HEADER TRANSFERASE 31-DEC-69 7O45 TITLE Crystal structure of ADD domain of the human DNMT3B methyltransferase COMPND MOL_ID: 1; COMPND 2 MOLECULE: Isoform 6 of DNA (cytosine-5)-methyltransferase 3B; COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 2.1.1.37; COMPND 5 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 2.10 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 ARG D 32 REMARK 465 LYS D 33 REMARK 465 ASN D 34 REMARK 465 PRO D 35 REMARK 465 VAL D 36 DBREF 7O45 D 412 554 UNP Q9UBC3 DNM3B_HUMAN 404 546 SEQRES 1 D 37 MET ALA SER ASP VAL ALA ASN ASN LYS SER SER LEU GLU SEQRES 2 D 37 ASP GLY CYS LEU SER CYS GLY ARG LYS ASN PRO VAL SER SEQRES 3 D 37 PHE HIS PRO LEU PHE GLU GLY GLY LEU CYS GLN ATOM 1 N MET D 420 -57.323 2.600 -9.999 1.00107.00 ATOM 2 CA MET D 420 -56.258 1.556 -10.175 1.00104.25 ATOM 3 C MET D 420 -56.480 0.414 -9.171 1.00103.20 ATOM 4 O MET D 420 -56.582 -0.756 -9.626 1.00101.86 ATOM 5 CB MET D 420 -54.861 2.153 -9.975 1.00102.19 ATOM 6 CG MET D 420 -53.727 1.165 -10.219 1.00100.20 ATOM 7 SD MET D 420 -52.117 1.978 -10.319 1.00 99.96 ATOM 8 N ALA D 421 -56.538 0.752 -7.870 1.00100.85 ATOM 9 CA ALA D 421 -56.726 -0.171 -6.720 1.00 96.79 ATOM 10 C ALA D 421 -58.012 -0.997 -6.880 1.00 99.93 ATOM 11 O ALA D 421 -57.965 -2.200 -6.548 1.00 95.76 ATOM 12 CB ALA D 421 -56.743 0.596 -5.418 1.00 95.90 ATOM 13 N SER D 422 -59.108 -0.384 -7.356 1.00102.45 ATOM 14 CA SER D 422 -60.436 -1.040 -7.537 1.00105.26 ATOM 15 C SER D 422 -60.430 -1.970 -8.762 1.00105.41 ATOM 16 O SER D 422 -61.056 -3.045 -8.671 1.00106.69 ATOM 17 CB SER D 422 -61.562 -0.034 -7.626 1.00106.68 ATOM 18 OG SER D 422 -62.822 -0.694 -7.593 1.00106.35 ATOM 19 N ASP D 423 -59.785 -1.563 -9.866 1.00105.54 ATOM 20 CA ASP D 423 -59.658 -2.359 -11.122 1.00106.52 ATOM 21 C ASP D 423 -58.821 -3.628 -10.853 1.00104.46 ATOM 22 O ASP D 423 -59.285 -4.728 -11.225 1.00100.64 ATOM 23 CB ASP D 423 -59.084 -1.501 -12.258 1.00106.05 ATOM 24 N VAL D 424 -57.644 -3.482 -10.224 1.00102.05 ATOM 25 CA VAL D 424 -56.698 -4.588 -9.855 1.00 97.54 ATOM 26 C VAL D 424 -57.385 -5.551 -8.870 1.00 95.13 ATOM 27 O VAL D 424 -57.211 -6.784 -9.030 1.00 92.37 ATOM 28 CB VAL D 424 -55.376 -4.031 -9.276 1.00 97.36 ATOM 29 CG1 VAL D 424 -54.520 -5.107 -8.615 1.00 93.24 ATOM 30 CG2 VAL D 424 -54.561 -3.284 -10.329 1.00 98.15 ATOM 31 N ALA D 425 -58.099 -5.014 -7.873 1.00 93.97 ATOM 32 CA ALA D 425 -58.843 -5.783 -6.844 1.00 95.63 ATOM 33 C ALA D 425 -59.870 -6.725 -7.497 1.00 96.47 ATOM 34 O ALA D 425 -60.021 -7.840 -6.973 1.00 94.27 ATOM 35 CB ALA D 425 -59.505 -4.848 -5.856 1.00 96.27 ATOM 36 N ASN D 426 -60.519 -6.303 -8.597 1.00 99.60 ATOM 37 CA ASN D 426 -61.628 -7.025 -9.292 1.00106.16 ATOM 38 C ASN D 426 -61.147 -7.716 -10.592 1.00108.51 ATOM 39 O ASN D 426 -62.041 -8.135 -11.366 1.00110.38 ATOM 40 CB ASN D 426 -62.803 -6.066 -9.551 1.00108.23 ATOM 41 CG ASN D 426 -63.498 -5.597 -8.286 1.00107.50 ATOM 42 OD1 ASN D 426 -64.325 -6.308 -7.721 1.00106.55 ATOM 43 ND2 ASN D 426 -63.193 -4.389 -7.845 1.00108.30 ATOM 44 N ASN D 427 -59.821 -7.847 -10.820 1.00108.89 ATOM 45 CA ASN D 427 -59.131 -8.460 -12.002 1.00111.62 ATOM 46 C ASN D 427 -58.980 -7.499 -13.199 1.00114.62 ATOM 47 O ASN D 427 -58.056 -7.761 -14.002 1.00113.99 ATOM 48 CB ASN D 427 -59.783 -9.741 -12.541 1.00114.80 ATOM 49 CG ASN D 427 -59.894 -10.848 -11.517 1.00114.83 ATOM 50 OD1 ASN D 427 -59.069 -10.944 -10.612 1.00116.02 ATOM 51 ND2 ASN D 427 -60.896 -11.700 -11.671 1.00116.46 ATOM 52 N LYS D 428 -59.819 -6.457 -13.329 1.00118.97 ATOM 53 CA LYS D 428 -59.979 -5.597 -14.544 1.00121.26 ATOM 54 C LYS D 428 -58.629 -5.052 -15.043 1.00120.51 ATOM 55 O LYS D 428 -58.474 -4.965 -16.279 1.00121.89 ATOM 56 CB LYS D 428 -60.935 -4.431 -14.261 1.00122.64 ATOM 57 N SER D 429 -57.704 -4.713 -14.129 1.00117.44 ATOM 58 CA SER D 429 -56.339 -4.176 -14.396 1.00114.25 ATOM 59 C SER D 429 -55.264 -5.147 -13.884 1.00111.04 ATOM 60 O SER D 429 -55.578 -6.006 -13.032 1.00107.79 ATOM 61 CB SER D 429 -56.164 -2.809 -13.771 1.00111.20 ATOM 62 N SER D 430 -54.047 -5.014 -14.415 1.00111.26 ATOM 63 CA SER D 430 -52.777 -5.531 -13.834 1.00111.14 ATOM 64 C SER D 430 -52.150 -4.427 -12.963 1.00110.78 ATOM 65 O SER D 430 -52.411 -3.232 -13.243 1.00113.30 ATOM 66 CB SER D 430 -51.838 -5.999 -14.929 1.00113.17 ATOM 67 OG SER D 430 -50.576 -6.402 -14.411 1.00111.35 ATOM 68 N LEU D 431 -51.388 -4.806 -11.927 1.00107.55 ATOM 69 CA LEU D 431 -50.518 -3.876 -11.147 1.00104.48 ATOM 70 C LEU D 431 -49.433 -3.316 -12.077 1.00104.49 ATOM 71 O LEU D 431 -49.221 -2.092 -12.034 1.00100.18 ATOM 72 CB LEU D 431 -49.885 -4.578 -9.933 1.00101.39 ATOM 73 CG LEU D 431 -50.776 -4.736 -8.698 1.00101.33 ATOM 74 CD1 LEU D 431 -50.114 -5.603 -7.638 1.00 98.89 ATOM 75 CD2 LEU D 431 -51.154 -3.384 -8.101 1.00101.50 ATOM 76 N GLU D 432 -48.811 -4.180 -12.896 1.00106.33 ATOM 77 CA GLU D 432 -47.711 -3.843 -13.851 1.00107.50 ATOM 78 C GLU D 432 -48.219 -2.865 -14.930 