####################################################### # # # 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 35 ( 140), selected 35 , name T0548TS328_1-D1 # Molecule2: number of CA atoms 35 ( 296), selected 35 , name T0548-D1.pdb # PARAMETERS: -3 -ie -o1 -sda -d:4 -swap T0548TS328_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: 21 15 - 35 5.00 13.28 LONGEST_CONTINUOUS_SEGMENT: 21 16 - 36 4.78 13.19 LCS_AVERAGE: 52.24 LCS - RMSD CUTOFF 2.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 14 14 - 27 1.84 12.05 LCS_AVERAGE: 25.06 LCS - RMSD CUTOFF 1.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 8 20 - 27 1.00 12.07 LCS_AVERAGE: 15.02 LCS_GDT MOLECULE-1 MOLECULE-2 LCS_DETAILS GDT_DETAILS TOTAL NUMBER OF RESIDUE PAIRS: 35 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 H 12 H 12 4 4 20 3 3 4 4 4 6 6 9 12 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT F 13 F 13 4 4 20 3 3 4 4 4 10 14 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT H 14 H 14 4 14 20 3 3 8 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT Y 15 Y 15 4 14 21 3 3 5 5 7 13 15 16 16 17 19 19 21 22 24 25 25 26 26 27 LCS_GDT T 16 T 16 4 14 21 3 3 8 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT V 17 V 17 4 14 21 3 4 5 9 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT T 18 T 18 7 14 21 3 4 8 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT D 19 D 19 7 14 21 3 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT I 20 I 20 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT K 21 K 21 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT D 22 D 22 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT L 23 L 23 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT T 24 T 24 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT K 25 K 25 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT L 26 L 26 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT G 27 G 27 8 14 21 4 6 9 11 13 14 15 16 16 18 19 20 21 22 24 25 25 26 26 27 LCS_GDT A 28 A 28 3 4 21 3 3 3 3 3 5 9 13 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT I 29 I 29 4 4 21 3 3 4 4 4 6 8 11 13 15 19 20 22 22 24 25 25 26 26 27 LCS_GDT Y 30 Y 30 4 4 21 3 3 4 4 4 6 7 10 13 15 16 18 22 22 24 25 25 26 26 27 LCS_GDT D 31 D 31 4 4 21 3 3 4 4 4 5 7 11 13 15 16 18 22 22 24 25 25 26 26 27 LCS_GDT K 32 K 32 4 4 21 3 3 4 4 4 6 7 10 10 14 16 18 19 20 22 25 25 26 26 27 LCS_GDT T 33 T 33 4 5 21 3 4 4 4 5 5 8 11 13 15 16 18 22 22 24 25 25 26 26 27 LCS_GDT K 34 K 34 4 5 21 3 4 4 4 6 7 9 13 13 16 19 20 22 22 24 25 25 26 26 27 LCS_GDT K 35 K 35 4 7 21 3 4 4 6 7 8 9 13 13 16 19 20 22 22 24 25 25 26 26 27 LCS_GDT Y 36 Y 36 5 7 21 3 4 6 6 7 10 14 15 16 18 