####################################################### # # # 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 31 ( 254), selected 31 , name T0537TS402_1-D2 # Molecule2: number of CA atoms 31 ( 254), selected 31 , name T0537-D2.pdb # PARAMETERS: -3 -ie -o1 -sda -d:4 -swap T0537TS402_1-D2.lga # FIXED Atom-Atom correspondence # GDT and LCS analysis LCS - RMSD CUTOFF 5.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 16 359 - 374 4.97 11.16 LCS_AVERAGE: 47.76 LCS - RMSD CUTOFF 2.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 6 365 - 370 1.98 15.47 LCS_AVERAGE: 15.92 LCS - RMSD CUTOFF 1.00 length segment l_RMS g_RMS LONGEST_CONTINUOUS_SEGMENT: 4 366 - 369 0.92 16.95 LONGEST_CONTINUOUS_SEGMENT: 4 370 - 373 0.46 15.45 LONGEST_CONTINUOUS_SEGMENT: 4 372 - 375 0.45 19.65 LONGEST_CONTINUOUS_SEGMENT: 4 376 - 379 0.67 18.91 LONGEST_CONTINUOUS_SEGMENT: 4 378 - 381 0.42 21.34 LCS_AVERAGE: 11.03 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 S 351 S 351 0 3 10 0 0 3 3 5 7 7 7 7 7 8 9 10 11 12 14 14 15 15 17 LCS_GDT A 352 A 352 3 3 11 0 0 3 3 4 7 7 8 8 9 9 13 19 20 20 21 21 23 23 23 LCS_GDT E 353 E 353 3 4 14 0 3 3 3 4 4 5 8 11 12 15 17 19 20 20 21 21 23 23 23 LCS_GDT E 354 E 354 3 4 15 3 4 4 5 5 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT L 355 L 355 3 5 15 0 3 4 4 4 5 6 9 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT G 356 G 356 3 5 15 3 3 4 4 4 5 7 8 9 11 11 12 13 17 18 20 21 23 23 23 LCS_GDT N 357 N 357 3 5 15 3 3 4 4 4 5 6 8 9 11 11 12 13 16 18 20 21 23 23 23 LCS_GDT I 358 I 358 3 5 15 3 3 4 4 5 6 7 9 9 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT I 359 I 359 3 5 16 3 3 4 4 6 6 7 8 9 11 11 14 16 17 19 21 21 23 23 23 LCS_GDT V 360 V 360 3 5 16 3 3 4 4 6 6 7 8 9 11 15 17 19 20 20 21 21 23 23 23 LCS_GDT A 361 A 361 3 5 16 3 4 4 4 6 6 7 9 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT W 362 W 362 3 5 16 3 3 3 4 5 6 7 8 9 11 15 17 19 20 20 21 21 23 23 23 LCS_GDT N 363 N 363 3 5 16 3 4 4 4 6 6 7 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT P 364 P 364 3 5 16 3 4 4 5 6 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT N 365 N 365 3 6 16 3 4 4 4 6 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT L 366 L 366 4 6 16 3 3 4 4 5 7 8 8 9 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT W 367 W 367 4 6 16 3 3 4 4 5 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT K 368 K 368 4 6 16 3 3 4 4 4 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT K 369 K 369 4 6 16 1 3 4 4 5 7 8 8 9 11 13 16 19 20 20 21 21 23 23 23 LCS_GDT G 370 G 370 4 6 16 3 4 4 5 5 7 9 10 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT T 371 T 371 4 5 16 3 4 4 5 5 8 11 11 11 13 15 17 19 20 20 21 21 23 23 23 LCS_GDT N 372 N 372 4 5 16 3 4 4 5 5 8 11 11 11 13 14 17 19 20 20 21 21 23 23 23 LCS_GDT G 373 G 373 4 5 16 3 4 4 5 5 8 11 11 11 12 14 17 19 20 20 21 21 23 23 23 LCS_GDT Y 374 Y 374 4 5 16 3 4 4 5 5 8 11 11 11 11 14 16 18 20 20 21 21 23 23 23 LCS_GDT P 375 P 375 4 5 15 3 4 4 5 5 8 11 11 11 11 11 12 12 12 12 15 16 17 21 23 LCS_GDT I 376 I 376 4 5 13 3 4 4 5 5 7 11 11 11 11 11 12 12 12 12 14 16 18 20 21 LCS_GDT F 377 F 377 4 5 13 3 4 4 4 5 7 11 11 11 11 11 12 12 13 16 17 18 18 