HEADER ISOMERASE/DNA 31-DEC-69 3KSB TITLE Detailed structural insight into the DNA cleavage complex of type IIA TITLE 2 topoisomerases (re-sealed form) COMPND MOL_ID: 2; COMPND 2 MOLECULE: DNA topoisomerase 4 subunit B; COMPND 3 CHAIN: C, D; COMPND 4 EC: 5.99.1.-; COMPND 5 FRAGMENT: residues ; COMPND 6 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 3.50 ANGSTORMS REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY D 169 REMARK 465 LYS D 170 REMARK 465 GLY D 171 REMARK 465 GLY D 193 REMARK 465 LYS D 194 REMARK 465 GLY D 195 DBREF 3KSB D 404 647 UNP Q59961 PARE_STRPN 404 647 SEQRES 1 D 42 PRO LEU TYR LYS MET SER LYS GLY LYS GLY LYS LYS GLU SEQRES 2 D 42 GLU VAL ALA TYR ALA TRP THR ASP GLY GLU LEU GLU GLU SEQRES 3 D 42 LEU ARG LYS GLN PHE GLY LYS GLY ALA THR LEU GLN ARG SEQRES 4 D 42 TYR LYS GLY ATOM 1 N PRO D 541 -53.542 40.956 -24.715 1.00122.95 ATOM 2 CA PRO D 541 -53.461 41.560 -23.382 1.00134.38 ATOM 3 C PRO D 541 -52.399 42.645 -23.302 1.00141.05 ATOM 4 O PRO D 541 -51.451 42.658 -24.096 1.00140.31 ATOM 5 CB PRO D 541 -52.952 40.417 -22.502 1.00140.41 ATOM 6 CG PRO D 541 -53.150 39.189 -23.275 1.00142.96 ATOM 7 CD PRO D 541 -53.462 39.499 -24.706 1.00130.48 ATOM 8 N LEU D 542 -52.558 43.538 -22.330 1.00142.19 ATOM 9 CA LEU D 542 -51.549 44.548 -22.047 1.00136.20 ATOM 10 C LEU D 542 -50.897 44.270 -20.702 1.00129.92 ATOM 11 O LEU D 542 -49.677 44.352 -20.566 1.00116.48 ATOM 12 CB LEU D 542 -52.179 45.930 -22.023 1.00134.34 ATOM 13 CG LEU D 542 -51.195 47.067 -22.254 1.00129.20 ATOM 14 CD1 LEU D 542 -51.438 48.130 -21.210 1.00123.10 ATOM 15 CD2 LEU D 542 -49.742 46.578 -22.200 1.00136.24 ATOM 16 N TYR D 543 -51.732 43.956 -19.713 1.00135.67 ATOM 17 CA TYR D 543 -51.289 43.648 -18.355 1.00141.38 ATOM 18 C TYR D 543 -51.648 42.210 -17.949 1.00142.32 ATOM 19 O TYR D 543 -52.741 41.734 -18.242 1.00152.01 ATOM 20 CB TYR D 543 -51.947 44.614 -17.366 1.00143.59 ATOM 21 CG TYR D 543 -51.602 46.057 -17.564 1.00139.77 ATOM 22 CD1 TYR D 543 -50.330 46.517 -17.301 1.00142.28 ATOM 23 CD2 TYR D 543 -52.555 46.961 -17.994 1.00149.23 ATOM 24 CE1 TYR D 543 -49.998 47.836 -17.476 1.00156.62 ATOM 25 CE2 TYR D 543 -52.237 48.296 -18.167 1.00166.10 ATOM 26 CZ TYR D 543 -50.947 48.732 -17.908 1.00167.21 ATOM 27 OH TYR D 543 -50.591 50.059 -18.078 1.00167.68 ATOM 28 N LYS D 544 -50.727 41.523 -17.277 1.00139.86 ATOM 29 CA LYS D 544 -51.015 40.230 -16.644 1.00140.08 ATOM 30 C LYS D 544 -50.646 40.274 -15.155 1.00135.07 ATOM 31 O LYS D 544 -49.523 40.638 -14.775 1.00123.00 ATOM 32 CB LYS D 544 -50.319 39.044 -17.357 1.00115.94 ATOM 33 N MET D 545 -51.589 39.886 -14.310 1.00140.79 ATOM 34 CA MET D 545 -51.407 40.050 -12.878 1.00160.61 ATOM 35 C MET D 545 -51.447 38.687 -12.199 1.00164.35 ATOM 36 O MET D 545 -52.237 37.827 -12.589 