0.010573 0.000000 0.000000 0.000000 0.009680 0.000000 0.000000 0.000000 0.018947 0.000000 0.000000 0.000000 Banerjee, S. Shanmugam, G. Stone, M.P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.000 90.000 90.000 94.580 103.305 52.780 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 Ca 2 40.078 CALCIUM ION non-polymer 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 C10 H16 N5 O12 P3 491.182 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE non-polymer 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 C19 H30 N5 O9 P 503.443 n (6S,8R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-8-hydroxy-6-[(1S)-1-hydroxyhexyl]-4,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one DNA 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 N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O 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 H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O 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 CA N 75 N N N 76 R C N 77 N C N 78 N O N 79 N C N 80 N S N 81 N O N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N O N 90 N P N 91 N O N 92 N O N 93 N O N 94 N C N 95 R C N 96 N O N 97 S C N 98 N O N 99 N C N 100 R C Y 101 N N Y 102 N C Y 103 N N Y 104 N C Y 105 N C N 106 N N Y 107 N N Y 108 N C Y 109 N N Y 110 N C N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N H N 117 N H 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 N 137 N N N 138 N C N 139 N O N 140 N N N 141 N C N 142 N N N 143 N C N 144 N C N 145 N H N 146 N H 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 O N 160 N P N 161 N O N 162 N O N 163 N O N 164 N C N 165 R C N 166 N O N 167 S C N 168 N O N 169 N C N 170 R C Y 171 N N Y 172 N C Y 173 N N Y 174 N C N 175 N C N 176 N O N 177 N N N 178 N C N 179 N N N 180 N N Y 181 N C 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 H N 196 N O N 197 N P N 198 N O N 199 N O N 200 N O N 201 N C N 202 R C N 203 N O N 204 S C N 205 N O N 206 N C N 207 R C N 208 N N N 209 N C N 210 N O N 211 N N N 212 N C N 213 N O N 214 N C N 215 N C N 216 N C N 217 N H 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 P N 233 N O N 234 N O N 235 N O N 236 S P N 237 N O N 238 N O N 239 N O N 240 S P N 241 N O N 242 N O N 243 N O N 244 N O N 245 N C N 246 R C N 247 N O N 248 S C N 249 N O N 250 N C N 251 R C Y 252 N N Y 253 N C Y 254 N N Y 255 N C Y 256 N C N 257 N N Y 258 N N Y 259 N C Y 260 N N Y 261 N C 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 H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N N N 279 S C N 280 N C N 281 N O N 282 N C N 283 N C N 284 N C N 285 N O N 286 N N N 287 N O N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N N N 299 S C N 300 N C N 301 N O N 302 N C N 303 N C N 304 N C N 305 N O N 306 N O N 307 N O N 308 N H N 309 N H N 310 N H N 311 N H 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 N C N 319 N C N 320 N O N 321 N O N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N N N 328 S C N 329 N C N 330 N O N 331 N C Y 332 N C Y 333 N N Y 334 N C Y 335 N C Y 336 N N N 337 N O N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N C N 349 N P N 350 R C N 351 N N N 352 N C N 353 N N N 354 S C N 355 N N Y 356 N C Y 357 N C N 358 N C N 359 N O N 360 S C Y 361 N N Y 362 N C N 363 N C Y 364 N N N 365 R C N 366 N C N 367 N O N 368 N C N 369 N O N 370 N C N 371 N C N 372 N O N 373 N C N 374 N O N 375 S C N 376 N O N 377 R C N 378 N O N 379 N C N 380 N O N 381 N O N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N H 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 H N 411 N H N 412 N O N 413 N H N 414 N H N 415 N N N 416 S C N 417 N C N 418 N O N 419 S C N 420 N C N 421 N C N 422 N C N 423 N O 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 H N 431 N H N 432 N H N 433 N H N 434 N H N 435 N H N 436 N H N 437 N N N 438 S C N 439 N C N 440 N O N 441 N C N 442 N C N 443 N C N 444 N C N 445 N O 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 H N 454 N H N 455 N H N 456 N H N 457 N H N 458 N H N 459 N N N 460 S C N 461 N C N 462 N O N 463 N C N 464 N C N 465 N C N 466 N C N 467 N N N 468 N O N 469 N H N 470 N H N 471 N H N 472 N H N 473 N H N 474 N H N 475 N H N 476 N H 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 N C N 489 N C N 490 N S N 491 N C N 492 N O 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 H N 502 N H N 503 N H N 504 N N N 505 S C N 506 N C N 507 N O N 508 N C Y 509 N C Y 510 N C Y 511 N C Y 512 N C Y 513 N C Y 514 N C N 515 N O 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 H N 526 N H N 527 N N N 528 S C N 529 N C N 530 N O N 531 N C N 532 N C N 533 N C N 534 N O 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 N N 545 S C N 546 N C N 547 N O N 548 N C N 549 N O N 550 N O N 551 N H N 552 N H N 553 N H N 554 N H N 555 N H N 556 N H N 557 N H N 558 N N N 559 S C N 560 N C N 561 N O N 562 R C N 563 N O N 564 N C N 565 N O N 566 N H N 567 N H N 568 N H N 569 N H N 570 N H N 571 N H N 572 N H N 573 N H N 574 N H N 575 N N N 576 S C N 577 N C N 578 N O N 579 N C Y 580 N C Y 581 N C Y 582 N C Y 583 N C Y 584 N C Y 585 N C N 586 N O N 587 N O N 588 N H N 589 N H N 590 N H N 591 N H N 592 N H N 593 N H N 594 N H N 595 N H N 596 N H N 597 N H N 598 N H N 599 N N N 600 S C N 601 N C N 602 N O N 603 N C N 604 N C N 605 N C N 606 N O N 607 N H N 608 N H N 609 N H N 610 N H N 611 N H N 612 N H N 613 N H N 614 N H N 615 N H N 616 N H N 617 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing 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 doub 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 doub N 34 N sing 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 doub 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 sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub 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 sing N 84 