0.022723 0.000000 0.000000 0.000000 0.017861 0.000000 0.000000 0.000000 0.007755 0.00000 0.00000 0.00000 White, M.A. Zandarashvili, L. Iwahara, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 44.009 55.989 128.952 C10 H16 N3 O7 P 321.224 n 5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE DNA linking C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking Zn 2 65.409 ZINC ION non-polymer N 1 N N N 2 N C N 3 N N N 4 N C N 5 N C N 6 N C N 7 N C N 8 N O N 9 N N N 10 R C N 11 N C N 12 S C N 13 R C N 14 N O N 15 N O N 16 N C N 17 N O N 18 N P N 19 N O N 20 N O N 21 N O N 22 N H N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N N N 39 S C N 40 N C N 41 N O N 42 N C N 43 N O N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N H N 50 N H N 51 N N N 52 S C N 53 N C N 54 N O N 55 N C N 56 N C N 57 N C N 58 N N N 59 N C N 60 N N N 61 N N N 62 N O N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N N N 79 S C N 80 N C N 81 N O N 82 N C N 83 N C N 84 N O N 85 N N N 86 N O N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N N N 96 S C N 97 N C N 98 N O N 99 N C N 100 N C N 101 N O N 102 N O N 103 N O N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N N N 112 R C N 113 N C N 114 N O N 115 N C N 116 N S N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N O N 126 N P N 127 N O N 128 N O N 129 N O N 130 N C N 131 R C N 132 N O N 133 S C N 134 N O N 135 N C N 136 R C Y 137 N N Y 138 N C Y 139 N N Y 140 N C Y 141 N C N 142 N N Y 143 N N Y 144 N C Y 145 N N Y 146 N C N 147 N H N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N O N 162 N P N 163 N O N 164 N O N 165 N O N 166 N C N 167 R C N 168 N O N 169 S C N 170 N O N 171 N C N 172 R C N 173 N N N 174 N C N 175 N O N 176 N N N 177 N C N 178 N N N 179 N C N 180 N C N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N O N 196 N P N 197 N O N 198 N O N 199 N O N 200 N C N 201 R C N 202 N O N 203 S C N 204 N O N 205 N C N 206 R C Y 207 N N Y 208 N C Y 209 N N Y 210 N C N 211 N C N 212 N O N 213 N N N 214 N C N 215 N N N 216 N N Y 217 N C N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N O N 233 N P N 234 N O N 235 N O N 236 N O N 237 N C N 238 R C N 239 N O N 240 S C N 241 N O N 242 N C N 243 R C N 244 N N N 245 N C N 246 N O N 247 N N N 248 N C N 249 N O N 250 N C N 251 N C N 252 N C N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N N N 269 S C N 270 N C N 271 N O N 272 N C N 273 N C N 274 N C N 275 N O N 276 N N N 277 N O N 278 N H N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N N N 289 S C N 290 N C N 291 N O N 292 N C N 293 N C N 294 N C N 295 N O N 296 N O N 297 N O N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N N N 308 N C N 309 N C N 310 N O N 311 N O N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N N N 318 S C N 319 N C N 320 N O N 321 N C Y 322 N C Y 323 N N Y 324 N C Y 325 N C Y 326 N N N 327 N O N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N H N 335 N H N 336 N H N 337 N H N 338 N O N 339 N H N 340 N H N 341 N N N 342 S C N 343 N C N 344 N O N 345 S C N 346 N C N 347 N C N 348 N C N 349 N O N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N N N 364 S C N 365 N C N 366 N O N 367 N C N 368 N C N 369 N C N 370 N C N 371 N O N 372 N H N 373 N H N 374 N H N 375 N H N 376 N H N 377 N H N 378 N H N 379 N H N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N N N 386 S C N 387 N C N 388 N O N 389 N C N 390 N C N 391 N C N 392 N C N 393 N N N 394 N O N 395 N H N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N H N 407 N H N 408 N H N 409 N H N 410 N N N 411 S C N 412 N C N 413 N O N 414 N C N 415 N C N 416 N S N 417 N C N 418 N O N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 N H N 425 N H N 426 N H N 427 N H N 428 N H N 429 N H N 430 N N N 431 S C N 432 N C N 433 N O N 434 N C Y 435 N C Y 436 N C Y 437 N C Y 438 N C Y 439 N C Y 440 N C N 441 N O N 442 N H N 443 N H N 444 N H N 445 N H N 446 N H N 447 N H N 448 N H N 449 N H N 450 N H N 451 N H N 452 N H N 453 N N N 454 S C N 455 N C N 456 N O N 457 N C N 458 N C N 459 N C N 460 N O