1.00177.06 ATOM 37 CB MET D 545 -52.481 40.995 -12.344 1.00135.49 ATOM 38 N SER D 546 -50.576 38.473 -11.213 1.00150.75 ATOM 39 CA SER D 546 -50.468 37.152 -10.581 1.00151.21 ATOM 40 C SER D 546 -50.307 37.151 -9.051 1.00156.33 ATOM 41 O SER D 546 -49.529 37.933 -8.504 1.00162.49 ATOM 42 CB SER D 546 -49.337 36.333 -11.234 1.00144.85 ATOM 43 OG SER D 546 -48.323 37.155 -11.784 1.00147.12 ATOM 44 N LYS D 547 -51.042 36.256 -8.380 1.00168.23 ATOM 45 CA LYS D 547 -50.928 36.048 -6.922 1.00186.62 ATOM 46 C LYS D 547 -50.577 34.598 -6.574 1.00184.71 ATOM 47 O LYS D 547 -49.704 33.985 -7.198 1.00177.02 ATOM 48 CB LYS D 547 -52.211 36.435 -6.131 1.00157.12 ATOM 49 N LYS D 551 -46.557 26.526 -7.057 1.00213.40 ATOM 50 CA LYS D 551 -47.470 25.478 -7.504 1.00219.44 ATOM 51 C LYS D 551 -48.859 26.033 -7.817 1.00224.58 ATOM 52 O LYS D 551 -49.394 25.828 -8.911 1.00205.07 ATOM 53 CB LYS D 551 -47.570 24.403 -6.421 1.00217.84 ATOM 54 N LYS D 552 -49.437 26.733 -6.845 1.00238.59 ATOM 55 CA LYS D 552 -50.747 27.349 -7.018 1.00237.97 ATOM 56 C LYS D 552 -50.600 28.816 -7.403 1.00225.94 ATOM 57 O LYS D 552 -49.955 29.594 -6.695 1.00224.77 ATOM 58 CB LYS D 552 -51.580 27.217 -5.744 1.00248.18 ATOM 59 N GLU D 553 -51.200 29.181 -8.532 1.00210.91 ATOM 60 CA GLU D 553 -51.128 30.541 -9.052 1.00192.82 ATOM 61 C GLU D 553 -52.505 31.033 -9.469 1.00213.95 ATOM 62 O GLU D 553 -53.341 30.253 -9.918 1.00226.91 ATOM 63 CB GLU D 553 -50.200 30.607 -10.268 1.00160.97 ATOM 64 N GLU D 554 -52.743 32.329 -9.311 1.00227.35 ATOM 65 CA GLU D 554 -53.951 32.957 -9.840 1.00235.16 ATOM 66 C GLU D 554 -53.546 34.085 -10.786 1.00222.62 ATOM 67 O GLU D 554 -52.717 34.926 -10.442 1.00237.66 ATOM 68 CB GLU D 554 -54.880 33.451 -8.722 1.00243.62 ATOM 69 N VAL D 555 -54.112 34.084 -11.987 1.00193.38 ATOM 70 CA VAL D 555 -53.677 35.003 -13.031 1.00166.18 ATOM 71 C VAL D 555 -54.836 35.644 -13.794 1.00166.73 ATOM 72 O VAL D 555 -55.836 35.001 -14.110 1.00166.53 ATOM 73 CB VAL D 555 -52.732 34.271 -13.977 1.00152.36 ATOM 74 N ALA D 556 -54.688 36.927 -14.084 1.00170.81 ATOM 75 CA ALA D 556 -55.687 37.665 -14.839 1.00176.11 ATOM 76 C ALA D 556 -55.035 38.420 -15.993 1.00162.12 ATOM 77 O ALA D 556 -53.808 38.533 -16.068 1.00149.23 ATOM 78 CB ALA D 556 -56.456 38.623 -13.932 1.00181.03 ATOM 79 N TYR D 557 -55.864 38.900 -16.911 1.00155.42 ATOM 80 CA TYR D 557 -55.393 39.740 -17.998 1.00146.89 ATOM 81 C TYR D 557 -56.226 41.013 -18.070 1.00137.71 ATOM 82 O TYR D 557 -57.447 40.976 -17.916 1.00135.30 ATOM 83 CB TYR D 557 -55.451 38.970 -19.325 1.00147.00 ATOM 84 CG TYR D 557 -54.416 37.845 -19.440 1.00161.71 ATOM 85 CD1 TYR D 557 -54.776 36.504 -19.307 1.00162.38 ATOM 86 CD2 TYR D 557 -53.075 38.127 -19.689 1.00173.03 ATOM 87 CE1 TYR D 557 -53.828 35.480 -19.432 1.00155.79 ATOM 