM 212 N THR 52 -0.321 1.716 -5.343 1.00 0.00 N ATOM 213 CA THR 52 -1.463 2.431 -4.872 1.00 0.00 C ATOM 214 C THR 52 -2.637 1.525 -4.904 1.00 0.00 C ATOM 215 O THR 52 -2.821 0.738 -5.835 1.00 0.00 O ATOM 217 CB THR 52 -1.725 3.694 -5.714 1.00 0.00 C ATOM 219 OG1 THR 52 -2.838 4.413 -5.168 1.00 0.00 O ATOM 220 CG2 THR 52 -2.050 3.317 -7.151 1.00 0.00 C ATOM 221 N PHE 53 -3.443 1.614 -3.833 1.00 0.00 N ATOM 222 CA PHE 53 -4.659 0.879 -3.704 1.00 0.00 C ATOM 223 C PHE 53 -5.574 1.721 -2.884 1.00 0.00 C ATOM 224 O PHE 53 -5.241 2.856 -2.541 1.00 0.00 O ATOM 226 CB PHE 53 -4.393 -0.489 -3.070 1.00 0.00 C ATOM 227 CG PHE 53 -3.471 -1.360 -3.875 1.00 0.00 C ATOM 228 CZ PHE 53 -1.770 -2.973 -5.366 1.00 0.00 C ATOM 229 CD1 PHE 53 -2.192 -1.637 -3.426 1.00 0.00 C ATOM 230 CE1 PHE 53 -1.343 -2.440 -4.165 1.00 0.00 C ATOM 231 CD2 PHE 53 -3.883 -1.902 -5.079 1.00 0.00 C ATOM 232 CE2 PHE 53 -3.034 -2.704 -5.819 1.00 0.00 C ATOM 233 N ARG 54 -6.767 1.200 -2.557 1.00 0.00 N ATOM 234 CA ARG 54 -7.732 2.013 -1.880 1.00 0.00 C ATOM 235 C ARG 54 -7.926 1.544 -0.467 1.00 0.00 C ATOM 236 O ARG 54 -7.915 0.347 -0.186 1.00 0.00 O ATOM 238 CB ARG 54 -9.064 1.999 -2.631 1.00 0.00 C ATOM 239 CD ARG 54 -10.355 2.564 -4.708 1.00 0.00 C ATOM 241 NE ARG 54 -10.300 3.098 -6.067 1.00 0.00 N ATOM 242 CG ARG 54 -8.998 2.600 -4.026 1.00 0.00 C ATOM 243 CZ ARG 54 -11.358 3.235 -6.860 1.00 0.00 C ATOM 246 NH1 ARG 54 -11.211 3.729 -8.081 1.00 0.00 H ATOM 249 NH2 ARG 54 -12.560 2.878 -6.429 1.00 0.00 H ATOM 250 N LEU 55 -8.100 2.504 0.471 1.00 0.00 N ATOM 251 CA LEU 55 -8.294 2.154 1.853 1.00 0.00 C ATOM 252 C LEU 55 -9.534 2.784 2.402 1.00 0.00 C ATOM 253 O LEU 55 -10.099 3.720 1.838 1.00 0.00 O ATOM 255 CB LEU 55 -7.081 2.571 2.687 1.00 0.00 C ATOM 256 CG LEU 55 -5.743 1.934 2.304 1.00 0.00 C ATOM 257 CD1 LEU 55 -4.604 2.566 3.088 1.00 0.00 C ATOM 258 CD2 LEU 55 -5.777 0.432 2.539 1.00 0.00 C ATOM 259 N GLN 56 -9.970 2.239 3.556 1.00 0.00 N ATOM 260 CA GLN 56 -11.167 2.631 4.231 1.00 0.00 C ATOM 261 C GLN 56 -10.755 3.270 5.513 1.00 0.00 C ATOM 262 O GLN 56 -9.608 3.127 5.936 1.00 0.00 O ATOM 264 CB GLN 56 -12.078 1.422 4.452 1.00 0.00 C ATOM 265 CD GLN 56 -13.325 1.559 2.260 1.00 0.00 C ATOM 266 CG GLN 56 -12.473 0.700 3.173 1.00 0.00 C ATOM 267 OE1 GLN 56 -14.373 2.063 2.664 1.00 0.00 O ATOM 270 NE2 GLN 56 -12.877 1.729 1.022 1.00 0.00 N ATOM 271 N ALA 57 -11.663 4.027 6.160 1.00 0.00 N ATOM 272 CA ALA 57 -11.263 4.588 7.415 1.00 0.00 C ATOM 273 C ALA 57 -11.005 3.429 8.317 1.00 0.00 C ATOM 274 O ALA 57 -11.858 2.562 8.499 1.00 0.00 O ATOM 276 CB ALA 57 -12.340 5.521 7.946 1.00 0.00 C ATOM 277 N GLN 58 -9.799 