N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N H N 468 N H N 469 N H N 470 N N N 471 S C N 472 N C N 473 N O N 474 N C N 475 N O N 476 N O N 477 N H N 478 N H N 479 N H N 480 N H N 481 N H N 482 N H N 483 N H N 484 N N N 485 S C N 486 N C N 487 N O N 488 R C N 489 N O N 490 N C N 491 N O N 492 N H N 493 N H N 494 N H N 495 N H N 496 N H N 497 N H N 498 N H N 499 N H N 500 N H N 501 N N N 502 S C N 503 N C N 504 N O N 505 N C Y 506 N C Y 507 N C Y 508 N C Y 509 N C Y 510 N C Y 511 N C N 512 N O N 513 N O N 514 N H N 515 N H N 516 N H N 517 N H N 518 N H N 519 N H N 520 N H N 521 N H N 522 N H N 523 N H N 524 N H N 525 N N N 526 S C N 527 N C N 528 N O N 529 N C N 530 N C N 531 N C N 532 N O N 533 N H N 534 N H N 535 N H N 536 N H N 537 N H N 538 N H N 539 N H N 540 N H N 541 N H N 542 N H N 543 N H N 544 N ZN N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N doub N 6 N doub N 7 N sing N 8 N sing N 9 N sing N 10 N doub N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N doub N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N doub N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N doub N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N doub N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N doub N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N doub N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N doub N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing Y 144 N sing Y 145 N sing Y 146 N doub N 147 N sing Y 148 N sing Y 149 N sing Y 150 N doub N 151 N sing Y 152 N doub N 153 N sing N 154 N sing Y 155 N sing Y 156 N doub N 157 N sing Y 158 N sing N 159 N sing N 160 N sing N 161 N doub N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N doub N 185 N sing N 186 N doub N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N doub N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N doub N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing Y 217 N sing Y 218 N sing Y 219 N doub N 220 N sing Y 221 N sing N 222 N sing Y 223 N doub N 224 N doub N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N doub N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N doub N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N doub N 259 N sing N 260 N sing N 261 N sing N 262 N doub N 263 N sing N 264 N sing N 265 N doub N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N doub N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N doub N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N doub N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N doub N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N doub N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N doub N 323 N sing N 324 N sing N 325 N sing N 326 N sing Y 327 N sing Y 328 N doub Y 329 N doub N 330 N sing Y 331 N sing N 332 N sing Y 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N doub N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N doub N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N doub N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing N 409 N sing N 410 N sing N 411 N doub N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 424 N sing N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N doub N 431 N sing N 432 N sing N 433 N sing N 434 N sing Y 435 N doub Y 436 N sing Y 437 N sing N 438 N sing Y 439 N doub N 440 N sing Y 441 N doub N 442 N sing Y 443 N sing N 444 N sing N 445 N sing N 446 N sing N 447 N sing N 448 N sing N 449 N sing N 450 N sing N 451 N sing N 452 N sing N 453 N doub N 454 N sing N 455 N sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N sing N 462 N sing N 463 N sing N 464 N sing N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing N 470 N doub N 471 N sing N 472 N sing N 473 N sing N 474 N sing N 475 N sing N 476 N sing N 477 N sing N 478 N sing N 479 N sing N 480 N sing N 481 N sing N 482 N sing N 483 N doub N 484 N sing N 485 N sing N 486 N sing N 487 N sing N 488 N sing N 489 N sing N 490 N sing N 491 N sing N 492 N sing N 493 N sing N 494 N sing N 495 N sing N 496 N sing N 497 N sing N 498 N sing N 499 N doub N 500 N sing N 501 