19 20 LCS_GDT Q 378 Q 378 4 5 13 4 4 4 4 4 7 11 11 11 11 11 12 12 12 12 17 18 18 19 20 LCS_GDT W 379 W 379 4 5 13 4 4 4 4 5 8 11 11 11 11 11 12 12 13 16 17 18 18 19 20 LCS_GDT S 380 S 380 4 4 13 4 4 4 4 4 8 11 11 11 11 11 12 12 13 16 17 18 18 19 20 LCS_GDT E 381 E 381 4 4 13 4 4 4 4 4 8 11 11 11 11 11 12 12 13 14 15 18 18 19 20 LCS_AVERAGE LCS_A: 24.90 ( 11.03 15.92 47.76 ) 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 4 4 5 6 8 11 11 11 13 15 17 19 20 20 21 21 23 23 23 GDT PERCENT_AT 12.90 12.90 12.90 16.13 19.35 25.81 35.48 35.48 35.48 41.94 48.39 54.84 61.29 64.52 64.52 67.74 67.74 74.19 74.19 74.19 GDT RMS_LOCAL 0.42 0.42 0.42 1.26 1.56 2.51 2.91 2.91 2.91 3.87 4.31 4.46 4.75 4.89 4.89 5.15 5.15 5.74 5.74 5.74 GDT RMS_ALL_AT 21.34 21.34 21.34 11.69 13.31 20.47 20.45 20.45 20.45 10.90 10.96 11.15 11.44 11.32 11.32 11.26 11.26 11.02 11.02 11.02 # Checking swapping # possible swapping detected: E 354 E 354 # possible swapping detected: Y 374 Y 374 # possible swapping detected: F 377 F 377 # possible swapping detected: E 381 E 381 # Molecule1 Molecule2 DISTANCE Mis MC All Dist_max GDC_mc GDC_all LGA S 351 S 351 19.474 0 0.395 0.633 20.983 0.000 0.000 LGA A 352 A 352 16.579 0 0.529 0.540 18.368 0.000 0.000 LGA E 353 E 353 20.885 0 0.585 0.811 25.808 0.000 0.000 LGA E 354 E 354 23.445 0 0.603 1.015 24.358 0.000 0.000 LGA L 355 L 355 23.668 0 0.556 0.629 23.800 0.000 0.000 LGA G 356 G 356 25.090 0 0.601 0.601 26.643 0.000 0.000 LGA N 357 N 357 30.795 0 0.374 0.400 34.257 0.000 0.000 LGA I 358 I 358 29.929 0 0.573 0.560 30.119 0.000 0.000 LGA I 359 I 359 28.621 0 0.556 0.740 29.437 0.000 0.000 LGA V 360 V 360 26.828 0 0.531 0.553 29.445 0.000 0.000 LGA A 361 A 361 33.648 0 0.684 0.632 35.662 0.000 0.000 LGA W 362 W 362 33.949 0 0.079 1.196 36.824 0.000 0.000 LGA N 363 N 363 33.870 0 0.573 0.884 36.911 0.000 0.000 LGA P 364 P 364 29.927 0 0.664 0.591 32.841 0.000 0.000 LGA N 365 N 365 29.197 0 0.606 0.495 35.764 0.000 0.000 LGA L 366 L 366 22.987 0 0.571 1.362 25.415 0.000 0.000 LGA W 367 W 367 20.532 0 0.110 0.753 25.137 0.000 0.000 LGA K 368 K 368 16.822 0 0.685 0.968 18.246 0.000 0.000 LGA K 369 K 369 13.966 0 0.670 1.154 19.836 0.000 0.000 LGA G 370 G 370 7.535 0 0.641 0.641 9.798 15.119 15.119 LGA T 371 T 371 3.146 0 0.648 0.972 4.846 52.857 52.789 LGA N 372 N 372 2.627 0 0.196 1.318 7.165 61.667 40.119 LGA G 373 G 373 1.822 0 0.289 0.289 3.398 69.524 69.524 LGA Y 374 Y 374 3.465 0 0.563 1.194 13.488 65.119 24.603 LGA P 375 P 375 1.574 0 0.220 0.234 2.438 72.976 69.456 LGA I 376 I 376 3.656 0 0.394 1.154 10.987 53.810 30.893 LGA F 377 F 377 2.746 0 0.147 1.395 9.388 66.905 31.082 LGA Q 378 Q 378 3.676 0 0.579 0.985 9.948 43.690 23.704 LGA W 379 W 379 2.719 0 0.223 1.332 13.277 66.905 23.129 LGA S 380 S 380 3.060 0 0.320 0.838 4.796 57.976 50.079 LGA E 381 E 381 2.732 0 0.027 1.118 7.938 37.976 27.714 # RMSD_GDC results: CA MC common percent ALL common percent GDC_mc GDC_all NUMBER_OF_ATOMS_AA: 31 124 124 100.00 254 254 100.00 31 SUMMARY(RMSD_GDC): 10.197 10.055 11.274 21.436 14.781 #CA N1 N2 DIST N RMSD GDT_TS LGA_S3 LGA_Q SUMMARY(GDT) 31 31 4.0 11 2.91 33.065 29.277 0.365 LGA_LOCAL RMSD: 2.911 Number of atoms: 11 