1.00112.26 ATOM 79 O GLU D 432 -47.403 -2.035 -15.379 1.00117.14 ATOM 80 CB GLU D 432 -47.106 -5.106 -14.484 1.00106.91 ATOM 81 CG GLU D 432 -46.477 -6.092 -13.494 1.00104.43 ATOM 82 CD GLU D 432 -45.289 -5.602 -12.671 1.00102.46 ATOM 83 OE1 GLU D 432 -45.476 -5.329 -11.467 1.00 95.94 ATOM 84 OE2 GLU D 432 -44.168 -5.523 -13.224 1.00103.77 ATOM 85 N ASP D 433 -49.500 -2.950 -15.322 1.00113.84 ATOM 86 CA ASP D 433 -50.201 -1.961 -16.192 1.00116.58 ATOM 87 C ASP D 433 -50.795 -0.851 -15.308 1.00115.76 ATOM 88 O ASP D 433 -52.019 -0.869 -15.073 1.00120.47 ATOM 89 CB ASP D 433 -51.274 -2.642 -17.053 1.00118.12 ATOM 90 CG ASP D 433 -50.753 -3.659 -18.056 1.00120.23 ATOM 91 OD1 ASP D 433 -49.739 -3.367 -18.724 1.00121.92 ATOM 92 OD2 ASP D 433 -51.380 -4.733 -18.175 1.00120.96 ATOM 93 N GLY D 434 -49.957 0.078 -14.832 1.00112.71 ATOM 94 CA GLY D 434 -50.353 1.203 -13.955 1.00111.74 ATOM 95 C GLY D 434 -49.275 1.550 -12.941 1.00108.87 ATOM 96 O GLY D 434 -48.473 0.660 -12.605 1.00103.16 ATOM 97 N CYS D 435 -49.268 2.798 -12.459 1.00110.75 ATOM 98 CA CYS D 435 -48.248 3.361 -11.529 1.00111.15 ATOM 99 C CYS D 435 -48.751 3.274 -10.080 1.00109.73 ATOM 100 O CYS D 435 -49.796 3.891 -9.791 1.00109.81 ATOM 101 CB CYS D 435 -47.918 4.807 -11.886 1.00115.48 ATOM 102 SG CYS D 435 -46.645 5.468 -10.855 1.00114.33 ATOM 103 N LEU D 436 -48.002 2.587 -9.202 1.00106.71 ATOM 104 CA LEU D 436 -48.317 2.429 -7.751 1.00104.89 ATOM 105 C LEU D 436 -48.128 3.751 -6.979 1.00107.45 ATOM 106 O LEU D 436 -48.719 3.842 -5.880 1.00106.42 ATOM 107 CB LEU D 436 -47.447 1.315 -7.155 1.00101.87 ATOM 108 N SER D 437 -47.352 4.723 -7.501 1.00108.21 ATOM 109 CA SER D 437 -47.095 6.054 -6.873 1.00109.64 ATOM 110 C SER D 437 -48.289 7.008 -7.071 1.00110.19 ATOM 111 O SER D 437 -48.588 7.753 -6.117 1.00107.78 ATOM 112 CB SER D 437 -45.794 6.681 -7.355 1.00111.29 ATOM 113 OG SER D 437 -45.978 7.479 -8.520 1.00118.13 ATOM 114 N CYS D 438 -48.909 7.022 -8.263 1.00110.61 ATOM 115 CA CYS D 438 -50.104 7.853 -8.608 1.00112.80 ATOM 116 C CYS D 438 -50.978 7.136 -9.655 1.00111.29 ATOM 117 O CYS D 438 -52.005 6.542 -9.247 1.00111.61 ATOM 118 CB CYS D 438 -49.699 9.261 -9.048 1.00118.92 ATOM 119 SG CYS D 438 -48.654 9.365 -10.476 1.00118.51 ATOM 120 N GLY D 439 -50.580 7.156 -10.935 1.00109.26 ATOM 121 CA GLY D 439 -51.318 6.536 -12.057 1.00107.87 ATOM 122 C GLY D 439 -50.675 6.835 -13.404 1.00107.84 ATOM 123 O GLY D 439 -50.651 5.911 -14.242 1.00102.72 ATOM 124 N SER D 