N sing N 502 N sing N 503 N sing Y 504 N doub Y 505 N sing Y 506 N sing N 507 N sing Y 508 N doub N 509 N sing Y 510 N doub N 511 N sing Y 512 N sing N 513 N sing N 514 N sing N 515 N sing N 516 N sing N 517 N sing N 518 N sing N 519 N sing N 520 N sing N 521 N sing N 522 N sing N 523 N doub N 524 N sing N 525 N sing N 526 N sing N 527 N sing N 528 N sing N 529 N sing N 530 N sing N 531 N sing N 532 N sing N 533 N sing N 534 N sing NE Febs Lett. FEBLAL 0165 0014-5793 589 1748 1753 10.1016/j.febslet.2015.05.022 25999311 Structural impact of complete CpG methylation within target DNA on specific complex formation of the inducible transcription factor Egr-1. 2015 US Genes Dev. GEDEEP 2056 1549-5477 28 2304 2313 10.1101/gad.250746.114 25258363 Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence. 2014 10.2210/pdb4x9j/pdb pdb_00004x9j 90 1 CCD 2014-11-02 MARMOSAIC 225 mm CCD Si DCM SINGLE WAVELENGTH M x-ray 1 0.97872 1.0 21-ID-F APS 0.97872 SYNCHROTRON APS BEAMLINE 21-ID-F 10722.302 Early growth response protein 1 UNP residues 335-423 1 man polymer 3458.287 DNA (5'-D(*AP*GP*(5CM)P*GP*TP*GP*GP*GP*(5CM)P*GP*T)-3') 1 syn polymer 3307.205 DNA (5'-D(*TP*AP*(5CM)P*GP*CP*CP*CP*AP*(5CM)P*GP*C)-3') 1 syn polymer 65.409 ZINC ION 3 syn non-polymer 18.015 water 208 nat water EGR-1,AT225,Nerve growth factor-induced protein A,NGFI-A,Transcription factor ETR103,Transcription factor Zif268,Zinc finger protein 225,Zinc finger protein Krox-24 no no ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH TKIHLRQKD ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH TKIHLRQKD A polypeptide(L) no yes (DA)(DG)(5CM)(DG)(DT)(DG)(DG)(DG)(5CM)(DG)(DT) AGCGTGGGCGT B polydeoxyribonucleotide no yes (DT)(DA)(5CM)(DG)(DC)(DC)(DC)(DA)(5CM)(DG)(DC) TACGCCCACGC C polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Human sample 1 89 EGR1, KROX24, ZNF225 9606 Homo sapiens 562 Escherichia coli Biological sequence 1 2.32 47.00 VAPOR DIFFUSION, SITTING DROP 25mM BisTris pH8, 10% PEG-600, 450mM NaCl 7-8 290 -1.527 1 19 B 2 C 61 0.324 B_DG2:DC61_C 1 -4.195 -0.183 0.064 -0.153 6.455 1 19 B 3 C 60 -0.060 B_5CM3:DG60_C 2 -5.152 0.336 -0.134 -0.123 -1.558 1 19 B 4 C 59 -0.163 B_DG4:5CM59_C 3 -6.006 -0.250 0.014 -0.119 11.664 1 20 B 5 C 58 3.653 B_DT5:DA58_C 4 -2.558 0.015 -0.153 -0.128 2.230 1 19 B 6 C 57 0.481 B_DG6:DC57_C 5 -9.774 -0.265 0.143 -0.299 -8.416 1 19 B 7 C 56 -2.734 B_DG7:DC56_C 6 -9.268 -0.131 -0.055 -0.098 -3.923 1 19 B 8 C 55 -1.612 B_DG8:DC55_C 7 -11.647 0.048 0.125 -0.065 -2.628 1 19 B 9 C 54 -0.958 B_5CM9:DG54_C 8 -6.437 0.194 0.028 -0.094 -0.991 1 19 B 10 C 53 -1.217 B_DG10:5CM53_C 9 -8.688 -0.246 -0.017 -0.155 2.218 1 20 B 11 C 52 2.137 B_DT11:DA52_C 10 -10.151 -0.048 -0.113 -0.185 3.155 24.430 B B 2 3 5.430 C C 61 60 3.186 2.291 0.596 -0.656 BB_DG25CM3:DG60DC61_CC 1 2.488 -5.898 24.199 -2.244 -0.652 3.398 33.237 B B 3 4 12.312 C C 60 59 3.458 6.975 -1.070 -0.458 BB_5CM3DG4:5CM59DG60_CC 2 -4.247 7.497 32.246 -2.043 1.115 2.943 29.474 B B 4 5 10.212 C C 59 58 3.090 5.170 0.796 -0.643 BB_DG4DT5:DA585CM59_CC 3 0.331 -0.653 29.025 -2.289 -1.498 3.611 35.670 B B 5 6 4.089 C C 58 57 3.523 2.491 -1.015 -0.347 BB_DT5DG6:DC57DA58_CC 4 -6.097 10.008 35.076 -0.964 0.686 3.430 36.640 B B 6 7 4.007 C C 57 56 3.515 2.517 -0.932 -1.452 BB_DG6DG7:DC56DC57_CC 5 -0.815 1.297 36.548 -2.676 1.364 3.164 31.325 B B 7 8 9.657 C C 56 55 3.259 5.190 0.316 -0.230 BB_DG7DG8:DC55DC56_CC 6 -1.253 2.332 30.878 -1.394 -0.819 3.356 32.796 B B 8 9 -0.825 C C 55 54 3.268 -0.465 0.992 -0.540 BB_DG85CM9:DG54DC55_CC 7 3.235 -5.739 32.637 -0.875 -1.192 3.334 31.255 B B 9 10 8.969 C C 54 53 3.277 4.811 -1.237 0.189 BB_5CM9DG10:5CM53DG54_CC 8 -1.845 3.439 30.838 -0.576 1.940 3.170 31.413 B B 10 11 6.253 C C 53 52 3.243 3.379 0.764 -0.588 BB_DG10DT11:DA525CM53_CC 9 0.259 -0.480 31.234 -1.708 -1.363 citation entity_src_gen pdbx_audit_support pdbx_entity_src_syn pdbx_struct_oper_list chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model struct_conn struct_conn_type struct_ref_seq repository Initial release Database references Database references Author supporting evidence Database references Derived calculations Source and taxonomy Data collection Database references Derived calculations Refinement description 1 0 2015-05-13 1 1 2015-06-03 1 2 2015-07-15 1 3 2017-09-27 1 4 2023-09-27 _citation.journal_id_CSD _entity_src_gen.