3.387 8.906 1.00 0.00 N ATOM 278 CA GLN 58 -9.450 2.317 9.787 1.00 0.00 C ATOM 279 C GLN 58 -8.804 2.941 10.971 1.00 0.00 C ATOM 280 O GLN 58 -8.379 4.097 10.928 1.00 0.00 O ATOM 282 CB GLN 58 -8.535 1.315 9.079 1.00 0.00 C ATOM 283 CD GLN 58 -8.234 -0.340 7.196 1.00 0.00 C ATOM 284 CG GLN 58 -9.167 0.646 7.870 1.00 0.00 C ATOM 285 OE1 GLN 58 -7.045 -0.067 7.025 1.00 0.00 O ATOM 288 NE2 GLN 58 -8.769 -1.493 6.812 1.00 0.00 N ATOM 289 N GLN 59 -8.752 2.185 12.075 1.00 0.00 N ATOM 290 CA GLN 59 -8.137 2.639 13.280 1.00 0.00 C ATOM 291 C GLN 59 -6.667 2.762 13.008 1.00 0.00 C ATOM 292 O GLN 59 -6.000 3.667 13.508 1.00 0.00 O ATOM 294 CB GLN 59 -8.432 1.672 14.429 1.00 0.00 C ATOM 295 CD GLN 59 -10.155 0.642 15.962 1.00 0.00 C ATOM 296 CG GLN 59 -9.884 1.668 14.878 1.00 0.00 C ATOM 297 OE1 GLN 59 -9.452 -0.362 16.069 1.00 0.00 O ATOM 300 NE2 GLN 59 -11.179 0.895 16.770 1.00 0.00 N ATOM 301 N TYR 60 -6.116 1.859 12.176 1.00 0.00 N ATOM 302 CA TYR 60 -4.710 1.915 11.877 1.00 0.00 C ATOM 303 C TYR 60 -4.509 1.805 10.396 1.00 0.00 C ATOM 304 O TYR 60 -5.451 1.856 9.606 1.00 0.00 O ATOM 306 CB TYR 60 -3.961 0.804 12.615 1.00 0.00 C ATOM 307 CG TYR 60 -4.045 0.904 14.121 1.00 0.00 C ATOM 309 OH TYR 60 -4.291 1.171 18.264 1.00 0.00 H ATOM 310 CZ TYR 60 -4.208 1.083 16.893 1.00 0.00 C ATOM 311 CD1 TYR 60 -5.112 0.344 14.813 1.00 0.00 C ATOM 312 CE1 TYR 60 -5.197 0.431 16.190 1.00 0.00 C ATOM 313 CD2 TYR 60 -3.058 1.558 14.847 1.00 0.00 C ATOM 314 CE2 TYR 60 -3.127 1.653 16.224 1.00 0.00 C ATOM 315 N HIS 61 -3.228 1.723 9.991 1.00 0.00 N ATOM 316 CA HIS 61 -2.848 1.539 8.624 1.00 0.00 C ATOM 317 C HIS 61 -2.479 0.102 8.499 1.00 0.00 C ATOM 318 O HIS 61 -1.814 -0.454 9.370 1.00 0.00 O ATOM 320 CB HIS 61 -1.702 2.483 8.253 1.00 0.00 C ATOM 321 CG HIS 61 -2.079 3.931 8.287 1.00 0.00 C ATOM 322 ND1 HIS 61 -2.847 4.523 7.307 1.00 0.00 N ATOM 323 CE1 HIS 61 -3.016 5.823 7.610 1.00 0.00 C ATOM 324 CD2 HIS 61 -1.829 5.049 9.185 1.00 0.00 C ATOM 326 NE2 HIS 61 -2.408 6.145 8.735 1.00 0.00 N ATOM 327 N ALA 62 -2.915 -0.561 7.415 1.00 0.00 N ATOM 328 CA ALA 62 -2.599 -1.951 7.372 1.00 0.00 C ATOM 329 C ALA 62 -2.239 -2.343 5.982 1.00 0.00 C ATOM 330 O ALA 62 -2.678 -1.742 5.002 1.00 0.00 O ATOM 332 CB ALA 62 -3.770 -2.777 7.880 1.00 0.00 C ATOM 333 N LEU 63 -1.394 -3.381 5.877 1.00 0.00 N ATOM 334 CA LEU 63 -1.057 -3.904 4.592 1.00 0.00 C ATOM 335 C LEU 63 -1.862 -5.153 4.519 1.00 0.00 C ATOM 336 O LEU 63 -1.972 -5.870 5.511 1.00 0.00 O ATOM 338 CB LEU 63 0.454 -4.120 4.482 1.00 0.00 C ATOM 339 CG LEU 63 0.960 -4.701 3.161 1.00 0.00 C ATOM 340 CD1 LEU 63 0.726 -3.725 2.018 1.00 0.00 C ATOM 341 CD2 LEU 