under DIST: 4.00 LGA_ASGN_ATOMS RMSD: 20.455 Number of assigned atoms: 31 Std_ASGN_ATOMS RMSD: 10.197 Standard rmsd on all 31 assigned CA atoms Unitary ROTATION matrix and the SHIFT vector superimpose molecules (1=>2) X_new = 0.013567 * X + -0.030425 * Y + 0.999445 * Z + 33.692703 Y_new = 0.650884 * X + 0.759043 * Y + 0.014271 * Z + 20.443905 Z_new = -0.759056 * X + 0.650329 * Y + 0.030101 * Z + -25.998674 Euler angles from the ROTATION matrix. Conventions XYZ and ZXZ: Phi Theta Psi [DEG: Phi Theta Psi ] XYZ: 1.549955 0.861862 1.524544 [DEG: 88.8059 49.3811 87.3499 ] ZXZ: 1.585074 1.540691 -0.862391 [DEG: 90.8181 88.2751 -49.4114 ] # 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: T0537TS402_1-D2 REMARK 2: T0537-D2.pdb REMARK GDT and LCS analysis REMARK FIXED Atom-Atom correspondence REMARK LGA parameters: -3 -ie -o1 -sda -d:4 -swap T0537TS402_1-D2.lga REMARK #CA N1 N2 DIST N RMSD LGA_S3 RMSD_global REMARK SUMMARY: 31 31 4.0 11 2.91 29.277 10.20 REMARK ---------------------------------------------------------- MOLECULE T0537TS402_1-D2 REMARK This file has been preprocessed by preprocess_pdbv2.1.00.100503REMARK PFRMAT TS REMARK TARGET T0537 REMARK MODEL 1 REFINED REMARK PARENT 2vji_A 2vji_A 1hg8_A 1k5c_A 2pyg_A ATOM 4971 N SER 351 12.726 31.560 49.493 1.00 0.50 N ATOM 4972 CA SER 351 12.391 31.053 50.818 1.00 0.50 C ATOM 4973 C SER 351 13.491 30.145 51.354 1.00 0.50 C ATOM 4974 O SER 351 13.306 28.934 51.473 1.00 0.50 O ATOM 4975 CB SER 351 11.064 30.291 50.778 1.00 0.50 C ATOM 4976 OG SER 351 10.704 29.851 52.077 1.00 0.50 O ATOM 4982 N ALA 352 14.636 30.737 51.676 1.00 0.50 N ATOM 4983 CA ALA 352 15.768 29.984 52.200 1.00 0.50 C ATOM 4984 C ALA 352 16.978 30.883 52.416 1.00 0.50 C ATOM 4985 O ALA 352 16.850 32.107 52.477 1.00 0.50 O ATOM 4986 CB ALA 352 16.128 28.845 51.250 1.00 0.50 C ATOM 4992 N GLU 353 18.151 30.272 52.533 1.00 0.50 N ATOM 4993 CA GLU 353 19.387 31.017 52.744 1.00 0.50 C ATOM 4994 C GLU 353 20.477 30.124 53.321 1.00 0.50 C ATOM 4995 O GLU 353 20.190 29.108 53.954 1.00 0.50 O ATOM 4996 CB GLU 353 19.140 32.207 53.676 1.00 0.50 C ATOM 4997 CG GLU 353 18.733 31.806 55.088 1.00 0.50 C ATOM 4998 CD GLU 353 18.427 32.993 55.983 1.00 0.50 C ATOM 4999 OE1 GLU 353 18.493 34.149 55.513 1.00 0.50 O ATOM 5000 OE2 GLU 353 18.125 32.763 57.180 1.00 0.50 O ATOM 5007 N GLU 354 21.729 30.509 53.100 1.00 0.50 N ATOM 5008 CA GLU 354 22.866 29.745 53.599 1.00 0.50 C ATOM 5009 C GLU 354 24.157 30.165 52.910 1.00 0.50 C ATOM 5010 O GLU 354 24.298 30.027 51.694 1.00 0.50 O ATOM 5011 CB GLU 354 22.632 28.245 53.395 1.00 0.50 C ATOM 5012 CG GLU 354 22.539 27.830 51.933 1.00 0.50 C ATOM 5013 CD GLU 354 22.269 26.349 51.744 1.00 0.50 C ATOM 5014 OE1 GLU 354 21.238 25.847 52.242 1.00 0.50 O ATOM 5015 OE2 GLU 354 23.108 25.678 51.096 1.00 0.50 O ATOM 5022 N LEU 355 25.099 30.680 53.693 1.00 0.50 N ATOM 5023 CA LEU 355 26.383 31.123 53.160 1.00 0.50 C ATOM 5024 C LEU 355 26.971 32.247 54.002 1.00 0.50 C ATOM 5025 O LEU 355 26.482 32.540 55.093 1.00 0.50 O ATOM 5026 CB LEU 355 26.221 31.594 51.710 1.00 0.50 C ATOM 5027 CG LEU 355 25.808 30.527 50.693 1.00 0.50 C ATOM 5028 CD1 LEU 355 25.557 31.166 49.334 1.00 0.50 C ATOM 5029 