HEADER DNA BINDING PROTEIN/DNA 31-DEC-69 6A57 TITLE Structure of histone demethylase REF6 complexed with DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: Lysine-specific demethylase REF6; COMPND 3 CHAIN: A; COMPND 4 EC: 1.14.11.-; COMPND 5 FRAGMENT: Ig gamma-1 chain C ; COMPND 6 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 2.70 ANGSTORMS DBREF 6A57 A 1223 1360 UNP Q9STM3 REF6_ARATH 1223 1360 SEQRES 1 A 30 LYS ARG ASN ILE CYS PRO ILE LYS GLY CYS GLY LYS ASN SEQRES 2 A 30 PHE PHE SER HIS LYS TYR LEU VAL GLN HIS GLN ARG VAL SEQRES 3 A 30 HIS SER ASP ASP ATOM 1 N LYS A1264 -24.224 6.573 21.403 1.00 78.12 ATOM 2 CA LYS A1264 -23.043 7.354 21.013 1.00 78.10 ATOM 3 C LYS A1264 -22.651 7.192 19.533 1.00 76.22 ATOM 4 O LYS A1264 -22.196 8.157 18.911 1.00 77.56 ATOM 5 CB LYS A1264 -21.850 7.003 21.912 1.00 77.04 ATOM 6 N ARG A1265 -22.851 5.995 18.973 1.00 71.20 ATOM 7 CA ARG A1265 -22.536 5.726 17.557 1.00 70.79 ATOM 8 C ARG A1265 -23.764 5.762 16.607 1.00 69.34 ATOM 9 O ARG A1265 -23.761 5.108 15.558 1.00 68.57 ATOM 10 CB ARG A1265 -21.735 4.417 17.425 1.00 71.38 ATOM 11 CG ARG A1265 -22.482 3.138 17.774 1.00 73.01 ATOM 12 CD ARG A1265 -21.588 1.910 17.671 1.00 73.63 ATOM 13 NE ARG A1265 -21.189 1.631 16.287 1.00 75.37 ATOM 14 CZ ARG A1265 -20.720 0.464 15.837 1.00 77.38 ATOM 15 NH1 ARG A1265 -20.586 -0.594 16.642 1.00 78.33 ATOM 16 NH2 ARG A1265 -20.390 0.348 14.552 1.00 76.01 ATOM 17 N ASN A1266 -24.785 6.548 16.969 1.00 67.35 ATOM 18 CA ASN A1266 -25.994 6.783 16.149 1.00 63.74 ATOM 19 C ASN A1266 -26.827 5.524 15.863 1.00 62.93 ATOM 20 O ASN A1266 -27.209 5.262 14.717 1.00 63.32 ATOM 21 CB ASN A1266 -25.648 7.532 14.846 1.00 62.18 ATOM 22 CG ASN A1266 -25.170 8.956 15.088 1.00 61.22 ATOM 23 OD1 ASN A1266 -25.017 9.404 16.229 1.00 59.20 ATOM 24 ND2 ASN A1266 -24.940 9.681 14.002 1.00 59.87 ATOM 25 N ILE A1267 -27.101 4.756 16.918 1.00 60.80 ATOM 26 CA ILE A1267 -27.998 3.597 16.850 1.00 58.79 ATOM 27 C ILE A1267 -29.018 3.716 17.969 1.00 56.39 ATOM 28 O ILE A1267 -28.649 4.039 19.096 1.00 57.07 ATOM 29 CB ILE A1267 -27.251 2.255 16.999 1.00 59.26 ATOM 30 CG1 ILE A1267 -26.125 2.144 15.964 1.00 60.89 ATOM 31 CG2 ILE A1267 -28.224 1.086 16.837 1.00 60.09 ATOM 32 CD1 ILE A1267 -25.218 0.942 16.153 1.00 61.59 ATOM 33 