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_struct_oper_list.symmetry_operation _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.conn_type_id _struct_conn.id _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn_type.id _struct_ref_seq.db_align_beg _struct_ref_seq.db_align_end Same protein with singly methylated DNA N RCSB Y RCSB 2014-12-11 REL REL ZN ZINC ION HOH water 32630 synthetic construct sample 1 11 32630 synthetic construct sample 1 11 4R2A PDb entry 4R2A PDB experimental model ZN 1 4 ZN ZN 501 A ZN 2 4 ZN ZN 502 A ZN 3 4 ZN ZN 503 A HOH 118 5 HOH HOH 601 A HOH 75 5 HOH HOH 602 A HOH 123 5 HOH HOH 603 A HOH 116 5 HOH HOH 604 A HOH 96 5 HOH HOH 605 A HOH 126 5 HOH HOH 606 A HOH 180 5 HOH HOH 607 A HOH 92 5 HOH HOH 608 A HOH 57 5 HOH HOH 609 A HOH 195 5 HOH HOH 610 A HOH 80 5 HOH HOH 611 A HOH 52 5 HOH HOH 612 A HOH 28 5 HOH HOH 613 A HOH 200 5 HOH HOH 614 A HOH 66 5 HOH HOH 615 A HOH 101 5 HOH HOH 616 A HOH 98 5 HOH HOH 617 A HOH 114 5 HOH HOH 618 A HOH 82 5 HOH HOH 619 A HOH 14 5 HOH HOH 620 A HOH 43 5 HOH HOH 621 A HOH 39 5 HOH HOH 622 A HOH 49 5 HOH HOH 623 A HOH 178 5 HOH HOH 624 A HOH 102 5 HOH HOH 625 A HOH 8 5 HOH HOH 626 A HOH 121 5 HOH HOH 627 A HOH 105 5 HOH HOH 628 A HOH 204 5 HOH HOH 629 A HOH 107 5 HOH HOH 630 A HOH 89 5 HOH HOH 631 A HOH 42 5 HOH HOH 632 A HOH 144 5 HOH HOH 633 A HOH 152 5 HOH HOH 634 A HOH 194 5 HOH HOH 635 A HOH 81 5 HOH HOH 636 A HOH 172 5 HOH HOH 637 A HOH 201 5 HOH HOH 638 A HOH 189 5 HOH HOH 639 A HOH 185 5 HOH HOH 640 A HOH 191 5 HOH HOH 641 A HOH 95 5 HOH HOH 642 A HOH 164 5 HOH HOH 643 A HOH 183 5 HOH HOH 644 A HOH 167 5 HOH HOH 645 A HOH 155 5 HOH HOH 646 A HOH 184 5 HOH HOH 647 A HOH 79 5 HOH HOH 648 A HOH 4 5 HOH HOH 649 A HOH 110 5 HOH HOH 650 A HOH 140 5 HOH HOH 651 A HOH 111 5 HOH HOH 652 A HOH 131 5 HOH HOH 653 A HOH 2 5 HOH HOH 654 A HOH 6 5 HOH HOH 655 A HOH 9 5 HOH HOH 656 A HOH 11 5 HOH HOH 657 A HOH 12 5 HOH HOH 658 A HOH 13 5 HOH HOH 659 A HOH 15 5 HOH HOH 660 A HOH 17 5 HOH HOH 661 A HOH 18 5 HOH HOH 662 A HOH 19 5 HOH HOH 663 A HOH 20 5 HOH HOH 664 A HOH 23 5 HOH HOH 665 A HOH 25 5 HOH HOH 666 A HOH 29 5 HOH HOH 667 A HOH 30 5 HOH HOH 668 A HOH 32 5 HOH HOH 669 A HOH 36 5 HOH HOH 670 A HOH 37 5 HOH HOH 671 A HOH 38 5 HOH HOH 672 A HOH 41 5 HOH HOH 673 A HOH 54 5 HOH HOH 674 A HOH 63 5 HOH HOH 675 A HOH 65 5 HOH HOH 676 A HOH 67 5 HOH HOH 677 A HOH 71 5 HOH HOH 678 A HOH 74 5 HOH HOH 679 A HOH 87 5 HOH HOH 680 A HOH 97 5 HOH HOH 681 A HOH 100 5 HOH HOH 682 A HOH 103 5 HOH HOH 683 A HOH 106 5 HOH HOH 684 A HOH 117 5 HOH HOH 685 A HOH 119 5 HOH HOH 686 A HOH 120 5 HOH HOH 687 A HOH 128 5 HOH HOH 688 A HOH 129 5 HOH HOH 689 A HOH 133 5 HOH HOH 690 A HOH 139 5 HOH HOH 691 A HOH 141 5 HOH HOH 692 A HOH 142 5 HOH HOH 693 A HOH 143 5 HOH HOH 694 A HOH 147 5 HOH HOH 695 A HOH 148 5 HOH HOH 696 A HOH 153 5 HOH HOH 697 A HOH 159 5 HOH HOH 698 A HOH 160 5 HOH HOH 699 A HOH 162 5 HOH HOH 700 A HOH 175 5 HOH HOH 701 A HOH 179 5 HOH HOH 702 A HOH 193 5 HOH HOH 703 A HOH 197 5 HOH HOH 704 A HOH 208 5 HOH HOH 705 A HOH 58 5 HOH HOH 101 B HOH 40 5 HOH HOH 102 B HOH 1 5 HOH HOH 103 B HOH 108 5 HOH HOH 104 B HOH 45 5 HOH HOH 105 B HOH 27 5 HOH HOH 106 B HOH 151 5 HOH HOH 107 B HOH 90 5 HOH HOH 108 B HOH 31 5 HOH HOH 109 B HOH 72 5 HOH HOH 110 B HOH 169 5 HOH HOH 111 B HOH 26 5 HOH HOH 112 B HOH 69 5 HOH HOH 113 B HOH 3 5 HOH HOH 114 B HOH 5 5 HOH HOH 115 B HOH 7 5 HOH HOH 116 B HOH 10 5 HOH HOH 117 B HOH 24 5 HOH HOH 118 B HOH 33 5 HOH HOH 119 B HOH 34 5 HOH HOH 120 B HOH 44 5 HOH HOH 121 B HOH 46 5 HOH HOH 122 B HOH 53 5 HOH HOH 123 B HOH 55 5 HOH HOH 124 B HOH 59 5 HOH HOH 125 B HOH 64 5 HOH HOH 126 B HOH 73 5 HOH HOH 127 B HOH 76 5 HOH HOH 128 B HOH 83 5 HOH HOH 129 B HOH 85 5 HOH HOH 130 B HOH 86 5 HOH HOH 131 B HOH 88 5 HOH HOH 132 B HOH 104 5 HOH HOH 133 B