445 -41.535 2.526 -16.168 1.00102.74 ATOM 125 CA SER D 445 -40.811 1.273 -15.822 1.00101.89 ATOM 126 C SER D 445 -41.597 0.476 -14.758 1.00103.26 ATOM 127 O SER D 445 -42.680 -0.033 -15.119 1.00 99.23 ATOM 128 CB SER D 445 -39.380 1.575 -15.420 1.00100.87 ATOM 129 OG SER D 445 -39.328 2.293 -14.194 1.00 96.78 ATOM 130 N PHE D 446 -41.101 0.383 -13.510 1.00106.19 ATOM 131 CA PHE D 446 -41.601 -0.529 -12.438 1.00104.95 ATOM 132 C PHE D 446 -41.160 -0.032 -11.047 1.00104.02 ATOM 133 O PHE D 446 -40.078 0.602 -10.936 1.00107.47 ATOM 134 CB PHE D 446 -41.144 -1.971 -12.700 1.00104.87 ATOM 135 CG PHE D 446 -39.652 -2.191 -12.631 1.00108.90 ATOM 136 CD1 PHE D 446 -38.829 -1.843 -13.700 1.00110.02 ATOM 137 CD2 PHE D 446 -39.064 -2.736 -11.492 1.00106.80 ATOM 138 CE1 PHE D 446 -37.453 -2.029 -13.632 1.00109.16 ATOM 139 CE2 PHE D 446 -37.687 -2.924 -11.428 1.00109.11 ATOM 140 CZ PHE D 446 -36.884 -2.569 -12.496 1.00108.61 ATOM 141 N HIS D 447 -41.980 -0.301 -10.021 1.00 98.74 ATOM 142 CA HIS D 447 -41.667 -0.071 -8.580 1.00 96.52 ATOM 143 C HIS D 447 -40.716 -1.178 -8.103 1.00 92.97 ATOM 144 O HIS D 447 -41.042 -2.358 -8.274 1.00 88.76 ATOM 145 CB HIS D 447 -42.961 0.004 -7.736 1.00 92.90 ATOM 146 CG HIS D 447 -42.764 0.538 -6.353 1.00 91.20 ATOM 147 ND1 HIS D 447 -42.012 -0.127 -5.402 1.00 86.28 ATOM 148 CD2 HIS D 447 -43.212 1.663 -5.752 1.00 92.16 ATOM 149 CE1 HIS D 447 -41.984 0.575 -4.288 1.00 88.81 ATOM 150 NE2 HIS D 447 -42.716 1.674 -4.476 1.00 90.39 ATOM 151 N PRO D 448 -39.546 -0.858 -7.474 1.00 90.10 ATOM 152 CA PRO D 448 -38.521 -1.870 -7.153 1.00 88.02 ATOM 153 C PRO D 448 -38.885 -3.002 -6.160 1.00 85.46 ATOM 154 O PRO D 448 -38.427 -4.128 -6.366 1.00 80.47 ATOM 155 CB PRO D 448 -37.371 -1.016 -6.570 1.00 88.87 ATOM 156 CG PRO D 448 -38.047 0.215 -6.024 1.00 88.37 ATOM 157 CD PRO D 448 -39.143 0.491 -7.026 1.00 89.05 ATOM 158 N LEU D 449 -39.685 -2.697 -5.125 1.00 82.87 ATOM 159 CA LEU D 449 -39.911 -3.545 -3.914 1.00 80.67 ATOM 160 C LEU D 449 -41.292 -4.221 -3.939 1.00 79.91 ATOM 161 O LEU D 449 -41.361 -5.402 -3.517 1.00 71.31 ATOM 162 CB LEU D 449 -39.752 -2.670 -2.666 1.00 81.41 ATOM 163 CG LEU D 449 -38.384 -2.003 -2.492 1.00 84.03 ATOM 164 CD1 LEU D 449 -38.409 -1.007 -1.340 1.00 85.42 ATOM 165 CD2 LEU D 449 -37.286 -3.044 -2.297 1.00 83.21 ATOM 166 N PHE D 450 -42.342 -3.500 -4.368 1.00 83.44 ATOM 167 CA PHE D 450 -43.755 -3.972 -4.446 1.00 87.22 ATOM 168 C PHE D 450 -44.189 -4.092 -5.917 1.00 84.54 ATOM 