N CYS A1268 -30.290 3.451 17.664 1.00 54.20 ATOM 34 CA CYS A1268 -31.340 3.481 18.687 1.00 53.93 ATOM 35 C CYS A1268 -31.258 2.207 19.529 1.00 54.39 ATOM 36 O CYS A1268 -31.488 1.109 19.013 1.00 53.47 ATOM 37 CB CYS A1268 -32.736 3.610 18.080 1.00 53.02 ATOM 38 SG CYS A1268 -34.036 3.907 19.306 1.00 50.56 ATOM 39 N PRO A1269 -30.926 2.348 20.826 1.00 54.24 ATOM 40 CA PRO A1269 -30.750 1.172 21.671 1.00 54.24 ATOM 41 C PRO A1269 -32.052 0.474 22.078 1.00 52.50 ATOM 42 O PRO A1269 -32.001 -0.704 22.440 1.00 55.71 ATOM 43 CB PRO A1269 -30.052 1.744 22.905 1.00 56.06 ATOM 44 CG PRO A1269 -30.609 3.123 23.018 1.00 56.44 ATOM 45 CD PRO A1269 -30.803 3.599 21.604 1.00 55.28 ATOM 46 N ILE A1270 -33.190 1.177 22.027 1.00 48.36 ATOM 47 CA ILE A1270 -34.493 0.603 22.409 1.00 47.02 ATOM 48 C ILE A1270 -34.649 -0.788 21.792 1.00 45.89 ATOM 49 O ILE A1270 -34.306 -0.991 20.628 1.00 46.38 ATOM 50 CB ILE A1270 -35.685 1.539 22.029 1.00 46.87 ATOM 51 CG1 ILE A1270 -35.985 2.531 23.164 1.00 47.53 ATOM 52 CG2 ILE A1270 -36.974 0.766 21.744 1.00 46.41 ATOM 53 CD1 ILE A1270 -34.912 3.567 23.393 1.00 48.76 ATOM 54 N LYS A1271 -35.148 -1.738 22.583 1.00 46.22 ATOM 55 CA LYS A1271 -35.234 -3.132 22.142 1.00 46.63 ATOM 56 C LYS A1271 -36.254 -3.242 21.007 1.00 44.14 ATOM 57 O LYS A1271 -37.329 -2.657 21.084 1.00 43.01 ATOM 58 CB LYS A1271 -35.593 -4.075 23.304 1.00 49.27 ATOM 59 CG LYS A1271 -35.022 -5.479 23.125 1.00 54.22 ATOM 60 CD LYS A1271 -35.761 -6.570 23.901 1.00 57.70 ATOM 61 CE LYS A1271 -35.437 -6.563 25.392 1.00 60.86 ATOM 62 NZ LYS A1271 -34.040 -6.973 25.716 1.00 62.83 ATOM 63 N GLY A1272 -35.887 -3.951 19.940 1.00 42.97 ATOM 64 CA GLY A1272 -36.737 -4.096 18.750 1.00 42.28 ATOM 65 C GLY A1272 -36.512 -3.082 17.635 1.00 41.92 ATOM 66 O GLY A1272 -36.980 -3.295 16.518 1.00 42.09 ATOM 67 N CYS A1273 -35.803 -1.986 17.925 1.00 41.42 ATOM 68 CA CYS A1273 -35.525 -0.939 16.938 1.00 40.96 ATOM 69 C CYS A1273 -34.165 -1.189 16.265 1.00 40.85 ATOM 70 O CYS A1273 -34.108 -1.871 15.234 1.00 39.84 ATOM 71 CB CYS A1273 -35.629 0.445 17.596 1.00 40.57 ATOM 72 SG CYS A1273 -35.335 1.823 16.477 1.00 39.94 ATOM 73 N GLY A1274 -33.080 -0.684 16.854 1.00 42.00 ATOM 74 CA GLY A1274 -31.727 -0.916 16.335 1.00 43.22 ATOM 75 C GLY A1274 -31.425 -0.253 15.001 