HOH 112 5 HOH HOH 134 B HOH 113 5 HOH HOH 135 B HOH 124 5 HOH HOH 136 B HOH 125 5 HOH HOH 137 B HOH 127 5 HOH HOH 138 B HOH 130 5 HOH HOH 139 B HOH 138 5 HOH HOH 140 B HOH 149 5 HOH HOH 141 B HOH 150 5 HOH HOH 142 B HOH 154 5 HOH HOH 143 B HOH 156 5 HOH HOH 144 B HOH 161 5 HOH HOH 145 B HOH 165 5 HOH HOH 146 B HOH 168 5 HOH HOH 147 B HOH 171 5 HOH HOH 148 B HOH 186 5 HOH HOH 149 B HOH 188 5 HOH HOH 150 B HOH 196 5 HOH HOH 151 B HOH 198 5 HOH HOH 152 B HOH 199 5 HOH HOH 153 B HOH 202 5 HOH HOH 154 B HOH 206 5 HOH HOH 155 B HOH 109 5 HOH HOH 101 C HOH 78 5 HOH HOH 102 C HOH 205 5 HOH HOH 103 C HOH 166 5 HOH HOH 104 C HOH 137 5 HOH HOH 105 C HOH 91 5 HOH HOH 106 C HOH 84 5 HOH HOH 107 C HOH 132 5 HOH HOH 108 C HOH 173 5 HOH HOH 109 C HOH 51 5 HOH HOH 110 C HOH 190 5 HOH HOH 111 C HOH 170 5 HOH HOH 112 C HOH 136 5 HOH HOH 113 C HOH 16 5 HOH HOH 114 C HOH 21 5 HOH HOH 115 C HOH 22 5 HOH HOH 116 C HOH 35 5 HOH HOH 117 C HOH 47 5 HOH HOH 118 C HOH 48 5 HOH HOH 119 C HOH 50 5 HOH HOH 120 C HOH 56 5 HOH HOH 121 C HOH 60 5 HOH HOH 122 C HOH 61 5 HOH HOH 123 C HOH 62 5 HOH HOH 124 C HOH 68 5 HOH HOH 125 C HOH 70 5 HOH HOH 126 C HOH 77 5 HOH HOH 127 C HOH 93 5 HOH HOH 128 C HOH 94 5 HOH HOH 129 C HOH 99 5 HOH HOH 130 C HOH 115 5 HOH HOH 131 C HOH 122 5 HOH HOH 132 C HOH 134 5 HOH HOH 133 C HOH 135 5 HOH HOH 134 C HOH 145 5 HOH HOH 135 C HOH 146 5 HOH HOH 136 C HOH 157 5 HOH HOH 137 C HOH 158 5 HOH HOH 138 C HOH 163 5 HOH HOH 139 C HOH 174 5 HOH HOH 140 C HOH 176 5 HOH HOH 141 C HOH 177 5 HOH HOH 142 C HOH 181 5 HOH HOH 143 C HOH 182 5 HOH HOH 144 C HOH 187 5 HOH HOH 145 C HOH 192 5 HOH HOH 146 C HOH 203 5 HOH HOH 147 C HOH 207 5 HOH HOH 148 C GLU 335 n 1 GLU 102 A ARG 336 n 2 ARG 103 A PRO 337 n 3 PRO 104 A TYR 338 n 4 TYR 105 A ALA 339 n 5 ALA 106 A CYS 340 n 6 CYS 107 A PRO 341 n 7 PRO 108 A VAL 342 n 8 VAL 109 A GLU 343 n 9 GLU 110 A SER 344 n 10 SER 111 A CYS 345 n 11 CYS 112 A ASP 346 n 12 ASP 113 A ARG 347 n 13 ARG 114 A ARG 348 n 14 ARG 115 A PHE 349 n 15 PHE 116 A SER 350 n 16 SER 117 A ARG 351 n 17 ARG 118 A SER 352 n 18 SER 119 A ASP 353 n 19 ASP 120 A GLU 354 n 20 GLU 121 A LEU 355 n 21 LEU 122 A THR 356 n 22 THR 123 A ARG 357 n 23 ARG 124 A HIS 358 n 24 HIS 125 A ILE 359 n 25 ILE 126 A ARG 360 n 26 ARG 127 A ILE 361 n 27 ILE 128 A HIS 362 n 28 HIS 129 A THR 363 n 29 THR 130 A GLY 364 n 30 GLY 131 A GLN 365 n 31 GLN 132 A LYS 366 n 32 LYS 133 A PRO 367 n 33 PRO 134 A PHE 368 n 34 PHE 135 A GLN 369 n 35 GLN 136 A CYS 370 n 36 CYS 137 A ARG 371 n 37 ARG 138 A ILE 372 n 38 ILE 139 A CYS 373 n 39 CYS 140 A MET 374 n 40 MET 141 A ARG 375 n 41 ARG 142 A ASN 376 n 42 ASN 143 A PHE 377 n 43 PHE 144 A SER 378 n 44 SER 145 A ARG 379 n 45 ARG 146 A SER 380 n 46 SER 147 A ASP 381 n 47 ASP 148 A HIS 382 n 48 HIS 149 A LEU 383 n 49 LEU 150 A THR 384 n 50 THR 151 A THR 385 n 51 THR 152 A HIS 386 n 52 HIS 153 A ILE 387 n 53 ILE 154 A ARG 388 n 54 ARG 155 A THR 389 n 55 THR 156 A HIS 390 n 56 HIS 157 A THR 391 n 57 THR 158 A GLY 392 n 58 GLY 159 A GLU 393 n 59 GLU 160 A LYS 394 n 60 LYS 161 A PRO 395 n 61 PRO 162 A PHE 396 n 62 PHE 163 A ALA 397 n 63 ALA 164 A CYS 398 n 64 CYS 165 A ASP 399 n 65 ASP 166 A ILE 400 n 66 ILE 167 A CYS 401 n 67 CYS 168 A GLY 402 n 68 GLY 169 A ARG 403 n 69 ARG 170 A LYS 404 n 70 LYS 171 A PHE 405 n 71 PHE 172 A ALA 406 n 72 ALA 173 A ARG 407 n 73 ARG 174 A SER 408 n 74 SER 175 A ASP 409 n 75 ASP 176 A GLU 410 n 76 GLU 177 A ARG 411 n 77 ARG 178 A LYS 412 n 78 LYS 179 A ARG 413 n 79 ARG 180 A HIS 414 n 80 HIS 181 A THR 415 n 81 THR 182 A LYS 416 n 82 LYS 183 A ILE 417 n 83 ILE 184 A HIS 418 n 84 HIS 185 A LEU 419 n 85 LEU 186 A ARG 420 n 86 ARG 187 A n 87 188 A n 88 189 A n 89 190 A DA 1 n 1 DA 1 B DG 2 n 2 DG 2 B 5CM 3 n 3 5CM 3 B DG 4 n 4 DG 4 B DT 5 n 5 DT 5 B DG 6 n 6 DG 6 B DG 7 n 7 DG 7 B DG 8 n 8 DG 8 B 5CM 9 n 9 5CM 9 B DG 10 n 10 DG 10 B DT 11 n 11 DT 11 B DT 1 n 1 DT 51 C DA 2 n 2 DA 52 C 5CM 3 n 3 5CM 53 C DG 4 n 4 DG 54 C DC 5 n 5 DC 55 C DC 6 n 6 DC 56 C DC 7 n 7 DC 57 C DA 8 n 8 DA 58 C 5CM 9 n 9 5CM 59 C DG 10 n 10 DG 60 C DC 11 n 11 DC 61 C 0.0059 -0.0068 0.0063 0.0089 -0.0086 