63 2.437 -5.055 3.261 1.00 0.00 C ATOM 342 N THR 64 -2.461 -5.459 3.356 1.00 0.00 N ATOM 343 CA THR 64 -3.287 -6.629 3.369 1.00 0.00 C ATOM 344 C THR 64 -2.832 -7.566 2.315 1.00 0.00 C ATOM 345 O THR 64 -1.944 -7.263 1.519 1.00 0.00 O ATOM 347 CB THR 64 -4.772 -6.273 3.164 1.00 0.00 C ATOM 349 OG1 THR 64 -4.956 -5.719 1.856 1.00 0.00 O ATOM 350 CG2 THR 64 -5.221 -5.249 4.194 1.00 0.00 C ATOM 351 N VAL 65 -3.423 -8.776 2.356 1.00 0.00 N ATOM 352 CA VAL 65 -3.233 -9.750 1.331 1.00 0.00 C ATOM 353 C VAL 65 -4.257 -9.415 0.297 1.00 0.00 C ATOM 354 O VAL 65 -5.425 -9.201 0.617 1.00 0.00 O ATOM 356 CB VAL 65 -3.370 -11.182 1.880 1.00 0.00 C ATOM 357 CG1 VAL 65 -3.245 -12.198 0.755 1.00 0.00 C ATOM 358 CG2 VAL 65 -2.327 -11.442 2.957 1.00 0.00 C ATOM 359 N GLY 66 -3.840 -9.351 -0.982 1.00 0.00 N ATOM 360 CA GLY 66 -4.771 -8.998 -2.011 1.00 0.00 C ATOM 361 C GLY 66 -4.939 -7.514 -1.995 1.00 0.00 C ATOM 362 O GLY 66 -5.992 -6.996 -2.355 1.00 0.00 O ATOM 364 N ASP 67 -3.893 -6.792 -1.547 1.00 0.00 N ATOM 365 CA ASP 67 -3.978 -5.365 -1.515 1.00 0.00 C ATOM 366 C ASP 67 -3.372 -4.790 -2.790 1.00 0.00 C ATOM 367 O ASP 67 -2.131 -4.887 -2.989 1.00 0.00 O ATOM 369 OXT ASP 67 -4.115 -4.224 -3.634 1.00 0.00 O ATOM 370 CB ASP 67 -3.271 -4.814 -0.275 1.00 0.00 C ATOM 371 CG ASP 67 -3.521 -3.333 -0.071 1.00 0.00 C ATOM 372 OD1 ASP 67 -4.493 -2.809 -0.653 1.00 0.00 O ATOM 373 OD2 ASP 67 -2.744 -2.696 0.672 1.00 0.00 O TER END ########################## # # # ACE results: # # # ########################## Number of atoms possible to evaluate: 250 MEASURES: ANGLES RMS : model <-> target (MC: PHI+PSI) DIHED RMS: ARMSMC PC NP PP TN ALL . . . . . . . . . . 81.22 54.5 22 18.8 117 ARMSMC SECONDARY STRUCTURE . . 96.91 41.7 12 18.2 66 ARMSMC SURFACE . . . . . . . . 72.36 58.3 12 14.1 85 ARMSMC BURIED . . . . . . . . 90.71 50.0 10 31.2 32 ARMSMC (SC: CHI1) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 89.28 42.9 7 15.2 46 ARMSSC1 RELIABLE SIDE CHAINS . 89.28 42.9 7 17.1 41 ARMSSC1 SECONDARY STRUCTURE . . 102.75 25.0 4 13.8 29 ARMSSC1 SURFACE . . . . . . . . 67.24 66.7 3 9.4 32 ARMSSC1 BURIED . . . . . . . . 102.75 25.0 4 28.6 14 ARMSSC1 (SC: CHI2) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 48.70 75.0 4 14.8 27 ARMSSC2 RELIABLE SIDE CHAINS . 48.70 75.0 4 18.2 22 ARMSSC2 SECONDARY STRUCTURE . . 56.22 66.7 3 17.6 17 ARMSSC2 SURFACE . . . . . . . . 1.74 100.0 1 5.0 20 ARMSSC2 BURIED . . . . . . . . 56.22 66.7 3 42.9 7 ARMSSC2 (SC: CHI3) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 20.91 100.0 2 11.8 17 ARMSSC3 RELIABLE SIDE CHAINS . 20.91 100.0 2 16.7 12 ARMSSC3 SECONDARY STRUCTURE . . 