88 CE2 TYR D 557 -52.126 37.110 -19.801 1.00171.08 ATOM 89 CZ TYR D 557 -52.510 35.797 -19.676 1.00164.38 ATOM 90 OH TYR D 557 -51.555 34.818 -19.792 1.00173.26 ATOM 91 N ALA D 558 -55.553 42.136 -18.296 1.00131.93 ATOM 92 CA ALA D 558 -56.207 43.429 -18.457 1.00135.21 ATOM 93 C ALA D 558 -55.845 44.008 -19.821 1.00140.85 ATOM 94 O ALA D 558 -54.785 43.694 -20.378 1.00138.97 ATOM 95 CB ALA D 558 -55.776 44.396 -17.347 1.00126.11 ATOM 96 N TRP D 559 -56.722 44.848 -20.363 1.00143.11 ATOM 97 CA TRP D 559 -56.518 45.351 -21.719 1.00154.59 ATOM 98 C TRP D 559 -56.303 46.863 -21.786 1.00161.58 ATOM 99 O TRP D 559 -55.826 47.385 -22.804 1.00145.94 ATOM 100 CB TRP D 559 -57.673 44.892 -22.640 1.00164.49 ATOM 101 CG TRP D 559 -57.472 43.512 -23.144 1.00158.02 ATOM 102 CD1 TRP D 559 -57.003 43.160 -24.363 1.00151.14 ATOM 103 CD2 TRP D 559 -57.665 42.290 -22.414 1.00167.75 ATOM 104 NE1 TRP D 559 -56.888 41.795 -24.450 1.00157.03 ATOM 105 CE2 TRP D 559 -57.292 41.236 -23.267 1.00164.50 ATOM 106 CE3 TRP D 559 -58.106 41.988 -21.122 1.00180.59 ATOM 107 CZ2 TRP D 559 -57.358 39.896 -22.879 1.00166.55 ATOM 108 CZ3 TRP D 559 -58.167 40.655 -20.735 1.00182.92 ATOM 109 CH2 TRP D 559 -57.796 39.628 -21.613 1.00172.60 ATOM 110 N THR D 560 -56.651 47.552 -20.697 1.00181.59 ATOM 111 CA THR D 560 -56.404 48.988 -20.559 1.00185.23 ATOM 112 C THR D 560 -56.563 49.437 -19.112 1.00199.15 ATOM 113 O THR D 560 -57.185 48.747 -18.303 1.00202.83 ATOM 114 CB THR D 560 -57.337 49.842 -21.455 1.00147.33 ATOM 115 N ASP D 561 -56.006 50.606 -18.809 1.00205.56 ATOM 116 CA ASP D 561 -55.973 51.162 -17.455 1.00208.58 ATOM 117 C ASP D 561 -57.229 50.895 -16.626 1.00201.82 ATOM 118 O ASP D 561 -57.136 50.483 -15.469 1.00205.77 ATOM 119 CB ASP D 561 -55.661 52.659 -17.524 1.00212.18 ATOM 120 CG ASP D 561 -54.692 52.995 -18.656 1.00214.55 ATOM 121 OD1 ASP D 561 -53.814 52.163 -18.989 1.00200.62 ATOM 122 OD2 ASP D 561 -54.819 54.096 -19.226 1.00227.27 ATOM 123 N GLY D 562 -58.398 51.140 -17.207 1.00191.93 ATOM 124 CA GLY D 562 -59.642 50.879 -16.510 1.00198.64 ATOM 125 C GLY D 562 -59.660 49.473 -15.938 1.00210.44 ATOM 126 O GLY D 562 -59.833 49.277 -14.731 1.00206.40 ATOM 127 N GLU D 563 -59.470 48.494 -16.819 1.00216.46 ATOM 128 CA GLU D 563 -59.467 47.084 -16.439 1.00213.84 ATOM 129 C GLU D 563 -58.580 46.822 -15.221 1.00213.26 ATOM 130 O GLU D 563 -58.895 45.984 -14.373 1.00214.51 ATOM 131 CB GLU D 563 -59.044 46.224 -17.645 1.00200.84 ATOM 132 N LEU D 564 -57.469 47.547 -15.145 1.00208.98 ATOM 133 CA LEU D 564 -56.461 47.309 -14.120 1.00198.02 ATOM 134 C LEU D 564 -57.003 47.440 -12.700 1.00208.91 ATOM 135 O LEU D 564 -56.805 46.546 -11.882 1.00220.28 ATOM 136 CB LEU D 564 -55.258 48.242 -14.324 1.00176.23 ATOM 137 CG LEU D 564 -53.891 47.695 -13.900 1.00155.44 