CD2 LEU 355 26.887 29.458 50.587 1.00 0.50 C ATOM 5041 N GLY 356 28.026 32.872 53.491 1.00 0.50 N ATOM 5042 CA GLY 356 28.685 33.965 54.197 1.00 0.50 C ATOM 5043 C GLY 356 29.387 34.904 53.224 1.00 0.50 C ATOM 5044 O GLY 356 29.942 34.467 52.215 1.00 0.50 O ATOM 5048 N ASN 357 29.359 36.197 53.532 1.00 0.50 N ATOM 5049 CA ASN 357 29.992 37.200 52.686 1.00 0.50 C ATOM 5050 C ASN 357 29.129 37.522 51.473 1.00 0.50 C ATOM 5051 O ASN 357 29.642 37.868 50.408 1.00 0.50 O ATOM 5052 CB ASN 357 31.379 36.723 52.239 1.00 0.50 C ATOM 5053 CG ASN 357 32.257 36.315 53.406 1.00 0.50 C ATOM 5054 OD1 ASN 357 32.543 37.123 54.295 1.00 0.50 O ATOM 5055 ND2 ASN 357 32.693 35.062 53.416 1.00 0.50 N ATOM 5062 N ILE 358 27.816 37.407 51.640 1.00 0.50 N ATOM 5063 CA ILE 358 26.878 37.686 50.558 1.00 0.50 C ATOM 5064 C ILE 358 26.222 39.049 50.736 1.00 0.50 C ATOM 5065 O ILE 358 26.208 39.603 51.836 1.00 0.50 O ATOM 5066 CB ILE 358 25.784 36.595 50.473 1.00 0.50 C ATOM 5067 CG1 ILE 358 26.397 35.261 50.031 1.00 0.50 C ATOM 5068 CG2 ILE 358 24.669 37.022 49.516 1.00 0.50 C ATOM 5069 CD1 ILE 358 25.410 34.104 50.033 1.00 0.50 C ATOM 5081 N ILE 359 25.681 39.586 49.649 1.00 0.50 N ATOM 5082 CA ILE 359 25.023 40.886 49.682 1.00 0.50 C ATOM 5083 C ILE 359 23.509 40.736 49.759 1.00 0.50 C ATOM 5084 O ILE 359 22.818 40.784 48.742 1.00 0.50 O ATOM 5085 CB ILE 359 25.394 41.732 48.440 1.00 0.50 C ATOM 5086 CG1 ILE 359 26.916 41.827 48.298 1.00 0.50 C ATOM 5087 CG2 ILE 359 24.770 43.126 48.531 1.00 0.50 C ATOM 5088 CD1 ILE 359 27.611 42.428 49.510 1.00 0.50 C ATOM 5100 N VAL 360 22.999 40.550 50.973 1.00 0.50 N ATOM 5101 CA VAL 360 21.565 40.391 51.185 1.00 0.50 C ATOM 5102 C VAL 360 20.860 41.742 51.209 1.00 0.50 C ATOM 5103 O VAL 360 20.536 42.265 52.275 1.00 0.50 O ATOM 5104 CB VAL 360 21.273 39.637 52.501 1.00 0.50 C ATOM 5105 CG1 VAL 360 19.772 39.438 52.690 1.00 0.50 C ATOM 5106 CG2 VAL 360 21.988 38.289 52.511 1.00 0.50 C ATOM 5116 N ALA 361 20.624 42.302 50.027 1.00 0.50 N ATOM 5117 CA ALA 361 19.957 43.592 49.910 1.00 0.50 C ATOM 5118 C ALA 361 18.513 43.511 50.391 1.00 0.50 C ATOM 5119 O ALA 361 17.919 42.433 50.423 1.00 0.50 O ATOM 5120 CB ALA 361 19.999 44.079 48.464 1.00 0.50 C ATOM 5126 N TRP 362 17.954 44.657 50.765 1.00 0.50 N ATOM 5127 CA TRP 362 16.579 44.717 51.245 1.00 0.50 C ATOM 5128 C TRP 362 15.591 44.412 50.127 1.00 0.50 C ATOM 5129 O TRP 362 14.466 43.979 50.379 1.00 0.50 O ATOM 5130 CB TRP 362 16.281 46.100 51.840 1.00 0.50 C ATOM 5131 CG TRP 362 16.976 46.364 53.142 1.00 0.50 C ATOM 5132 CD1 TRP 362 18.026 47.216 53.355 1.00 0.50 C ATOM 5133 CD2 TRP 362 16.671 45.773 54.411 1.00 0.50 C ATOM 5134 NE1 TRP 362 18.392 47.189 54.680 1.00 0.50 N ATOM 5135 CE2 TRP 362 17.579 46.313 55.348 1.00 0.50 C ATOM 5136 CE3 TRP 362 15.720 44.841 54.842 1.00 0.50 C ATOM 5137 CZ2 TRP 362 17.561 45.949 56.697 1.00 0.50 C ATOM 5138 CZ3 TRP 362 15.704 44.479 56.184 1.00 0.50 C ATOM 5139 CH2 TRP 362 16.618 45.032 57.095 1.00 0.50 H ATOM 5150 N ASN 363 16.017 44.640 48.889 1.00 0.50 N ATOM 5151 CA ASN 363 15.170 44.390 47.728 1.00 0.50 C ATOM 5152 C ASN 363 14.712 42.938 47.685 1.00 0.50 C ATOM 5153 O ASN 363 13.584 42.645 47.288 1.00 0.50 O ATOM 5154 