0.0101 -0.0244 -0.0201 0.0094 0.0315 0.0029 -0.0002 0.0382 0.0191 -0.0107 0.2102 -0.0224 -0.0399 0.1615 -0.0193 0.0661 refined 6.4181 -6.2665 -3.4961 X-RAY DIFFRACTION 0.0011 -0.0003 0.0013 0.0007 0.0000 0.0018 -0.0025 -0.0024 0.0014 -0.0037 -0.0129 0.0056 -0.0044 -0.0047 -0.0000 0.2525 -0.0512 -0.0103 0.2810 -0.0827 0.1470 refined -5.5280 -2.5466 -5.0991 X-RAY DIFFRACTION 0.0003 -0.0005 -0.0001 0.0011 0.0002 0.0005 -0.0098 0.0066 0.0108 0.0104 -0.0106 -0.0052 -0.0156 -0.0056 0.0000 0.1381 -0.0398 -0.0064 0.1949 -0.0740 0.1460 refined -15.7982 -1.6767 -17.0065 X-RAY DIFFRACTION 0.0018 -0.0001 -0.0012 0.0089 -0.0022 0.0029 0.0134 -0.0205 0.0415 -0.0069 -0.0562 -0.0088 -0.0440 0.0681 -0.0097 0.0907 -0.0293 0.0013 0.1131 -0.0048 0.0845 refined -9.8020 -10.5535 -24.3116 X-RAY DIFFRACTION 0.0004 -0.0003 -0.0000 0.0009 -0.0001 0.0008 -0.0091 0.0117 -0.0049 0.0114 -0.0188 -0.0110 -0.0152 0.0097 -0.0019 0.0635 -0.0113 -0.0000 0.1171 -0.0006 0.0730 refined -7.3987 -20.7040 -29.4115 X-RAY DIFFRACTION 0.0095 -0.0020 -0.0069 0.0112 -0.0002 0.0062 -0.0033 -0.0084 -0.0105 0.0046 -0.0137 -0.0073 0.0111 0.0106 0.0012 0.0556 0.0035 0.0332 0.0904 0.0110 0.0800 refined -3.5278 -30.2563 -27.6462 X-RAY DIFFRACTION 0.0130 0.0035 -0.0008 0.0016 -0.0014 0.0018 -0.0014 -0.0100 -0.0115 -0.0035 -0.0056 0.0196 0.0037 0.0003 -0.0110 0.1367 -0.1482 -0.0015 0.1164 0.0047 0.0960 refined -12.0992 -17.7784 -17.8239 X-RAY DIFFRACTION 0.0002 0.0000 0.0019 0.0011 -0.0018 0.0060 0.0079 -0.0278 -0.0256 -0.0108 -0.0013 -0.0227 0.0149 -0.0111 0.0254 0.1461 -0.1292 0.0199 0.1111 0.0372 0.1365 refined 5.8325 -9.5535 -16.1096 X-RAY DIFFRACTION 0.0034 0.0036 0.0011 0.0083 -0.0036 0.0075 -0.0112 -0.0029 0.0118 -0.0030 -0.0139 0.0020 -0.0086 0.0056 -0.0337 0.1443 -0.1285 0.0084 0.1010 -0.0215 0.1127 refined 1.9398 -5.6107 -21.0824 X-RAY DIFFRACTION 0.0167 0.0107 0.0004 0.0121 -0.0004 0.0004 0.0020 -0.0158 -0.0018 0.0055 -0.0056 -0.0160 0.0039 0.0001 -0.0048 0.1344 -0.1056 -0.0128 0.1201 0.0360 0.0946 refined -3.4961 -20.8602 -13.7105 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 (chain A and resid 102:125) X-RAY DIFFRACTION 2 (chain A and resid 126:133) X-RAY DIFFRACTION 3 (chain A and resid 134:143) X-RAY DIFFRACTION 4 (chain A and resid 144:166) X-RAY DIFFRACTION 5 (chain A and resid 167:178) X-RAY DIFFRACTION 6 (chain A and resid 179:187) X-RAY DIFFRACTION 7 (chain B and resid 1:5) X-RAY DIFFRACTION 8 (chain B and resid 6:11) X-RAY DIFFRACTION 9 (chain C and resid 51:56) X-RAY DIFFRACTION 10 (chain C and resid 57:61) author_defined_assembly 3 trimeric A CYS 107 A SG CYS 6 1_555 A ZN 501 D ZN ZN 1_555 A CYS 112 A SG CYS 11 1_555 112.7 A CYS 107 A SG CYS 6 1_555 A ZN 501 D ZN ZN 1_555 A HIS 125 A NE2 HIS 24 1_555 109.0 A CYS 112 A SG CYS 11 1_555 A ZN 501 D ZN ZN 1_555 A HIS 125 A NE2 HIS 24 1_555 109.9 A CYS 107 A SG CYS 6 1_555 A ZN 501 D ZN ZN 1_555 A HIS 129 A NE2 HIS 28 1_555 105.2 A CYS 112 A SG CYS 11 1_555 A ZN 501 D ZN ZN 1_555 A HIS 129 A NE2 HIS 28 1_555 121.4 A HIS 125 A NE2 HIS 24 1_555 A ZN 501 D ZN ZN 1_555 A HIS 129 A NE2 HIS 28 1_555 97.1 A CYS 137 A SG CYS 36 1_555 A ZN 502 E ZN ZN 1_555 A CYS 140 A SG CYS 39 1_555 114.9 A CYS 137 A SG CYS 36 1_555 A ZN 502 E ZN ZN 1_555 A HIS 153 A NE2 HIS 52 1_555 108.7 A CYS 140 A SG CYS 39 1_555 A ZN 502 E ZN ZN 1_555 A HIS 153 A NE2 HIS 52 1_555 108.4 A CYS 137 A SG CYS 36 1_555 A ZN 502 E ZN ZN 1_555 A HIS 157 A NE2 HIS 56 1_555 111.5 A CYS 140 A SG CYS 39 1_555 A ZN 502 E ZN ZN 1_555 A HIS 157 A NE2 HIS 56 1_555 111.1 A HIS 153 A NE2 HIS 52 1_555 A ZN 502 E ZN ZN 1_555 A HIS 157 A NE2 HIS 56 1_555 101.2 A CYS 165 A SG CYS 64 1_555 A ZN 503 F ZN ZN 1_555 A CYS 168 A SG CYS 67 1_555 113.4 A CYS 165 A SG CYS 64 1_555 A ZN 503 F ZN ZN 1_555 A HIS 181 A NE2 HIS 80 1_555 106.5 A CYS 168 A SG CYS 67 1_555 A ZN 503 F ZN ZN 1_555 A HIS 181 A NE2 HIS 80 1_555 107.0 A CYS 165 A SG CYS 64 1_555 A ZN 503 F ZN ZN 1_555 A HIS 185 A NE2 HIS 84 1_555 108.2 A CYS 168 A SG CYS 67 1_555 A ZN 503 F ZN ZN 1_555 A HIS 185 A NE2 HIS 84 1_555 115.2 A HIS 181 A NE2 HIS 80 1_555 A ZN 503 F ZN ZN 1_555 