ATOM 138 CD1 LEU D 564 -53.977 46.208 -13.574 1.00154.15 ATOM 139 CD2 LEU D 564 -52.801 47.974 -14.951 1.00135.67 ATOM 140 N GLU D 565 -57.697 48.539 -12.413 1.00208.18 ATOM 141 CA GLU D 565 -58.131 48.831 -11.045 1.00208.98 ATOM 142 C GLU D 565 -58.891 47.667 -10.406 1.00222.28 ATOM 143 O GLU D 565 -58.583 47.262 -9.286 1.00217.25 ATOM 144 CB GLU D 565 -58.944 50.126 -10.985 1.00198.87 ATOM 145 N GLU D 566 -59.878 47.136 -11.124 1.00239.15 ATOM 146 CA GLU D 566 -60.661 45.992 -10.651 1.00248.75 ATOM 147 C GLU D 566 -59.798 44.748 -10.440 1.00248.77 ATOM 148 O GLU D 566 -59.998 44.000 -9.480 1.00250.07 ATOM 149 CB GLU D 566 -61.830 45.683 -11.590 1.00245.93 ATOM 150 N LEU D 567 -58.858 44.522 -11.357 1.00241.60 ATOM 151 CA LEU D 567 -57.911 43.413 -11.249 1.00231.23 ATOM 152 C LEU D 567 -57.069 43.524 -9.973 1.00238.30 ATOM 153 O LEU D 567 -56.920 42.553 -9.223 1.00242.46 ATOM 154 CB LEU D 567 -57.015 43.351 -12.499 1.00204.47 ATOM 155 N ARG D 568 -56.524 44.714 -9.737 1.00227.79 ATOM 156 CA ARG D 568 -55.737 44.990 -8.540 1.00208.26 ATOM 157 C ARG D 568 -56.562 44.779 -7.269 1.00209.57 ATOM 158 O ARG D 568 -56.099 44.147 -6.317 1.00208.95 ATOM 159 CB ARG D 568 -55.163 46.416 -8.588 1.00191.22 ATOM 160 N LYS D 569 -57.780 45.314 -7.254 1.00212.91 ATOM 161 CA LYS D 569 -58.671 45.146 -6.111 1.00211.82 ATOM 162 C LYS D 569 -58.914 43.665 -5.851 1.00222.01 ATOM 163 O LYS D 569 -58.885 43.214 -4.707 1.00226.91 ATOM 164 CB LYS D 569 -59.990 45.910 -6.283 1.00198.35 ATOM 165 N GLN D 570 -59.147 42.911 -6.922 1.00223.96 ATOM 166 CA GLN D 570 -59.374 41.474 -6.815 1.00228.33 ATOM 167 C GLN D 570 -58.186 40.757 -6.171 1.00233.98 ATOM 168 O GLN D 570 -58.312 40.143 -5.110 1.00245.19 ATOM 169 CB GLN D 570 -59.643 40.887 -8.207 1.00217.27 ATOM 170 N PHE D 571 -57.031 40.856 -6.819 1.00220.75 ATOM 171 CA PHE D 571 -55.812 40.180 -6.377 1.00212.37 ATOM 172 C PHE D 571 -55.309 40.537 -4.979 1.00214.56 ATOM 173 O PHE D 571 -54.377 39.903 -4.476 1.00206.16 ATOM 174 CB PHE D 571 -54.715 40.455 -7.368 1.00204.60 ATOM 175 CG PHE D 571 -54.646 39.457 -8.441 1.00198.94 ATOM 176 CD1 PHE D 571 -55.496 39.541 -9.521 1.00196.59 ATOM 177 CD2 PHE D 571 -53.740 38.416 -8.367 1.00195.98 ATOM 178 CE1 PHE D 571 -55.432 38.604 -10.533 1.00197.81 ATOM 179 CE2 PHE D 571 -53.668 37.478 -9.358 1.00195.06 ATOM 180 CZ PHE D 571 -54.519 37.564 -10.451 1.00197.28 ATOM 181 N ALA D 575 -49.748 40.731 -5.166 1.00189.01 ATOM 182 CA ALA D 575 -49.780 40.621 -6.624 1.00185.22 ATOM 183 C ALA D 575 -48.489 41.081 -7.300 1.00163.80 ATOM 184 O ALA D 575 -47.730 41.882 -6.757 1.00166.99 ATOM 185 CB ALA D 575 -50.974 41.382 -7.219 1.00189.43 ATOM 186 N THR D 576 -48.243 40.550 -8.489 1.00147.57 ATOM 187 CA THR D 576 -47.207 41.076 -9.364 1.00150.79 ATOM 188 C THR D 576 -47.871 41.443 -10.686 1.00154.28 ATOM 189 O THR D 576 -48.650 40.662 -11.240 1.00153.35 ATOM 190 CB THR D 576 -46.025 40.047 -9.598 1.00173.54 ATOM 191 OG1 THR D 576 -46.473 38.717 -9.331 1.00176.88 ATOM 192 CG2 THR D 576 -44.787 40.325 -8.697 1.00149.75 ATOM 193 N LEU D 577 -47.576 42.635 -11.188 1.00152.07 ATOM 194 CA LEU D 577 -48.192 43.091 -12.429 1.00142.93 ATOM 195 C LEU D 577 -47.154 43.176 -13.525 1.00135.94 ATOM 196 O LEU D 577 -46.076 43.738 -13.337 1.00139.39 ATOM 197 CB LEU D 577 -48.871 44.458 -12.256 1.00132.40 ATOM 198 CG LEU D 577 -49.060 45.360 -13.483 1.00128.70 ATOM 199 CD1 LEU D 577 -49.511 44.596 -14.664 1.00124.80 ATOM 200 CD2 LEU D 577 -50.069 46.424 -13.192 1.00131.42 ATOM 201 N GLN D 578 -47.489 42.613 -14.675 1.00121.73 ATOM 202 CA GLN D 578 -46.568 42.576 -15.785 1.00119.65 ATOM 203 C GLN D 578 -47.215 43.324 -16.936 1.00114.59 ATOM 204 O GLN D 578 -48.411 43.197 -17.166 1.00115.08 ATOM 205 CB GLN D 578 -46.281 41.140 -16.164 1.00121.30 ATOM 206 N ARG D 579 -46.443 44.135 -17.646 1.00128.80 ATOM 207 CA ARG D 579 -47.026 44.932 -18.709 1.00124.13 ATOM 208 C ARG D 579 -46.253 44.722 -19.987 1.00118.73 ATOM 209 O ARG D 579 -45.035 44.905 -20.022 1.00128.13 ATOM 210 CB ARG D 579 -47.058 46.399 -18.335 1.00136.72 ATOM 211 CG ARG D 579 -47.547 47.263 -19.447 1.00139.46 ATOM 212 CD ARG D 579 -46.924 48.616 -19.319 1.00145.46 ATOM 213 NE ARG D 579 -46.350 49.032 -20.591 1.00142.85 ATOM 214 CZ ARG D 579 -46.883 49.975 -21.357 1.00127.59 ATOM 215 NH1 ARG D 579 -48.010 50.599 -20.937 1.00108.54 ATOM 216 NH2 ARG D 579 -46.274 50.294 -22.516 1.00108.62 ATOM 217 N TYR D 580 -46.967 44.331 -21.036 1.00117.67 ATOM 218 CA TYR D 580 -46.324 43.947 -22.279 1.00130.04 ATOM 219 C TYR D 580 -46.055 45.181 -23.113 1.00142.79 ATOM 220 O TYR D 580 -46.951 45.720 -23.758 1.00141.77 ATOM 221 CB TYR D 580 -47.157 42.892 -23.040 1.00133.43 ATOM 222 CG TYR D 580 -47.353 41.631 -22.235 1.00125.53 ATOM 223 CD1 TYR D 580 -46.314 41.121 -21.476 1.00137.01 ATOM 224 CD2 TYR D 580 -48.565 40.979 -22.198 1.00130.26 ATOM 225 CE1 TYR D 580 -46.456 39.992 -20.707 1.00156.08 ATOM 226 CE2 TYR D 580 -48.724 39.840 -21.435 1.00151.76 ATOM 227 CZ TYR D 580 -47.655 39.347 -20.686 1.00167.07 ATOM 228 OH TYR D 580 -47.759 38.211 -19.902 1.00183.77 ATOM 229 N LYS D 581 -44.806 45.631 -23.068 1.00159.81 ATOM 230 CA LYS D 581 -44.381 46.831 -23.777 1.00169.37 ATOM 231 C LYS D 581 -44.260 46.564 -25.275 1.00153.51 ATOM 232 O LYS D 581 -43.571 47.289 -25.990 1.00156.15 ATOM 233 CB LYS D 581 -43.026 47.313 -23.221 1.00172.56 ATOM 234 N GLY D 582 -44.954 45.529 -25.738 1.00125.41 ATOM 235 CA GLY D 582 -44.776 44.996 -27.078 1.00138.81 ATOM 236 C GLY D 582 -44.945 43.483 -27.054 1.00149.92 ATOM 237 O GLY D 582 -44.714 42.845 -26.026 1.00158.75 TER