CB ASN 363 15.914 44.751 46.437 1.00 0.50 C ATOM 5155 CG ASN 363 16.050 46.249 46.245 1.00 0.50 C ATOM 5156 OD1 ASN 363 15.307 47.034 46.844 1.00 0.50 O ATOM 5157 ND2 ASN 363 16.998 46.661 45.411 1.00 0.50 N ATOM 5164 N PRO 364 15.593 42.031 48.092 1.00 0.50 N ATOM 5165 CA PRO 364 15.280 40.608 48.100 1.00 0.50 C ATOM 5166 C PRO 364 14.052 40.318 48.953 1.00 0.50 C ATOM 5167 O PRO 364 13.935 40.808 50.077 1.00 0.50 O ATOM 5168 CB PRO 364 16.542 39.963 48.677 1.00 0.50 C ATOM 5169 CG PRO 364 17.630 40.945 48.351 1.00 0.50 C ATOM 5170 CD PRO 364 16.977 42.300 48.511 1.00 0.50 C ATOM 5178 N ASN 365 13.137 39.521 48.412 1.00 0.50 N ATOM 5179 CA ASN 365 11.914 39.164 49.123 1.00 0.50 C ATOM 5180 C ASN 365 12.061 37.825 49.833 1.00 0.50 C ATOM 5181 O ASN 365 12.180 36.781 49.191 1.00 0.50 O ATOM 5182 CB ASN 365 10.726 39.124 48.155 1.00 0.50 C ATOM 5183 CG ASN 365 10.415 40.485 47.561 1.00 0.50 C ATOM 5184 OD1 ASN 365 10.077 41.428 48.283 1.00 0.50 O ATOM 5185 ND2 ASN 365 10.524 40.600 46.243 1.00 0.50 N ATOM 5192 N LEU 366 12.052 37.861 51.161 1.00 0.50 N ATOM 5193 CA LEU 366 12.184 36.649 51.961 1.00 0.50 C ATOM 5194 C LEU 366 10.821 36.054 52.288 1.00 0.50 C ATOM 5195 O LEU 366 10.141 36.504 53.211 1.00 0.50 O ATOM 5196 CB LEU 366 12.942 36.949 53.259 1.00 0.50 C ATOM 5197 CG LEU 366 14.361 37.503 53.102 1.00 0.50 C ATOM 5198 CD1 LEU 366 14.954 37.821 54.468 1.00 0.50 C ATOM 5199 CD2 LEU 366 15.236 36.498 52.363 1.00 0.50 C ATOM 5211 N TRP 367 10.424 35.040 51.525 1.00 0.50 N ATOM 5212 CA TRP 367 9.140 34.382 51.732 1.00 0.50 C ATOM 5213 C TRP 367 9.173 33.487 52.965 1.00 0.50 C ATOM 5214 O TRP 367 10.001 32.581 53.065 1.00 0.50 O ATOM 5215 CB TRP 367 8.758 33.556 50.498 1.00 0.50 C ATOM 5216 CG TRP 367 8.418 34.383 49.292 1.00 0.50 C ATOM 5217 CD1 TRP 367 8.622 35.727 49.135 1.00 0.50 C ATOM 5218 CD2 TRP 367 7.816 33.920 48.079 1.00 0.50 C ATOM 5219 NE1 TRP 367 8.181 36.126 47.895 1.00 0.50 N ATOM 5220 CE2 TRP 367 7.684 35.039 47.229 1.00 0.50 C ATOM 5221 CE3 TRP 367 7.378 32.669 47.631 1.00 0.50 C ATOM 5222 CZ2 TRP 367 7.128 34.943 45.950 1.00 0.50 C ATOM 5223 CZ3 TRP 367 6.826 32.572 46.359 1.00 0.50 C ATOM 5224 CH2 TRP 367 6.705 33.703 45.534 1.00 0.50 H ATOM 5235 N LYS 368 8.268 33.747 53.903 1.00 0.50 N ATOM 5236 CA LYS 368 8.191 32.964 55.130 1.00 0.50 C ATOM 5237 C LYS 368 7.427 31.667 54.910 1.00 0.50 C ATOM 5238 O LYS 368 7.467 30.760 55.744 1.00 0.50 O ATOM 5239 CB LYS 368 7.522 33.778 56.241 1.00 0.50 C ATOM 5240 CG LYS 368 8.319 34.998 56.675 1.00 0.50 C ATOM 5241 CD LYS 368 7.615 35.757 57.792 1.00 0.50 C ATOM 5242 CE LYS 368 8.430 36.956 58.261 1.00 0.50 C ATOM 5243 NZ LYS 368 7.751 37.686 59.369 1.00 0.50 N ATOM 5257 N LYS 369 6.726 31.581 53.784 1.00 0.50 N ATOM 5258 CA LYS 369 5.951 30.392 53.451 1.00 0.50 C ATOM 5259 C LYS 369 6.844 29.163 53.347 1.00 0.50 C ATOM 5260 O LYS 369 6.357 28.034 53.279 1.00 0.50 O ATOM 5261 CB LYS 369 5.195 30.598 52.135 1.00 0.50 C ATOM 5262 CG LYS 369 4.313 29.421 51.743 1.00 0.50 C ATOM 5263 CD LYS 369 3.515 29.720 50.482 1.00 0.50 C ATOM 5264 CE LYS 369 2.852 28.466 49.925 1.00 0.50 C ATOM 5265 NZ LYS 369 1.861 28.792 48.860 1.00 0.50 N ATOM 5279 N GLY 370 8.153 29.388 