19 20 22 22 24 25 25 26 26 27 LCS_GDT W 37 W 37 5 7 20 3 4 6 10 11 14 15 16 16 18 19 19 21 22 23 25 25 26 26 27 LCS_GDT V 38 V 38 5 7 11 3 4 6 6 7 8 8 9 10 12 12 14 15 16 19 20 20 22 23 26 LCS_GDT Y 39 Y 39 5 7 11 3 4 6 6 7 8 8 9 12 13 14 15 15 16 18 20 20 21 22 23 LCS_GDT Q 40 Q 40 5 7 11 3 5 6 6 7 8 8 9 12 13 14 15 15 16 18 20 20 21 22 23 LCS_GDT G 41 G 41 5 7 11 3 5 5 5 7 7 8 9 12 13 14 15 15 16 18 20 20 21 22 23 LCS_GDT K 42 K 42 5 6 11 3 5 5 5 6 7 8 9 12 13 14 15 15 16 18 20 20 21 22 23 LCS_GDT P 43 P 43 5 6 11 3 5 5 5 6 7 8 9 12 13 14 15 15 16 18 20 20 21 22 23 LCS_GDT V 44 V 44 5 6 11 3 5 5 5 6 7 8 9 12 13 14 15 15 15 18 20 20 21 22 23 LCS_GDT M 45 M 45 3 3 11 3 3 5 5 5 5 6 8 12 13 14 15 15 16 18 20 21 22 24 26 LCS_GDT P 46 P 46 3 3 10 3 3 3 3 3 4 4 7 8 10 13 13 17 18 19 20 21 22 25 27 LCS_AVERAGE LCS_A: 30.78 ( 15.02 25.06 52.24 ) 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 6 9 11 13 14 15 16 16 18 19 20 22 22 24 25 25 26 26 27 GDT PERCENT_AT 11.43 17.14 25.71 31.43 37.14 40.00 42.86 45.71 45.71 51.43 54.29 57.14 62.86 62.86 68.57 71.43 71.43 74.29 74.29 77.14 GDT RMS_LOCAL 0.12 0.62 1.04 1.38 1.65 1.79 1.95 2.16 2.16 3.02 3.14 4.07 4.70 4.31 4.97 5.13 5.13 5.38 5.38 5.97 GDT RMS_ALL_AT 11.92 12.96 12.17 11.99 12.03 11.77 11.82 11.78 11.78 11.70 11.69 12.02 12.49 11.86 12.36 12.20 12.20 12.32 12.32 11.94 # Checking swapping # Molecule1 Molecule2 DISTANCE Mis MC All Dist_max GDC_mc GDC_all LGA H 12 H 12 7.195 6 0.202 0.202 9.656 13.333 5.333 LGA F 13 F 13 4.006 7 0.284 0.284 5.128 44.524 16.190 LGA H 14 H 14 1.706 6 0.549 0.549 3.800 65.595 26.238 LGA Y 15 Y 15 3.552 8 0.049 0.049 3.552 51.905 17.302 LGA T 16 T 16 1.751 3 0.011 0.011 4.254 59.881 34.218 LGA V 17 V 17 2.708 3 0.575 0.575 4.850 54.643 31.224 LGA T 18 T 18 2.208 3 0.234 0.234 2.548 62.857 35.918 LGA D 19 D 19 2.237 4 0.104 0.104 2.237 70.833 35.417 LGA I 20 I 20 0.849 4 0.417 0.417 2.305 81.786 40.893 LGA K 21 K 21 0.950 5 0.174 0.174 1.313 88.333 39.259 LGA D 22 D 22 1.587 4 0.067 0.067 1.587 79.286 39.643 LGA L 23 L 23 0.580 4 0.387 0.387 1.107 88.214 44.107 LGA T 24 T 24 1.446 3 0.033 0.033 1.629 77.143 44.082 LGA K 25 K 25 2.084 5 0.052 0.052 2.173 68.810 30.582 LGA L 26 L 26 1.732 4 0.076 0.076 1.795 72.857 36.429 LGA G 27 G 27 1.162 0 0.257 0.257 3.237 67.500 67.500 LGA A 28 A 28 7.591 1 0.640 0.640 9.972 10.119 8.095 LGA I 29 I 29 12.127 4 0.668 0.668 14.223 0.119 0.060 LGA Y 30 Y 30 14.289 8 0.234 0.234 14.289 0.000 0.000 LGA D 31 D 31 16.014 4 0.576 0.576 17.496 0.000 0.000 LGA K 32 K 32 19.491 5 0.341 0.341 20.358 0.000 0.000 LGA T 33 T 33 18.042 3 0.654 0.654 18.207 0.000 0.000 LGA K 34 K 34 13.324 5 0.634 0.634 14.487 0.000 0.000 LGA