1.00 44.68 ATOM 76 O GLY A1274 -30.588 -0.743 14.239 1.00 45.63 ATOM 77 N LYS A1275 -32.095 0.865 14.724 1.00 44.88 ATOM 78 CA LYS A1275 -31.923 1.577 13.465 1.00 44.60 ATOM 79 C LYS A1275 -30.678 2.447 13.523 1.00 44.38 ATOM 80 O LYS A1275 -30.408 3.056 14.553 1.00 41.94 ATOM 81 CB LYS A1275 -33.137 2.462 13.165 1.00 45.20 ATOM 82 CG LYS A1275 -34.383 1.700 12.736 1.00 44.84 ATOM 83 CD LYS A1275 -35.494 2.656 12.331 1.00 43.88 ATOM 84 CE LYS A1275 -36.641 1.937 11.649 1.00 43.57 ATOM 85 NZ LYS A1275 -37.477 2.873 10.850 1.00 43.43 ATOM 86 N ASN A1276 -29.938 2.492 12.412 1.00 45.80 ATOM 87 CA ASN A1276 -28.836 3.443 12.221 1.00 46.98 ATOM 88 C ASN A1276 -29.406 4.782 11.786 1.00 47.74 ATOM 89 O ASN A1276 -30.457 4.833 11.151 1.00 46.03 ATOM 90 CB ASN A1276 -27.863 2.950 11.153 1.00 47.08 ATOM 91 CG ASN A1276 -27.243 1.619 11.503 1.00 47.77 ATOM 92 OD1 ASN A1276 -26.574 1.486 12.525 1.00 56.89 ATOM 93 ND2 ASN A1276 -27.465 0.620 10.658 1.00 49.41 ATOM 94 N PHE A1277 -28.717 5.865 12.130 1.00 50.95 ATOM 95 CA PHE A1277 -29.144 7.215 11.750 1.00 55.05 ATOM 96 C PHE A1277 -27.965 8.039 11.254 1.00 58.50 ATOM 97 O PHE A1277 -26.833 7.838 11.692 1.00 60.85 ATOM 98 CB PHE A1277 -29.834 7.910 12.929 1.00 54.93 ATOM 99 CG PHE A1277 -31.107 7.237 13.349 1.00 54.74 ATOM 100 CD1 PHE A1277 -31.088 6.222 14.298 1.00 55.10 ATOM 101 CD2 PHE A1277 -32.320 7.587 12.768 1.00 55.10 ATOM 102 CE1 PHE A1277 -32.254 5.578 14.671 1.00 54.82 ATOM 103 CE2 PHE A1277 -33.493 6.946 13.140 1.00 55.42 ATOM 104 CZ PHE A1277 -33.458 5.940 14.092 1.00 55.53 ATOM 105 N PHE A1278 -28.241 8.960 10.334 1.00 62.74 ATOM 106 CA PHE A1278 -27.204 9.829 9.763 1.00 66.78 ATOM 107 C PHE A1278 -26.799 10.945 10.737 1.00 65.70 ATOM 108 O PHE A1278 -25.611 11.226 10.884 1.00 65.92 ATOM 109 CB PHE A1278 -27.660 10.408 8.408 1.00 72.10 ATOM 110 CG PHE A1278 -27.398 9.498 7.220 1.00 79.04 ATOM 111 CD1 PHE A1278 -27.464 8.100 7.328 1.00 82.00 ATOM 112 CD2 PHE A1278 -27.102 10.047 5.969 1.00 84.23 ATOM 113 CE1 PHE A1278 -27.228 7.285 6.223 1.00 84.28 ATOM 114 CE2 PHE A1278 -26.867 9.232 4.862 1.00 85.55 ATOM 115 CZ PHE A1278 -26.930 7.850 4.990 1.00 84.64 ATOM 116 N SER A1279 -27.782 11.559 11.399 1.00 65.00 ATOM 117 CA SER A1279 -27.554 12.646 12.360 1.00 63.17 ATOM 118 C