53.334 1.00 0.50 N ATOM 5280 CA GLY 370 9.117 28.299 53.237 1.00 0.50 C ATOM 5281 C GLY 370 9.153 27.480 54.520 1.00 0.50 C ATOM 5282 O GLY 370 9.348 26.265 54.487 1.00 0.50 O ATOM 5286 N THR 371 8.964 28.151 55.651 1.00 0.50 N ATOM 5287 CA THR 371 8.975 27.486 56.948 1.00 0.50 C ATOM 5288 C THR 371 8.313 26.116 56.871 1.00 0.50 C ATOM 5289 O THR 371 7.291 25.947 56.206 1.00 0.50 O ATOM 5290 CB THR 371 8.255 28.339 58.017 1.00 0.50 C ATOM 5291 OG1 THR 371 8.882 29.626 58.080 1.00 0.50 O ATOM 5292 CG2 THR 371 8.327 27.678 59.387 1.00 0.50 C ATOM 5300 N ASN 372 8.903 25.139 57.552 1.00 0.50 N ATOM 5301 CA ASN 372 8.372 23.783 57.561 1.00 0.50 C ATOM 5302 C ASN 372 9.018 22.931 56.475 1.00 0.50 C ATOM 5303 O ASN 372 9.054 21.705 56.573 1.00 0.50 O ATOM 5304 CB ASN 372 6.849 23.803 57.383 1.00 0.50 C ATOM 5305 CG ASN 372 6.154 24.656 58.427 1.00 0.50 C ATOM 5306 OD1 ASN 372 6.243 24.383 59.628 1.00 0.50 O ATOM 5307 ND2 ASN 372 5.457 25.695 57.983 1.00 0.50 N ATOM 5314 N GLY 373 9.527 23.590 55.439 1.00 0.50 N ATOM 5315 CA GLY 373 10.173 22.894 54.332 1.00 0.50 C ATOM 5316 C GLY 373 11.677 22.797 54.546 1.00 0.50 C ATOM 5317 O GLY 373 12.456 22.887 53.597 1.00 0.50 O ATOM 5321 N TYR 374 12.082 22.613 55.798 1.00 0.50 N ATOM 5322 CA TYR 374 13.495 22.503 56.139 1.00 0.50 C ATOM 5323 C TYR 374 14.213 21.537 55.205 1.00 0.50 C ATOM 5324 O TYR 374 15.149 21.919 54.504 1.00 0.50 O ATOM 5325 CB TYR 374 13.661 22.038 57.593 1.00 0.50 C ATOM 5326 CG TYR 374 12.798 22.799 58.575 1.00 0.50 C ATOM 5327 CD1 TYR 374 13.080 24.124 58.897 1.00 0.50 C ATOM 5328 CD2 TYR 374 11.703 22.188 59.182 1.00 0.50 C ATOM 5329 CE1 TYR 374 12.291 24.827 59.802 1.00 0.50 C ATOM 5330 CE2 TYR 374 10.907 22.881 60.089 1.00 0.50 C ATOM 5331 CZ TYR 374 11.208 24.198 60.392 1.00 0.50 C ATOM 5332 OH TYR 374 10.421 24.886 61.288 1.00 0.50 H ATOM 5342 N PRO 375 13.770 20.285 55.203 1.00 0.50 N ATOM 5343 CA PRO 375 14.370 19.262 54.355 1.00 0.50 C ATOM 5344 C PRO 375 15.843 19.555 54.096 1.00 0.50 C ATOM 5345 O PRO 375 16.184 20.318 53.193 1.00 0.50 O ATOM 5346 CB PRO 375 13.539 19.323 53.070 1.00 0.50 C ATOM 5347 CG PRO 375 12.217 19.870 53.523 1.00 0.50 C ATOM 5348 CD PRO 375 12.570 20.866 54.607 1.00 0.50 C ATOM 5356 N ILE 376 16.711 18.945 54.895 1.00 0.50 N ATOM 5357 CA ILE 376 18.149 19.139 54.754 1.00 0.50 C ATOM 5358 C ILE 376 18.489 20.610 54.555 1.00 0.50 C ATOM 5359 O ILE 376 18.563 21.093 53.425 1.00 0.50 O ATOM 5360 CB ILE 376 18.710 18.317 53.570 1.00 0.50 C ATOM 5361 CG1 ILE 376 18.415 16.826 53.770 1.00 0.50 C ATOM 5362 CG2 ILE 376 20.213 18.554 53.411 1.00 0.50 C ATOM 5363 CD1 ILE 376 18.791 15.960 52.577 1.00 0.50 C ATOM 5375 N PHE 377 18.693 21.319 55.661 1.00 0.50 N ATOM 5376 CA PHE 377 19.024 22.738 55.610 1.00 0.50 C ATOM 5377 C PHE 377 20.242 23.050 56.472 1.00 0.50 C ATOM 5378 O PHE 377 20.237 22.809 57.679 1.00 0.50 O ATOM 5379 CB PHE 377 17.831 23.586 56.071 1.00 0.50 C ATOM 5380 CG PHE 377 18.061 25.071 55.954 1.00 0.50 C ATOM 5381 CD1 PHE 377 17.948 25.711 54.725 1.00 0.50 C ATOM 5382 CD2 PHE 377 18.392 25.823 57.077 1.00 0.50 C ATOM 5383 CE1 PHE 377 18.162 27.083 54.614 1.00 0.50 C ATOM 5384 CE2 PHE 377 18.607 27.196 56.974 1.00 0.50 C ATOM 