K 35 K 35 11.820 5 0.582 0.582 12.300 0.119 0.053 LGA Y 36 Y 36 6.482 8 0.120 0.120 7.769 33.095 11.032 LGA W 37 W 37 2.693 10 0.219 0.219 6.634 36.310 10.374 LGA V 38 V 38 8.584 3 0.151 0.151 10.934 5.000 2.857 LGA Y 39 Y 39 14.389 8 0.046 0.046 17.568 0.000 0.000 LGA Q 40 Q 40 21.061 5 0.086 0.086 23.737 0.000 0.000 LGA G 41 G 41 21.975 0 0.118 0.118 23.941 0.000 0.000 LGA K 42 K 42 22.323 5 0.069 0.069 22.323 0.000 0.000 LGA P 43 P 43 21.662 3 0.608 0.608 22.202 0.000 0.000 LGA V 44 V 44 19.092 3 0.623 0.623 19.732 0.000 0.000 LGA M 45 M 45 15.451 4 0.560 0.560 17.021 0.000 0.000 LGA P 46 P 46 15.001 3 0.521 0.521 17.500 0.000 0.000 # RMSD_GDC results: CA MC common percent ALL common percent GDC_mc GDC_all NUMBER_OF_ATOMS_AA: 35 140 140 100.00 296 140 47.30 35 SUMMARY(RMSD_GDC): 9.862 9.873 9.873 32.350 16.480 #CA N1 N2 DIST N RMSD GDT_TS LGA_S3 LGA_Q SUMMARY(GDT) 35 35 4.0 16 2.16 41.429 38.358 0.709 LGA_LOCAL RMSD: 2.156 Number of atoms: 16 under DIST: 4.00 LGA_ASGN_ATOMS RMSD: 11.783 Number of assigned atoms: 35 Std_ASGN_ATOMS RMSD: 9.862 Standard rmsd on all 35 assigned CA atoms Unitary ROTATION matrix and the SHIFT vector superimpose molecules (1=>2) X_new = 0.918174 * X + -0.183664 * Y + -0.351033 * Z + -99.983238 Y_new = -0.375751 * X + -0.122878 * Y + -0.918538 * Z + -46.245602 Z_new = 0.125568 * X + 0.975279 * Y + -0.181835 * Z + 14.100288 Euler angles from the ROTATION matrix. Conventions XYZ and ZXZ: Phi Theta Psi [DEG: Phi Theta Psi ] XYZ: -0.388444 -0.125900 1.755124 [DEG: -22.2562 -7.2136 100.5612 ] ZXZ: -0.365037 1.753648 0.128046 [DEG: -20.9151 100.4767 7.3365 ] # 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: T0548TS328_1-D1 REMARK 2: T0548-D1.pdb REMARK GDT and LCS analysis REMARK FIXED Atom-Atom correspondence REMARK LGA parameters: -3 -ie -o1 -sda -d:4 -swap T0548TS328_1-D1.lga REMARK #CA N1 N2 DIST N RMSD LGA_S3 RMSD_global REMARK SUMMARY: 35 35 4.0 16 2.16 38.358 9.86 REMARK ---------------------------------------------------------- MOLECULE T0548TS328_1-D1 REMARK This file has been preprocessed by preprocess_pdbv2.1.00.100503REMARK PFRMAT TS REMARK TARGET T0548 REMARK MODEL 1 REMARK PARENT 1v4v_B ATOM 45 N HIS 12 -42.624 -22.752 28.904 1.00 3.00 N ATOM 46 CA HIS 12 -42.571 -23.358 30.228 1.00 3.00 C ATOM 47 C HIS 12 -41.204 -23.170 30.877 1.00 3.00 C ATOM 48 O HIS 12 -40.258 -23.892 30.563 1.00 3.00 O ATOM 49 N PHE 13 -41.103 -22.198 31.779 1.00 3.00 N ATOM 50 CA PHE 13 -39.853 -21.933 32.485 1.00 3.00 C ATOM 51 C PHE 13 -39.934 -22.615 33.849 1.00 3.00 C ATOM 52 O PHE 13 -40.177 -21.968 34.868 1.00 3.00 O ATOM 53 N HIS 14 -39.726 -23.929 33.852 1.00 3.00 N ATOM 54 CA HIS 14 -39.806 -24.750 