SER A1279 -27.808 12.181 13.794 1.00 64.31 ATOM 119 O SER A1279 -28.818 11.529 14.067 1.00 67.93 ATOM 120 CB SER A1279 -28.473 13.827 12.038 1.00 62.21 ATOM 121 OG SER A1279 -28.551 14.738 13.122 1.00 62.61 ATOM 122 N HIS A1280 -26.901 12.538 14.705 1.00 63.02 ATOM 123 CA HIS A1280 -27.075 12.271 16.140 1.00 61.73 ATOM 124 C HIS A1280 -28.209 13.116 16.731 1.00 58.45 ATOM 125 O HIS A1280 -28.923 12.657 17.628 1.00 56.85 ATOM 126 CB HIS A1280 -25.766 12.543 16.901 1.00 64.45 ATOM 127 CG HIS A1280 -25.773 12.073 18.328 1.00 66.23 ATOM 128 ND1 HIS A1280 -25.382 10.802 18.695 1.00 68.18 ATOM 129 CD2 HIS A1280 -26.101 12.710 19.480 1.00 66.04 ATOM 130 CE1 HIS A1280 -25.477 10.674 20.007 1.00 67.90 ATOM 131 NE2 HIS A1280 -25.910 11.818 20.508 1.00 66.53 ATOM 132 N LYS A1281 -28.368 14.346 16.235 1.00 56.13 ATOM 133 CA LYS A1281 -29.433 15.239 16.706 1.00 53.98 ATOM 134 C LYS A1281 -30.819 14.685 16.397 1.00 52.82 ATOM 135 O LYS A1281 -31.747 14.894 17.174 1.00 52.97 ATOM 136 CB LYS A1281 -29.289 16.636 16.102 1.00 53.95 ATOM 137 N TYR A1282 -30.954 13.980 15.269 1.00 52.63 ATOM 138 CA TYR A1282 -32.217 13.302 14.931 1.00 51.79 ATOM 139 C TYR A1282 -32.499 12.099 15.848 1.00 53.06 ATOM 140 O TYR A1282 -33.661 11.844 16.171 1.00 53.02 ATOM 141 CB TYR A1282 -32.291 12.875 13.447 1.00 47.78 ATOM 142 CG TYR A1282 -33.636 12.261 13.111 1.00 43.81 ATOM 143 CD1 TYR A1282 -34.788 13.048 13.055 1.00 42.21 ATOM 144 CD2 TYR A1282 -33.770 10.887 12.922 1.00 41.80 ATOM 145 CE1 TYR A1282 -36.031 12.487 12.787 1.00 41.08 ATOM 146 CE2 TYR A1282 -35.006 10.315 12.652 1.00 40.38 ATOM 147 CZ TYR A1282 -36.137 11.115 12.585 1.00 40.54 ATOM 148 OH TYR A1282 -37.373 10.557 12.318 1.00 38.85 ATOM 149 N LEU A1283 -31.457 11.379 16.275 1.00 53.52 ATOM 150 CA LEU A1283 -31.614 10.247 17.219 1.00 52.78 ATOM 151 C LEU A1283 -32.479 10.603 18.439 1.00 49.54 ATOM 152 O LEU A1283 -33.245 9.778 18.914 1.00 48.57 ATOM 153 CB LEU A1283 -30.250 9.704 17.684 1.00 54.80 ATOM 154 CG LEU A1283 -30.098 8.177 17.742 1.00 58.87 ATOM 155 CD1 LEU A1283 -28.759 7.805 18.365 1.00 60.38 ATOM 156 CD2 LEU A1283 -31.228 7.486 18.499 1.00 61.09 ATOM 157 N VAL A1284 -32.353 11.835 18.923 1.00 49.16 ATOM 158 CA VAL A1284 -33.214 12.362 19.986 1.00 49.94 ATOM 159 C VAL A1284 -34.638 