169 O PHE D 450 -43.626 -3.381 -6.782 1.00 84.58 ATOM 170 CB PHE D 450 -44.678 -3.048 -3.639 1.00 90.92 ATOM 171 CG PHE D 450 -44.341 -2.954 -2.169 1.00 95.28 ATOM 172 CD1 PHE D 450 -44.723 -3.959 -1.285 1.00 94.69 ATOM 173 CD2 PHE D 450 -43.628 -1.869 -1.666 1.00 98.05 ATOM 174 CE1 PHE D 450 -44.401 -3.880 0.065 1.00 97.66 ATOM 175 CE2 PHE D 450 -43.306 -1.792 -0.315 1.00100.82 ATOM 176 CZ PHE D 450 -43.694 -2.797 0.548 1.00100.56 ATOM 177 N GLU D 451 -45.149 -4.984 -6.192 1.00 82.55 ATOM 178 CA GLU D 451 -45.725 -5.221 -7.549 1.00 85.70 ATOM 179 C GLU D 451 -46.426 -3.942 -8.032 1.00 87.24 ATOM 180 O GLU D 451 -47.295 -3.430 -7.295 1.00 83.52 ATOM 181 CB GLU D 451 -46.693 -6.410 -7.551 1.00 84.40 ATOM 182 CG GLU D 451 -45.999 -7.752 -7.349 1.00 85.19 ATOM 183 CD GLU D 451 -46.860 -8.998 -7.502 1.00 85.60 ATOM 184 OE1 GLU D 451 -46.400 -10.078 -7.062 1.00 79.46 ATOM 185 OE2 GLU D 451 -47.981 -8.898 -8.067 1.00 86.39 ATOM 186 N GLY D 452 -46.041 -3.444 -9.212 1.00 90.45 ATOM 187 CA GLY D 452 -46.553 -2.183 -9.786 1.00 95.66 ATOM 188 C GLY D 452 -45.586 -1.537 -10.767 1.00 98.19 ATOM 189 O GLY D 452 -44.375 -1.870 -10.736 1.00 93.52 ATOM 190 N GLY D 453 -46.116 -0.646 -11.613 1.00101.00 ATOM 191 CA GLY D 453 -45.341 0.329 -12.402 1.00103.49 ATOM 192 C GLY D 453 -44.876 1.497 -11.541 1.00106.18 ATOM 193 O GLY D 453 -45.351 1.618 -10.382 1.00105.37 ATOM 194 N LEU D 454 -43.988 2.337 -12.089 1.00108.28 ATOM 195 CA LEU D 454 -43.551 3.631 -11.492 1.00109.20 ATOM 196 C LEU D 454 -43.332 4.660 -12.617 1.00114.40 ATOM 197 O LEU D 454 -42.577 4.332 -13.561 1.00115.90 ATOM 198 CB LEU D 454 -42.280 3.388 -10.670 1.00107.34 ATOM 199 CG LEU D 454 -42.041 4.352 -9.507 1.00107.27 ATOM 200 CD1 LEU D 454 -43.005 4.075 -8.362 1.00103.05 ATOM 201 CD2 LEU D 454 -40.601 4.258 -9.027 1.00106.30 ATOM 202 N CYS D 455 -43.981 5.836 -12.530 1.00116.27 ATOM 203 CA CYS D 455 -43.905 6.970 -13.508 1.00119.91 ATOM 204 C CYS D 455 -42.562 7.714 -13.379 1.00118.39 ATOM 205 O CYS D 455 -41.986 7.725 -12.265 1.00115.71 ATOM 206 CB CYS D 455 -45.074 7.941 -13.332 1.00121.59 ATOM 207 SG CYS D 455 -45.184 8.641 -11.707 1.00119.77 ATOM 208 N GLN D 456 -42.090 8.325 -14.474 1.00119.25 ATOM 209 CA GLN D 456 -40.770 9.017 -14.550 1.00118.68 ATOM 210 C GLN D 456 -40.847 10.335 -13.772 1.00118.62 ATOM 211 O GLN D 456 -40.490 10.306 -12.579 1.00111.26 ATOM 212 CB GLN D 456 -40.355 9.261 -16.003 1.00123.35 ATOM 213 ZN ZN D 601 -46.951 7.761 -10.459 0.50 89.35 TER