35.067 1.00 3.00 C ATOM 55 C HIS 14 -39.457 -23.685 36.075 1.00 3.00 C ATOM 56 O HIS 14 -40.196 -23.442 37.024 1.00 3.00 O ATOM 57 N TYR 15 -38.322 -23.038 35.888 1.00 3.00 N ATOM 58 CA TYR 15 -37.882 -22.004 36.802 1.00 3.00 C ATOM 59 C TYR 15 -37.740 -20.687 36.044 1.00 3.00 C ATOM 60 O TYR 15 -37.554 -20.674 34.825 1.00 3.00 O ATOM 61 N THR 16 -37.829 -19.568 36.760 1.00 3.00 N ATOM 62 CA THR 16 -37.693 -18.280 36.110 1.00 3.00 C ATOM 63 C THR 16 -37.626 -17.173 37.143 1.00 3.00 C ATOM 64 O THR 16 -37.897 -17.395 38.321 1.00 3.00 O ATOM 65 N VAL 17 -37.262 -15.979 36.681 1.00 3.00 N ATOM 66 CA VAL 17 -37.201 -14.840 37.585 1.00 3.00 C ATOM 67 C VAL 17 -36.385 -13.684 37.065 1.00 3.00 C ATOM 68 O VAL 17 -35.258 -13.867 36.643 1.00 3.00 O ATOM 69 N THR 18 -36.966 -12.484 37.103 1.00 3.00 N ATOM 70 CA THR 18 -36.720 -11.398 35.862 1.00 3.00 C ATOM 71 C THR 18 -36.925 -11.547 34.370 1.00 3.00 C ATOM 72 O THR 18 -37.262 -10.588 33.689 1.00 3.00 O ATOM 73 N ASP 19 -36.686 -12.749 33.841 1.00 3.00 N ATOM 74 CA ASP 19 -36.867 -12.986 32.397 1.00 3.00 C ATOM 75 C ASP 19 -38.345 -13.059 31.961 1.00 3.00 C ATOM 76 O ASP 19 -38.676 -12.645 30.845 1.00 3.00 O ATOM 77 N ILE 20 -39.221 -13.535 32.852 1.00 3.00 N ATOM 78 CA ILE 20 -40.652 -13.648 32.546 1.00 3.00 C ATOM 79 C ILE 20 -41.354 -12.284 32.474 1.00 3.00 C ATOM 80 O ILE 20 -42.444 -12.111 33.016 1.00 3.00 O ATOM 81 N LYS 21 -40.701 -11.331 31.806 1.00 3.00 N ATOM 82 CA LYS 21 -41.206 -9.969 31.631 1.00 3.00 C ATOM 83 C LYS 21 -40.833 -9.387 30.261 1.00 3.00 C ATOM 84 O LYS 21 -41.372 -8.358 29.855 1.00 3.00 O ATOM 85 N ASP 22 -39.877 -10.022 29.571 1.00 3.00 N ATOM 86 CA ASP 22 -39.499 -9.614 28.206 1.00 3.00 C ATOM 87 C ASP 22 -40.324 -10.573 27.324 1.00 3.00 C ATOM 88 O ASP 22 -40.684 -10.250 26.185 1.00 3.00 O ATOM 89 N LEU 23 -40.583 -11.759 27.880 1.00 3.00 N ATOM 90 CA LEU 23 -41.393 -12.825 27.259 1.00 3.00 C ATOM 91 C LEU 23 -42.995 -12.052 26.056 1.00 3.00 C ATOM 92 O LEU 23 -43.680 -12.294 25.064 1.00 3.00 O ATOM 93 N THR 24 -43.217 -11.008 26.846 1.00 3.00 N ATOM 94 CA THR 24 -44.300 -10.070 26.577 1.00 3.00 C ATOM 95 C THR 24 -44.038 -9.305 25.285 1.00 3.00 C ATOM 96 O THR 24 -44.931 -9.135 24.456 1.00 3.00 O ATOM 97 N LYS 25 -42.800 -8.855 25.118 1.00 3.00 N ATOM 98 CA LYS 25 -42.411 -8.099 23.938 1.00 3.00 C ATOM 99 C LYS 25 -42.403 -8.930 22.657 1.00 3.00 C ATOM 100 O LYS 25 -42.673 -8.406 21.575 1.00 3.00 O ATOM 101 N LEU 26 -42.092 -10.219 22.770 1.00 3.00 N ATOM 102 CA LEU 26 -42.089 -11.085 21.593 1.00 3.00 C ATOM 103 C LEU 26 -43.531 -11.378 21.199 1.00 3.00 C ATOM 104 O LEU 26 -43.849 -11.505 20.018 1.00 3.00 O ATOM 105 N GLY 27 -44.403 -11.474 22.197 1.00 