12.603 19.480 1.00 49.17 ATOM 160 O VAL A1284 -35.606 12.277 20.169 1.00 48.50 ATOM 161 CB VAL A1284 -32.633 13.674 20.579 1.00 51.86 ATOM 162 CG1 VAL A1284 -33.619 14.354 21.529 1.00 51.89 ATOM 163 CG2 VAL A1284 -31.320 13.385 21.300 1.00 53.95 ATOM 164 N GLN A1285 -34.750 13.197 18.292 1.00 48.54 ATOM 165 CA GLN A1285 -36.051 13.459 17.653 1.00 47.25 ATOM 166 C GLN A1285 -36.779 12.155 17.281 1.00 42.54 ATOM 167 O GLN A1285 -38.004 12.082 17.360 1.00 38.67 ATOM 168 CB GLN A1285 -35.885 14.318 16.390 1.00 51.29 ATOM 169 CG GLN A1285 -35.147 15.645 16.549 1.00 54.14 ATOM 170 CD GLN A1285 -35.978 16.715 17.227 1.00 56.93 ATOM 171 OE1 GLN A1285 -36.450 16.537 18.353 1.00 60.38 ATOM 172 NE2 GLN A1285 -36.148 17.846 16.548 1.00 59.45 ATOM 173 N HIS A1286 -36.006 11.148 16.874 1.00 40.03 ATOM 174 CA HIS A1286 -36.496 9.797 16.586 1.00 39.82 ATOM 175 C HIS A1286 -37.242 9.154 17.749 1.00 39.60 ATOM 176 O HIS A1286 -38.211 8.425 17.535 1.00 38.99 ATOM 177 CB HIS A1286 -35.330 8.881 16.181 1.00 39.88 ATOM 178 CG HIS A1286 -35.648 7.421 16.268 1.00 39.97 ATOM 179 ND1 HIS A1286 -36.434 6.774 15.342 1.00 40.69 ATOM 180 CD2 HIS A1286 -35.300 6.487 17.183 1.00 40.91 ATOM 181 CE1 HIS A1286 -36.552 5.502 15.679 1.00 41.19 ATOM 182 NE2 HIS A1286 -35.869 5.300 16.791 1.00 40.96 ATOM 183 N GLN A1287 -36.806 9.432 18.975 1.00 39.83 ATOM 184 CA GLN A1287 -37.371 8.774 20.158 1.00 40.06 ATOM 185 C GLN A1287 -38.883 8.941 20.323 1.00 39.29 ATOM 186 O GLN A1287 -39.504 8.152 21.040 1.00 40.12 ATOM 187 CB GLN A1287 -36.655 9.227 21.443 1.00 41.13 ATOM 188 CG GLN A1287 -35.174 8.864 21.537 1.00 41.67 ATOM 189 CD GLN A1287 -34.887 7.382 21.306 1.00 43.72 ATOM 190 OE1 GLN A1287 -35.472 6.513 21.964 1.00 44.79 ATOM 191 NE2 GLN A1287 -33.966 7.088 20.381 1.00 43.35 ATOM 192 N ARG A1288 -39.473 9.942 19.663 1.00 38.04 ATOM 193 CA ARG A1288 -40.923 10.155 19.719 1.00 37.55 ATOM 194 C ARG A1288 -41.758 9.006 19.139 1.00 36.48 ATOM 195 O ARG A1288 -42.914 8.843 19.538 1.00 36.68 ATOM 196 CB ARG A1288 -41.316 11.473 19.048 1.00 38.07 ATOM 197 CG ARG A1288 -41.265 11.459 17.530 1.00 40.12 ATOM 198 CD ARG A1288 -41.489 12.849 16.976 1.00 41.25 ATOM 199 NE ARG A1288 -40.351 13.732 17.220 1.00 41.80 ATOM 200 CZ ARG A1288 -40.317 15.032 16.919 1.00 42.73 ATOM 201 NH1 