14.03 100.0 1 8.3 12 ARMSSC3 SURFACE . . . . . . . . 26.03 100.0 1 7.1 14 ARMSSC3 BURIED . . . . . . . . 14.03 100.0 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 = 6.82 (Number of atoms: 31) (CA) RMS: CRMSCA NP PP TN ALL . . . . . . . . . . 6.82 31 50.8 61 CRMSCA CRN = ALL/NP . . . . . 0.2201 CRMSCA SECONDARY STRUCTURE . . 5.04 10 30.3 33 CRMSCA SURFACE . . . . . . . . 7.32 23 51.1 45 CRMSCA BURIED . . . . . . . . 5.12 8 50.0 16 CRMSCA (MC) RMS: CRMSMC NP PP TN ALL . . . . . . . . . . 6.80 152 50.8 299 CRMSMC SECONDARY STRUCTURE . . 5.18 50 30.7 163 CRMSMC SURFACE . . . . . . . . 7.31 112 50.9 220 CRMSMC BURIED . . . . . . . . 5.12 40 50.6 79 CRMSMC (SC) RMS: CRMSSC NP PP TN ALL . . . . . . . . . . 8.42 126 16.9 745 CRMSSC RELIABLE SIDE CHAINS . 7.71 104 14.9 699 CRMSSC SECONDARY STRUCTURE . . 6.96 45 10.5 429 CRMSSC SURFACE . . . . . . . . 9.19 93 16.8 555 CRMSSC BURIED . . . . . . . . 5.74 33 17.4 190 CRMSSC (ALL) RMS: CRMSALL NP PP TN ALL . . . . . . . . . . 7.62 250 25.3 989 CRMSALL SECONDARY STRUCTURE . . 6.11 85 15.2 561 CRMSALL SURFACE . . . . . . . . 8.27 185 25.2 735 CRMSALL BURIED . . . . . . . . 5.34 65 25.6 254 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 . . . . . . . . . . 6.076 1.000 0.500 31 50.8 61 ERRCA SECONDARY STRUCTURE . . 4.596 1.000 0.500 10 30.3 33 ERRCA SURFACE . . . . . . . . 6.545 1.000 0.500 23 51.1 45 ERRCA BURIED . . . . . . . . 4.729 1.000 0.500 8 50.0 16 ERRCA (MC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.053 1.000 0.500 152 50.8 299 ERRMC SECONDARY STRUCTURE . . 4.694 1.000 0.500 50 30.7 163 ERRMC SURFACE . . . . . . . . 6.541 1.000 0.500 112 50.9 220 ERRMC BURIED . . . . . . . . 4.686 1.000 0.500 40 50.6 79 ERRMC (SC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 7.632 1.000 0.500 126 16.9 745 ERRSC RELIABLE SIDE CHAINS . 7.045 1.000 0.500 104 14.9 699 ERRSC SECONDARY STRUCTURE . . 6.249 1.000 0.500 45 10.5 429 ERRSC SURFACE . . . . . . . . 8.479 1.000 0.500 93 16.8 555 ERRSC BURIED . . . . . . . . 5.244 1.000 0.500 33 17.4 190 ERRSC (ALL) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.801 1.000 0.500 250 25.3 989 ERRALL SECONDARY STRUCTURE . . 5.430 1.000 0.500 85 15.2 561 ERRALL SURFACE . . . . . . . . 7.475 1.000 0.500 185 25.2 735 ERRALL BURIED . . . . . . . . 4.881 1.000 0.500 65 25.6 254 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 3 6 13 26 31 61 DISTCA CA (P) 0.00 4.92 9.84 21.31 42.62 61 DISTCA CA (RMS) 0.00 1.96 2.27 3.43 5.46 DISTCA ALL (N) 0 11 32 92 206 250 989 DISTALL ALL (P) 0.00 1.11 3.24 9.30 20.83 989 DISTALL ALL (RMS) 0.00 1.70 2.29 3.55 6.08 DISTALL END of the results output