3.00 N ATOM 106 CA GLY 27 -45.814 -11.735 21.952 1.00 3.00 C ATOM 107 C GLY 27 -46.404 -10.560 21.180 1.00 3.00 C ATOM 108 O GLY 27 -47.319 -10.728 20.374 1.00 3.00 O ATOM 109 N ALA 28 -45.871 -9.369 21.431 1.00 3.00 N ATOM 110 CA ALA 28 -46.336 -8.164 20.756 1.00 3.00 C ATOM 111 C ALA 28 -45.806 -8.147 19.330 1.00 3.00 C ATOM 112 O ALA 28 -46.435 -7.591 18.430 1.00 3.00 O ATOM 113 N ILE 29 -44.644 -8.763 19.134 1.00 3.00 N ATOM 114 CA ILE 29 -44.025 -8.833 17.818 1.00 3.00 C ATOM 115 C ILE 29 -44.748 -9.864 16.959 1.00 3.00 C ATOM 116 O ILE 29 -44.560 -9.921 15.744 1.00 3.00 O ATOM 117 N TYR 30 -45.579 -10.676 17.605 1.00 3.00 N ATOM 118 CA TYR 30 -46.336 -11.715 16.916 1.00 3.00 C ATOM 119 C TYR 30 -47.761 -11.762 17.458 1.00 3.00 C ATOM 120 O TYR 30 -48.116 -12.656 18.225 1.00 3.00 O ATOM 121 N ASP 31 -48.599 -10.789 17.061 1.00 3.00 N ATOM 122 CA ASP 31 -49.994 -10.698 17.497 1.00 3.00 C ATOM 123 C ASP 31 -50.886 -11.806 16.946 1.00 3.00 C ATOM 124 O ASP 31 -51.942 -12.101 17.507 1.00 3.00 O ATOM 125 N LYS 32 -50.461 -12.416 15.845 1.00 3.00 N ATOM 126 CA LYS 32 -51.234 -13.482 15.223 1.00 3.00 C ATOM 127 C LYS 32 -50.859 -14.862 15.755 1.00 3.00 C ATOM 128 O LYS 32 -51.238 -15.884 15.180 1.00 3.00 O ATOM 129 N THR 33 -50.107 -14.886 16.852 1.00 3.00 N ATOM 130 CA THR 33 -49.689 -16.140 17.471 1.00 3.00 C ATOM 131 C THR 33 -50.122 -16.170 18.930 1.00 3.00 C ATOM 132 O THR 33 -50.031 -15.166 19.633 1.00 3.00 O ATOM 133 N LYS 34 -50.597 -17.326 19.380 1.00 3.00 N ATOM 134 CA LYS 34 -51.043 -17.478 20.758 1.00 3.00 C ATOM 135 C LYS 34 -49.978 -18.185 21.587 1.00 3.00 C ATOM 136 O LYS 34 -49.533 -19.278 21.233 1.00 3.00 O ATOM 137 N LYS 35 -49.572 -17.559 22.686 1.00 3.00 N ATOM 138 CA LYS 35 -48.560 -18.136 23.557 1.00 3.00 C ATOM 139 C LYS 35 -49.199 -18.735 24.801 1.00 3.00 C ATOM 140 O LYS 35 -49.751 -18.019 25.637 1.00 3.00 O ATOM 141 N TYR 36 -49.129 -20.059 24.912 1.00 3.00 N ATOM 142 CA TYR 36 -49.696 -20.770 26.052 1.00 3.00 C ATOM 143 C TYR 36 -48.586 -21.037 27.061 1.00 3.00 C ATOM 144 O TYR 36 -47.552 -21.608 26.717 1.00 3.00 O ATOM 145 N TRP 37 -48.808 -20.633 28.307 1.00 3.00 N ATOM 146 CA TRP 37 -47.798 -20.805 29.343 1.00 3.00 C ATOM 147 C TRP 37 -48.347 -21.310 30.672 1.00 3.00 C ATOM 148 O TRP 37 -48.949 -20.554 31.435 1.00 3.00 O ATOM 149 N VAL 38 -48.159 -22.610 30.954 1.00 3.00 N ATOM 150 CA VAL 38 -48.630 -23.223 32.201 1.00 3.00 C ATOM 151 C VAL 38 -47.658 -22.919 33.342 1.00 3.00 C ATOM 152 O VAL 38 -46.570 -23.491 33.401 1.00 3.00 O ATOM 153 N TYR 39 -48.050 -22.019 34.239 1.00 3.00 N ATOM 154 CA TYR 39 -47.205 -21.644 35.372 1.00 3.00 C ATOM 155 C TYR 39 -47.382 -22.631 36.525 1.00 3.00 C ATOM 156 O