ARG A1288 -41.364 15.637 16.351 1.00 41.65 ATOM 202 NH2 ARG A1288 -39.219 15.738 17.189 1.00 43.63 ATOM 203 N VAL A1289 -41.192 8.224 18.214 1.00 34.25 ATOM 204 CA VAL A1289 -41.894 7.037 17.692 1.00 34.10 ATOM 205 C VAL A1289 -42.099 5.986 18.776 1.00 33.80 ATOM 206 O VAL A1289 -43.037 5.192 18.707 1.00 34.22 ATOM 207 CB VAL A1289 -41.190 6.368 16.477 1.00 33.82 ATOM 208 CG1 VAL A1289 -41.045 7.351 15.321 1.00 34.36 ATOM 209 CG2 VAL A1289 -39.845 5.757 16.852 1.00 33.38 ATOM 210 N HIS A1290 -41.216 5.982 19.769 1.00 33.54 ATOM 211 CA HIS A1290 -41.334 5.070 20.896 1.00 33.37 ATOM 212 C HIS A1290 -42.280 5.594 21.989 1.00 34.75 ATOM 213 O HIS A1290 -42.885 4.800 22.699 1.00 37.80 ATOM 214 CB HIS A1290 -39.942 4.721 21.421 1.00 32.16 ATOM 215 CG HIS A1290 -39.055 4.117 20.371 1.00 31.43 ATOM 216 ND1 HIS A1290 -39.351 2.925 19.747 1.00 30.67 ATOM 217 CD2 HIS A1290 -37.904 4.558 19.808 1.00 30.61 ATOM 218 CE1 HIS A1290 -38.417 2.653 18.854 1.00 30.36 ATOM 219 NE2 HIS A1290 -37.523 3.624 18.877 1.00 29.96 ATOM 220 N SER A1291 -42.437 6.910 22.113 1.00 35.64 ATOM 221 CA SER A1291 -43.440 7.481 23.025 1.00 36.52 ATOM 222 C SER A1291 -44.823 7.401 22.406 1.00 37.57 ATOM 223 O SER A1291 -44.975 7.543 21.200 1.00 37.37 ATOM 224 CB SER A1291 -43.116 8.937 23.359 1.00 36.10 ATOM 225 N ASP A1292 -45.833 7.198 23.243 1.00 41.38 ATOM 226 CA ASP A1292 -47.217 7.048 22.780 1.00 44.88 ATOM 227 C ASP A1292 -47.959 8.383 22.637 1.00 44.14 ATOM 228 O ASP A1292 -49.111 8.395 22.204 1.00 43.47 ATOM 229 CB ASP A1292 -48.001 6.124 23.733 1.00 48.23 ATOM 230 CG ASP A1292 -47.360 4.728 23.892 1.00 52.26 ATOM 231 OD1 ASP A1292 -46.537 4.300 23.039 1.00 54.16 ATOM 232 OD2 ASP A1292 -47.690 4.047 24.888 1.00 54.42 ATOM 233 N ASP A1293 -47.314 9.495 22.995 1.00 44.62 ATOM 234 CA ASP A1293 -47.974 10.805 22.990 1.00 46.46 ATOM 235 C ASP A1293 -47.897 11.484 21.624 1.00 43.83 ATOM 236 O ASP A1293 -46.932 11.312 20.881 1.00 44.91 ATOM 237 CB ASP A1293 -47.437 11.731 24.099 1.00 51.25 ATOM 238 CG ASP A1293 -45.946 12.007 23.982 1.00 56.23 ATOM 239 OD1 ASP A1293 -45.228 11.159 23.405 1.00 62.05 ATOM 240 OD2 ASP A1293 -45.494 13.061 24.486 1.00 58.07 ATOM 241 ZN ZN A1401 -26.496 11.816 22.525 0.70 60.26 ATOM 242 ZN ZN A1402 -35.809 3.576 17.854 1.00 38.67 TER