5385 CZ PHE 377 18.491 27.824 55.741 1.00 0.50 C ATOM 5395 N GLN 378 21.283 23.585 55.844 1.00 0.50 N ATOM 5396 CA GLN 378 22.479 24.004 56.565 1.00 0.50 C ATOM 5397 C GLN 378 22.319 25.410 57.127 1.00 0.50 C ATOM 5398 O GLN 378 22.475 26.399 56.409 1.00 0.50 O ATOM 5399 CB GLN 378 23.705 23.949 55.647 1.00 0.50 C ATOM 5400 CG GLN 378 25.025 24.143 56.382 1.00 0.50 C ATOM 5401 CD GLN 378 26.228 24.055 55.460 1.00 0.50 C ATOM 5402 OE1 GLN 378 26.092 23.767 54.266 1.00 0.50 O ATOM 5403 NE2 GLN 378 27.417 24.298 56.002 1.00 0.50 N ATOM 5412 N TRP 379 22.005 25.495 58.416 1.00 0.50 N ATOM 5413 CA TRP 379 21.704 26.774 59.048 1.00 0.50 C ATOM 5414 C TRP 379 22.884 27.731 58.946 1.00 0.50 C ATOM 5415 O TRP 379 23.245 28.392 59.919 1.00 0.50 O ATOM 5416 CB TRP 379 21.327 26.567 60.521 1.00 0.50 C ATOM 5417 CG TRP 379 21.230 27.840 61.309 1.00 0.50 C ATOM 5418 CD1 TRP 379 22.171 28.355 62.158 1.00 0.50 C ATOM 5419 CD2 TRP 379 20.130 28.756 61.320 1.00 0.50 C ATOM 5420 NE1 TRP 379 21.721 29.536 62.697 1.00 0.50 N ATOM 5421 CE2 TRP 379 20.474 29.805 62.200 1.00 0.50 C ATOM 5422 CE3 TRP 379 18.890 28.790 60.672 1.00 0.50 C ATOM 5423 CZ2 TRP 379 19.618 30.882 62.449 1.00 0.50 C ATOM 5424 CZ3 TRP 379 18.038 29.860 60.919 1.00 0.50 C ATOM 5425 CH2 TRP 379 18.406 30.891 61.799 1.00 0.50 H ATOM 5436 N SER 380 23.483 27.800 57.762 1.00 0.50 N ATOM 5437 CA SER 380 24.629 28.672 57.533 1.00 0.50 C ATOM 5438 C SER 380 24.184 30.079 57.156 1.00 0.50 C ATOM 5439 O SER 380 24.282 30.482 55.998 1.00 0.50 O ATOM 5440 CB SER 380 25.523 28.099 56.431 1.00 0.50 C ATOM 5441 OG SER 380 24.789 27.941 55.227 1.00 0.50 O ATOM 5447 N GLU 381 23.692 30.822 58.143 1.00 0.50 N ATOM 5448 CA GLU 381 23.287 32.206 57.930 1.00 0.50 C ATOM 5449 C GLU 381 24.284 32.943 57.045 1.00 0.50 C ATOM 5450 O GLU 381 25.496 32.832 57.234 1.00 0.50 O ATOM 5451 CB GLU 381 23.146 32.933 59.271 1.00 0.50 C ATOM 5452 CG GLU 381 22.019 32.397 60.145 1.00 0.50 C ATOM 5453 CD GLU 381 21.836 33.177 61.434 1.00 0.50 C ATOM 5454 OE1 GLU 381 22.793 33.276 62.231 1.00 0.50 O ATOM 5455 OE2 GLU 381 20.712 33.691 61.654 1.00 0.50 O ATOM 5462 OXT GLU 381 23.892 33.663 56.123 1.00 0.50 O TER END ########################## # # # ACE results: # # # ########################## Number of atoms possible to evaluate: 254 MEASURES: ANGLES RMS : model <-> target (MC: PHI+PSI) DIHED RMS: ARMSMC PC NP PP TN ALL . . . . . . . . . . 108.24 25.0 60 100.0 60 ARMSMC SECONDARY STRUCTURE . . 118.53 18.2 22 100.0 22 ARMSMC SURFACE . . . . . . . . 108.81 26.0 50 100.0 50 ARMSMC BURIED . . . . . . . . 105.36 20.0 10 100.0 10 ARMSMC (SC: CHI1) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 89.43 42.3 26 100.0 26 ARMSSC1 RELIABLE SIDE CHAINS . 91.17 40.0 25 100.0 25 ARMSSC1 SECONDARY STRUCTURE . . 63.75 75.0 8 100.0 8 ARMSSC1 SURFACE . . . . . . . . 95.00 34.8 23 100.0 23 ARMSSC1 BURIED . . . . . . . . 10.60 100.0 3 100.0 3 ARMSSC1 (SC: CHI2) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 55.70 68.2 22 100.0 22 ARMSSC2 RELIABLE SIDE CHAINS . 54.84 75.0 16 100.0 16 ARMSSC2 SECONDARY STRUCTURE . . 73.40 57.1 7 100.0 7 ARMSSC2 SURFACE . . . . . . . . 49.57 70.0 20 100.0 20 ARMSSC2 BURIED . . . . . . . . 