TYR 39 -48.480 -23.137 36.750 1.00 3.00 O ATOM 157 N GLN 40 -46.301 -22.890 37.258 1.00 3.00 N ATOM 158 CA GLN 40 -46.322 -23.836 38.375 1.00 3.00 C ATOM 159 C GLN 40 -47.027 -23.322 39.625 1.00 3.00 C ATOM 160 O GLN 40 -46.723 -23.765 40.734 1.00 3.00 O ATOM 161 N GLY 41 -47.970 -22.403 39.447 1.00 3.00 N ATOM 162 CA GLY 41 -48.719 -21.824 40.559 1.00 3.00 C ATOM 163 C GLY 41 -47.873 -21.663 41.822 1.00 3.00 C ATOM 164 O GLY 41 -48.378 -21.787 42.938 1.00 3.00 O ATOM 165 N LYS 42 -46.586 -21.384 41.639 1.00 3.00 N ATOM 166 CA LYS 42 -45.673 -21.204 42.762 1.00 3.00 C ATOM 167 C LYS 42 -45.636 -19.735 43.166 1.00 3.00 C ATOM 168 O LYS 42 -45.543 -18.852 42.316 1.00 3.00 O ATOM 169 N PRO 43 -45.707 -19.457 44.478 1.00 3.00 N ATOM 170 CA PRO 43 -45.681 -18.085 44.993 1.00 3.00 C ATOM 171 C PRO 43 -44.569 -17.238 44.381 1.00 3.00 C ATOM 172 O PRO 43 -44.812 -16.133 43.899 1.00 3.00 O ATOM 173 N VAL 44 -43.351 -17.769 44.402 1.00 3.00 N ATOM 174 CA VAL 44 -42.193 -17.069 43.859 1.00 3.00 C ATOM 175 C VAL 44 -42.277 -16.910 42.344 1.00 3.00 C ATOM 176 O VAL 44 -41.855 -15.892 41.796 1.00 3.00 O ATOM 177 N MET 45 -42.821 -17.920 41.671 1.00 3.00 N ATOM 178 CA MET 45 -42.952 -17.891 40.219 1.00 3.00 C ATOM 179 C MET 45 -44.100 -16.980 39.795 1.00 3.00 C ATOM 180 O MET 45 -43.889 -15.973 39.119 1.00 3.00 O ATOM 181 N PRO 46 -45.314 -17.349 40.193 1.00 3.00 N ATOM 182 CA PRO 46 -46.514 -16.576 39.880 1.00 3.00 C ATOM 183 C PRO 46 -46.283 -15.084 40.091 1.00 3.00 C ATOM 184 O PRO 46 -46.439 -14.280 39.170 1.00 3.00 O TER END ########################## # # # ACE results: # # # ########################## Number of atoms possible to evaluate: 140 MEASURES: ANGLES RMS : model <-> target (MC: PHI+PSI) DIHED RMS: ARMSMC PC NP PP TN ALL . . . . . . . . . . 82.64 42.6 68 100.0 68 ARMSMC SECONDARY STRUCTURE . . 65.26 44.1 34 100.0 34 ARMSMC SURFACE . . . . . . . . 84.07 42.9 56 100.0 56 ARMSMC BURIED . . . . . . . . 75.59 41.7 12 100.0 12 ARMSMC (SC: CHI1) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 0.00 0.0 0 0.0 32 ARMSSC1 RELIABLE SIDE CHAINS . 0.00 0.0 0 0.0 29 ARMSSC1 SECONDARY STRUCTURE . . 0.00 0.0 0 0.0 17 ARMSSC1 SURFACE . . . . . . . . 0.00 0.0 0 0.0 27 ARMSSC1 BURIED . . . . . . . . 0.00 0.0 0 0.0 5 ARMSSC1 (SC: CHI2) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 0.00 0.0 0 0.0 25 ARMSSC2 RELIABLE SIDE CHAINS . 0.00 0.0 0 0.0 21 ARMSSC2 SECONDARY STRUCTURE . . 0.00 0.0 0 0.0 13 ARMSSC2 SURFACE . . . . . . . . 0.00 0.0 0 0.0 22 ARMSSC2 BURIED . . . . . . . . 0.00 0.0 0 0.0 3 ARMSSC2 (SC: CHI3) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 0.00 0.0 0 0.0 8 ARMSSC3 RELIABLE SIDE CHAINS . 0.00 0.0 0 0.0 7 ARMSSC3 SECONDARY STRUCTURE . . 