A HIS 185 A NE2 HIS 84 1_555 105.9 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N TYR 105 A N TYR 4 A O PHE 116 A O PHE 15 A N PHE 135 A N PHE 34 A O PHE 144 A O PHE 43 A N PHE 163 A N PHE 62 A O PHE 172 A O PHE 71 1 A HOH 642 G HOH 1 A GLN 188 A GLN 87 1 Y 1 A LYS 189 A LYS 88 1 Y 1 A ASP 190 A ASP 89 1 Y 1 B B OP2 O 5CM HOH 3 132 1.99 1 A A NH1 O ARG HOH 178 601 2.13 1 C C OP2 O DC HOH 57 101 2.13 1 C C OP2 O DA HOH 58 146 2.15 1 A A OE2 O GLU HOH 177 691 2.16 1 C C O O HOH HOH 129 139 2.18 1 C C OP1 O DC HOH 56 102 2.18 B 1 B B OP2 O DG HOH 7 143 2.19 1 2.96 0.30 108.30 111.26 B B B O4' C1' N1 DT DT DT 5 5 5 N 1 2.25 0.30 108.30 110.55 B B B O4' C1' N1 DT DT DT 11 11 11 N 1 3.32 0.30 108.30 111.62 C C C O4' C1' N9 DG DG DG 54 54 54 N 1 C C O3' C3' DG DG 54 54 -0.062 0.006 1.419 1.357 N 0.2002 0.1717 0.1738 1.412 27.357 3489 46626 7.48 78.83 0.13 Random 1 FREE R-VALUE 1.37 MOLECULAR REPLACEMENT 21.46 0.90 1.11 PDb entry 4R2A ML FLAT BULK SOLVENT MODEL 1.412 27.357 208 1382 3 449 722 0.013 1283 1.338 1827 22.003 505 0.071 190 0.032 163 0.3441 0.3055 1.4312 3 33 1.00 0.3119 0.2704 1.4517 17 219 10.00 0.2572 0.2539 1.4733 37 464 21.00 0.2765 0.2466 1.4963 54 663 30.00 0.2356 0.2350 1.5209 66 816 37.00 0.2560 0.2256 1.5471 84 1091 50.00 0.2346 0.1966 1.5752 118 1457 67.00 0.2235 0.1904 1.6055 132 1750 79.00 0.2020 0.1921 1.6383 163 1979 90.00 0.2228 0.1847 1.6739 169 2094 96.00 0.1808 0.1871 1.7128 172 2098 96.00 0.2672 0.1749 1.7557 171 2145 98.00 0.1998 0.1801 1.8031 176 2191 100.00 0.2310 0.1766 1.8562 175 2172 100.00 0.2033 0.1824 1.9161 182 2173 100.00 0.2108 0.1905 1.9845 179 2206 100.00 0.1908 0.1752 2.0640 177 2180 100.00 0.2006 0.1755 2.1579 179 2175 100.00 0.1861 0.1646 2.2716 178 2200 100.00 0.1760 0.1626 2.4138 177 2181 100.00 0.2143 0.1775 2.6001 175 2183 100.00 0.2199 0.1842 2.8615 176 2183 100.00 0.2207 0.1756 3.2749 181 2213 100.00 0.1785 0.1467 4.1238 171 2145 99.00 0.1643 0.1453 27.3624 177 2126 97.00 10.750 1.400 43.000 4X9J 29071 0.127 0.036 0.131 1.321 1 30.828 10.700 447598 15.400 90.600 0.653 1.400 1.420 743 0.671 0.292 0.719 0.392 1 5.700 0 46.000 0.522 1.420 1.450 847 0.795 0.227 0.571 0.413 1 6.000 0 54.400 0.421 1.450 1.480 969 0.853 0.181 0.460 0.430 1 6.100 0 60.500 0.332 1.480 1.510 1095 0.904 0.141 0.362 0.419 1 6.300 0 70.500 0.300 1.510 1.540 1318 0.938 0.126 0.327 0.451 1 6.500 0 82.800 1.540 1.580 1570 0.543 0.484 0.475 1 13.500 0 98.600 1.580 1.620 1578 0.901 0.359 0.503 1 15.600 0 100.000 0.913 1.620 1.660 1569 0.970 0.239 0.944 0.621 1 15.900 0 100.000 0.613 1.660 1.710 1617 0.980 0.162 0.634 0.868 1 16.300 0 100.000 0.538 1.710 1.760 1583 0.985 0.139 0.556 0.906 1 17.000 0 100.000 0.455 1.760 1.830 1576 0.988 0.112 0.469 0.999 1 18.100 0 100.000 0.363 1.830 1.900 1609 0.969 0.089 0.374 1.094 1 18.300 0 100.000 0.287 1.900 1.990 1596 0.992 0.070 0.295 1.249 1 18.300 0 100.000 0.215 1.990 2.090 1603 0.990 0.052 0.221 1.456 1 18.400 0 100.000 0.177 2.090 2.220 1603 0.967 0.043 0.182 1.743 1 18.300 0 100.000 0.144 2.220 2.390 1603 0.989 0.035 0.148 1.914 1 18.400 0 100.000 0.122 2.390 2.630 1611 0.987 0.029 0.126 2.101 1 18.400 0 100.000 0.110 2.630 3.020 1635 0.988 0.026 0.113 2.396 1 18.100 0 100.000 0.086 3.020 3.800 1649 0.988 0.022 0.089 2.217 1 18.000 0 100.000 0.061 3.800 43.000 1697 0.995 0.015 0.063 1.497 1 16.700 0 97.200 refinement PHENIX (phenix.refine: dev_1810) data reduction HKL-2000 data extraction PDB_EXTRACT 3.15 data scaling HKL-2000 phasing PHENIX EGR-1 with Doubly Methylated DNA 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N 5 N N 5 N N 5 N N A ARG 118 A ARG 17 HELX_P A GLY 131 A GLY 30 1 AA1 14 A ARG 146 A ARG 45 HELX_P A GLY 159 A GLY 58 1 AA2 14 A ARG 174 A ARG 73 HELX_P A LYS 183 A LYS 82 1 AA3 10 A ILE 184 A ILE 83 HELX_P A LEU 186 A LEU 85 5 AA4 3 covale 1.597 both B DG 2 B O3' DG 2 1_555 B 5CM 3 B P 5CM 3 1_555 covale 1.592 both B 5CM 3 B O3' 5CM 3 1_555 B DG 4 B P DG 4 1_555 covale 1.603 both B DG 8 B O3' DG 8 1_555 B 5CM 9 B P 5CM 9 1_555 covale 1.589 both B 5CM 9 B O3' 5CM 9 1_555 B DG 10 B P DG 10 1_555 covale 1.612 both