97.75 50.0 2 100.0 2 ARMSSC2 (SC: CHI3) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 40.13 50.0 6 100.0 6 ARMSSC3 RELIABLE SIDE CHAINS . 40.28 60.0 5 100.0 5 ARMSSC3 SECONDARY STRUCTURE . . 45.84 50.0 2 100.0 2 ARMSSC3 SURFACE . . . . . . . . 40.13 50.0 6 100.0 6 ARMSSC3 BURIED . . . . . . . . 0.00 0.0 0 0.0 0 ARMSSC3 (SC: CHI4) DIHED RMS: ARMSSC PC NP PP TN ALL . . . . . . . . . . 8.97 100.0 2 100.0 2 ARMSSC4 RELIABLE SIDE CHAINS . 8.97 100.0 2 100.0 2 ARMSSC4 SECONDARY STRUCTURE . . 0.00 0.0 0 0.0 0 ARMSSC4 SURFACE . . . . . . . . 8.97 100.0 2 100.0 2 ARMSSC4 BURIED . . . . . . . . 0.00 0.0 0 0.0 0 ARMSSC4 COORDINATES RMS : model <-> target TEST (CA) RMS = 10.20 (Number of atoms: 31) (CA) RMS: CRMSCA NP PP TN ALL . . . . . . . . . . 10.20 31 100.0 31 CRMSCA CRN = ALL/NP . . . . . 0.3289 CRMSCA SECONDARY STRUCTURE . . 6.89 11 100.0 11 CRMSCA SURFACE . . . . . . . . 10.60 26 100.0 26 CRMSCA BURIED . . . . . . . . 7.80 5 100.0 5 CRMSCA (MC) RMS: CRMSMC NP PP TN ALL . . . . . . . . . . 10.29 152 100.0 152 CRMSMC SECONDARY STRUCTURE . . 6.94 54 100.0 54 CRMSMC SURFACE . . . . . . . . 10.67 129 100.0 129 CRMSMC BURIED . . . . . . . . 7.87 23 100.0 23 CRMSMC (SC) RMS: CRMSSC NP PP TN ALL . . . . . . . . . . 12.89 130 100.0 130 CRMSSC RELIABLE SIDE CHAINS . 13.21 114 100.0 114 CRMSSC SECONDARY STRUCTURE . . 10.24 41 100.0 41 CRMSSC SURFACE . . . . . . . . 13.08 120 100.0 120 CRMSSC BURIED . . . . . . . . 10.29 10 100.0 10 CRMSSC (ALL) RMS: CRMSALL NP PP TN ALL . . . . . . . . . . 11.60 254 100.0 254 CRMSALL SECONDARY STRUCTURE . . 8.60 85 100.0 85 CRMSALL SURFACE . . . . . . . . 11.94 224 100.0 224 CRMSALL BURIED . . . . . . . . 8.58 30 100.0 30 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 . . . . . . . . . . 8.425 0.857 0.429 31 100.0 31 ERRCA SECONDARY STRUCTURE . . 5.920 0.827 0.414 11 100.0 11 ERRCA SURFACE . . . . . . . . 8.671 0.854 0.427 26 100.0 26 ERRCA BURIED . . . . . . . . 7.148 0.873 0.436 5 100.0 5 ERRCA (MC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 8.490 0.856 0.428 152 100.0 152 ERRMC SECONDARY STRUCTURE . . 5.926 0.828 0.414 54 100.0 54 ERRMC SURFACE . . . . . . . . 8.730 0.854 0.427 129 100.0 129 ERRMC BURIED . . . . . . . . 7.146 0.871 0.435 23 100.0 23 ERRMC (SC) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 11.017 0.881 0.441 130 100.0 130 ERRSC RELIABLE SIDE CHAINS . 11.401 0.885 0.443 114 100.0 114 ERRSC SECONDARY STRUCTURE . . 8.626 0.832 0.417 41 100.0 41 ERRSC SURFACE . . . . . . . . 11.163 0.881 0.441 120 100.0 120 ERRSC BURIED . . . . . . . . 9.262 0.887 0.444 10 100.0 10 ERRSC (ALL) ERRORS: |D-E| |D-E|/|D+E| SR(D,E) NP PP TN ALL . . . . . . . . . . 9.686 0.868 0.434 254 100.0 254 ERRALL SECONDARY STRUCTURE . . 7.144 0.831 0.416 85 100.0 85 ERRALL SURFACE . . . . . . . . 9.951 0.867 0.434 224 100.0 224 ERRALL BURIED . . . . . . . . 7.705 0.875 0.437 30 100.0 30 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 2 8 19 31 31 DISTCA CA (P) 0.00 3.23 6.45 25.81 61.29 31 DISTCA CA (RMS) 0.00 1.85 2.01 3.87 5.96 DISTCA ALL (N) 1 7 16 45 141 254 254 DISTALL ALL (P) 0.39 2.76 6.30 17.72 55.51 254 DISTALL ALL (RMS) 0.39 1.49 2.00 3.64 6.50 DISTALL END of the results output