0.00 0.0 0 0.0 2 ARMSSC3 SURFACE . . . . . . . . 0.00 0.0 0 0.0 8 ARMSSC3 BURIED . . . . . . . . 0.00 0.0 0 0.0 0 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 2 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 = 9.86 (Number of atoms: 35) (CA) RMS: CRMSCA NP PP TN ALL . . . . . . . . . . 9.86 35 100.0 35 CRMSCA CRN = ALL/NP . . . . . 0.2818 CRMSCA SECONDARY STRUCTURE . . 7.22 17 100.0 17 CRMSCA SURFACE . . . . . . . . 9.99 29 100.0 29 CRMSCA BURIED . . . . . . . . 9.20 6 100.0 6 CRMSCA (MC) RMS: CRMSMC NP PP TN ALL . . . . . . . . . . 9.88 140 80.9 173 CRMSMC SECONDARY STRUCTURE . . 7.37 68 80.0 85 CRMSMC SURFACE . . . . . . . . 10.02 116 81.1 143 CRMSMC BURIED . . . . . . . . 9.16 24 80.0 30 CRMSMC (SC) RMS: CRMSSC NP PP TN ALL . . . . . . . . . . 0.00 0 0.0 156 CRMSSC RELIABLE SIDE CHAINS . 0.00 0 0.0 136 CRMSSC SECONDARY STRUCTURE . . 0.00 0 0.0 84 CRMSSC SURFACE . . . . . . . . 0.00 0 0.0 127 CRMSSC BURIED . . . . . . . . 0.00 0 0.0 29 CRMSSC (ALL) RMS: CRMSALL NP PP TN ALL . . . . . . . . . . 9.88 140 47.3 296 CRMSALL SECONDARY STRUCTURE . . 7.37 68 44.7 152 CRMSALL SURFACE . . . . . . . . 10.02 116 47.7 243 CRMSALL BURIED . . . . . . . . 9.16 24 45.3 53 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 . . . . . . . . . . 6.105 0.445 0.223 35 100.0 35 ERRCA SECONDARY STRUCTURE . . 3.685 0.328 0.164 17 100.0 17 ERRCA SURFACE . . . . . . . . 6.271 0.457 0.229 29 100.0 29 ERRCA BURIED . . . . . . . . 5.306 0.387 0.193 6 100.0 6 ERRCA (MC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.170 0.455 0.232 140 80.9 173 ERRMC SECONDARY STRUCTURE . . 3.876 0.347 0.184 68 80.0 85 ERRMC SURFACE . . . . . . . . 6.335 0.465 0.238 116 81.1 143 ERRMC BURIED . . . . . . . . 5.376 0.405 0.203 24 80.0 30 ERRMC (SC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 0.000 0.000 0.000 0 0.0 156 ERRSC RELIABLE SIDE CHAINS . 0.000 0.000 0.000 0 0.0 136 ERRSC SECONDARY STRUCTURE . . 0.000 0.000 0.000 0 0.0 84 ERRSC SURFACE . . . . . . . . 0.000 0.000 0.000 0 0.0 127 ERRSC BURIED . . . . . . . . 0.000 0.000 0.000 0 0.0 29 ERRSC (ALL) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 6.170 0.455 0.232 140 47.3 296 ERRALL SECONDARY STRUCTURE . . 3.876 0.347 0.184 68 44.7 152 ERRALL SURFACE . . . . . . . . 6.335 0.465 0.238 116 47.7 243 ERRALL BURIED . . . . . . . . 5.376 0.405 0.203 24 45.3 53 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 0 0 8 19 35 35 DISTCA CA (P) 0.00 0.00 0.00 22.86 54.29 35 DISTCA CA (RMS) 0.00 0.00 0.00 3.98 6.72 DISTCA ALL (N) 1 2 5 29 77 140 296 DISTALL ALL (P) 0.34 0.68 1.69 9.80 26.01 296 DISTALL ALL (RMS) 0.92 1.22 2.22 3.79 6.74 DISTALL END of the results output