C DA 52 C O3' DA 2 1_555 C 5CM 53 C P 5CM 3 1_555 covale 1.578 both C 5CM 53 C O3' 5CM 3 1_555 C DG 54 C P DG 4 1_555 covale 1.604 both C DA 58 C O3' DA 8 1_555 C 5CM 59 C P 5CM 9 1_555 covale 1.597 both C 5CM 59 C O3' 5CM 9 1_555 C DG 60 C P DG 10 1_555 metalc 2.279 A CYS 107 A SG CYS 6 1_555 A ZN 501 D ZN ZN 1_555 metalc 2.303 A CYS 112 A SG CYS 11 1_555 A ZN 501 D ZN ZN 1_555 metalc 2.034 A HIS 125 A NE2 HIS 24 1_555 A ZN 501 D ZN ZN 1_555 metalc 1.910 A HIS 129 A NE2 HIS 28 1_555 A ZN 501 D ZN ZN 1_555 metalc 2.338 A CYS 137 A SG CYS 36 1_555 A ZN 502 E ZN ZN 1_555 metalc 2.293 A CYS 140 A SG CYS 39 1_555 A ZN 502 E ZN ZN 1_555 metalc 2.072 A HIS 153 A NE2 HIS 52 1_555 A ZN 502 E ZN ZN 1_555 metalc 2.036 A HIS 157 A NE2 HIS 56 1_555 A ZN 502 E ZN ZN 1_555 metalc 2.354 A CYS 165 A SG CYS 64 1_555 A ZN 503 F ZN ZN 1_555 metalc 2.294 A CYS 168 A SG CYS 67 1_555 A ZN 503 F ZN ZN 1_555 metalc 2.025 A HIS 181 A NE2 HIS 80 1_555 A ZN 503 F ZN ZN 1_555 metalc 2.007 A HIS 185 A NE2 HIS 84 1_555 A ZN 503 F ZN ZN 1_555 hydrog WATSON-CRICK B DG 2 B N1 DG 2 1_555 C DC 61 C N3 DC 11 1_555 hydrog WATSON-CRICK B DG 2 B N2 DG 2 1_555 C DC 61 C O2 DC 11 1_555 hydrog WATSON-CRICK B DG 2 B O6 DG 2 1_555 C DC 61 C N4 DC 11 1_555 hydrog WATSON-CRICK B 5CM 3 B N3 5CM 3 1_555 C DG 60 C N1 DG 10 1_555 hydrog WATSON-CRICK B 5CM 3 B N4 5CM 3 1_555 C DG 60 C O6 DG 10 1_555 hydrog WATSON-CRICK B 5CM 3 B O2 5CM 3 1_555 C DG 60 C N2 DG 10 1_555 hydrog WATSON-CRICK B DG 4 B N1 DG 4 1_555 C 5CM 59 C N3 5CM 9 1_555 hydrog WATSON-CRICK B DG 4 B N2 DG 4 1_555 C 5CM 59 C O2 5CM 9 1_555 hydrog WATSON-CRICK B DG 4 B O6 DG 4 1_555 C 5CM 59 C N4 5CM 9 1_555 hydrog WATSON-CRICK B DT 5 B N3 DT 5 1_555 C DA 58 C N1 DA 8 1_555 hydrog WATSON-CRICK B DT 5 B O4 DT 5 1_555 C DA 58 C N6 DA 8 1_555 hydrog WATSON-CRICK B DG 6 B N1 DG 6 1_555 C DC 57 C N3 DC 7 1_555 hydrog WATSON-CRICK B DG 6 B N2 DG 6 1_555 C DC 57 C O2 DC 7 1_555 hydrog WATSON-CRICK B DG 6 B O6 DG 6 1_555 C DC 57 C N4 DC 7 1_555 hydrog WATSON-CRICK A B DG 7 B N1 DG 7 1_555 C DC 56 C N3 DC 6 1_555 hydrog WATSON-CRICK A B DG 7 B N2 DG 7 1_555 C DC 56 C O2 DC 6 1_555 hydrog WATSON-CRICK A B DG 7 B O6 DG 7 1_555 C DC 56 C N4 DC 6 1_555 hydrog WATSON-CRICK A B DG 8 B N1 DG 8 1_555 C DC 55 C N3 DC 5 1_555 hydrog WATSON-CRICK A B DG 8 B N2 DG 8 1_555 C DC 55 C O2 DC 5 1_555 hydrog WATSON-CRICK A B DG 8 B O6 DG 8 1_555 C DC 55 C N4 DC 5 1_555 hydrog WATSON-CRICK B 5CM 9 B N3 5CM 9 1_555 C DG 54 C N1 DG 4 1_555 hydrog WATSON-CRICK B 5CM 9 B N4 5CM 9 1_555 C DG 54 C O6 DG 4 1_555 hydrog WATSON-CRICK B 5CM 9 B O2 5CM 9 1_555 C DG 54 C N2 DG 4 1_555 hydrog WATSON-CRICK B DG 10 B N1 DG 10 1_555 C 5CM 53 C N3 5CM 3 1_555 hydrog WATSON-CRICK B DG 10 B N2 DG 10 1_555 C 5CM 53 C O2 5CM 3 1_555 hydrog WATSON-CRICK B DG 10 B O6 DG 10 1_555 C 5CM 53 C N4 5CM 3 1_555 hydrog WATSON-CRICK B DT 11 B N3 DT 11 1_555 C DA 52 C N1 DA 2 1_555 hydrog WATSON-CRICK B DT 11 B O4 DT 11 1_555 C DA 52 C N6 DA 2 1_555 Transcription Regulator/DNA DNA Binding, Methylated DNA, ZINC FINGER, TRANSCRIPTION, Transcription Regulator-DNA complex EGR1_HUMAN UNP 1 335 P18146 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH TKIHLRQKD 4X9J PDB 2 1 4X9J 4X9J PDB 3 1 4X9J 335 423 4X9J 102 190 P18146 A 1 1 89 1 11 4X9J 1 11 4X9J B 2 1 11 51 61 4X9J 51 61 4X9J C 3 1 11 2 2 2 anti-parallel anti-parallel anti-parallel A TYR 105 A TYR 4 A ALA 106 A ALA 5 A ARG 115 A ARG 14 A PHE 116 A PHE 15 A PHE 135 A PHE 34 A GLN 136 A GLN 35 A ASN 143 A ASN 42 A PHE 144 A PHE 43 A PHE 163 A PHE 62 A ALA 164 A ALA 63 A LYS 171 A LYS 70 A PHE 172 A PHE 71 binding site for residue ZN A 501 A ZN 501 Software 4 binding site for residue ZN A 502 A ZN 502 Software 4 binding site for residue ZN A 503 A ZN 503 Software 4 A CYS 107 A CYS 6 4 1_555 A CYS 112 A CYS 11 4 1_555 A HIS 125 A HIS 24 4 1_555 A HIS 129 A HIS 28 4 1_555 A CYS 137 A CYS 36 4 1_555 A CYS 140 A CYS 39 4 1_555 A HIS 153 A HIS 52 4 1_555 A HIS 157 A HIS 56 4 1_555 A CYS 165 A CYS 64 4 1_555 A CYS 168 A CYS 67 4 1_555 A HIS 181 A HIS 80 4 1_555 A HIS 185 A HIS 84 4 1_555 20 C 2 2 21