N sing N 85 N doub N 86 N sing N 87 N sing N 88 N sing 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 sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing Y 106 N sing Y 107 N sing Y 108 N doub N 109 N sing Y 110 N sing Y 111 N sing Y 112 N doub N 113 N sing Y 114 N doub N 115 N sing N 116 N sing Y 117 N sing Y 118 N doub N 119 N sing Y 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 N 144 N sing N 145 N sing N 146 N doub N 147 N sing N 148 N doub N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N doub N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N doub N 159 N sing N 160 N sing N 161 N sing 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 Y 179 N sing Y 180 N sing Y 181 N doub N 182 N sing Y 183 N sing N 184 N sing Y 185 N doub 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 sing N 197 N doub 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 N 217 N sing N 218 N sing N 219 N sing N 220 N doub N 221 N sing N 222 N sing N 223 N sing N 224 N doub N 225 N sing N 226 N sing N 227 N doub N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N doub N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N doub N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N doub 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 sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing Y 265 N sing Y 266 N sing Y 267 N doub N 268 N sing Y 269 N sing Y 270 N sing Y 271 N doub N 272 N sing Y 273 N doub N 274 N sing N 275 N sing Y 276 N sing Y 277 N doub N 278 N sing Y 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N doub 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 doub N 295 N sing 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 sing N 304 N sing N 305 N doub 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 sing N 323 N doub N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N doub N 333 N sing N 334 N sing N 335 N sing N 336 N sing Y 337 N sing Y 338 N doub Y 339 N doub N 340 N sing Y 341 N sing N 342 N sing Y 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N doub 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 doub N 357 N sing N 358 N sing N 359 N sing Y 360 N sing Y 361 N doub Y 362 N sing N 363 N sing N 364 N doub N 365 N sing Y 366 N doub Y 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 sing 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 sing 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 doub 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 sing N 431 N sing N 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N sing N 443 N doub 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 sing 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 doub N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing N 470 N sing 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 sing N 484 N sing N 485 N sing N 486 N sing N 487 N sing N 488 N doub 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 sing N 500 N sing N 501 N sing N 502 N sing N 503 N sing N 504 N sing N 505 N sing N 506 N sing N 507 N doub N 508 N sing N 509 N sing N 510 N sing N 511 N sing Y 512 N doub Y 513 N sing Y 514 N sing N 515 N sing Y 516 N doub N 517 N sing Y 518 N doub N 519 N sing Y 520 N sing N 521 N sing N 522 N sing N 523 N sing 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 doub N 531 N sing N 532 N sing N 533 N sing N 534 N sing N 535 N sing N 536 N sing N 537 N sing N 538 N sing N 539 N sing N 540 N sing N 541 N sing N 542 N sing N 543 N sing N 544 N sing N 545 N sing N 546 N sing N 547 N doub N 548 N sing N 549 N sing N 550 N sing N 551 N sing N 552 N sing N 553 N sing N 554 N sing N 555 N sing N 556 N sing N 557 N sing N 558 N sing N 559 N sing N 560 N doub N 561 N sing N 562 N sing N 563 N sing N 564 N sing N 565 N sing N 566 N sing N 567 N sing N 568 N sing N 569 N sing N 570 N sing N 571 N sing N 572 N sing N 573 N sing N 574 N sing N 575 N sing N 576 N doub N 577 N sing N 578 N sing N 579 N sing N 580 N sing Y 581 N doub Y 582 N sing Y 583 N sing N 584 N sing Y 585 N doub N 586 N sing Y 587 N doub N 588 N sing Y 589 N sing N 590 N sing N 591 N sing N 592 N sing N 593 N sing N 594 N sing N 595 N sing N 596 N sing N 597 N sing N 598 N sing N 599 N sing N 600 N doub N 601 N sing N 602 N sing N 603 N sing N 604 N sing N 605 N sing N 606 N sing N 607 N sing N 608 N sing N 609 N sing N 610 N sing N 611 N sing US Chem.Res.Toxicol. CRTOEC 2140 0893-228X 26 1348 1360 10.1021/tx400200b 23947567 Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4. 2013 10.2210/pdb4jv2/pdb pdb_00004jv2 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1 CCD 2009-10-15 MARMOSAIC 225 mm CCD SINGLE WAVELENGTH M x-ray 1 0.979 1.0 1.0 1.0 21-ID-F APS 0.979 1.0 SYNCHROTRON APS BEAMLINE 21-ID-F 39848.398 DNA polymerase IV 2.7.7.7 1 man polymer 4637.133 DNA (5'-D(P*TP*(HN1)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') 1 syn polymer 4096.670 DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3') 1 syn polymer 491.182 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE 1 syn non-polymer 40.078 CALCIUM ION 2 syn non-polymer 18.015 water 40 nat water Pol IV no no HHHHHHMIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYL PMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIA ADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN EPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSE SVKLLQKILEEDERKIRRIGVRFSKFI HHHHHHMIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYL PMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIA ADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN EPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSE SVKLLQKILEEDERKIRRIGVRFSKFI A polypeptide(L) no yes (DT)(HN1)(DG)(DA)(DA)(DT)(DC)(DC)(DT)(DT)(DC)(DC)(DC)(DC)(DC) TXGAATCCTTCCCCC B polydeoxyribonucleotide no no (DG)(DG)(DG)(DG)(DG)(DA)(DA)(DG)(DG)(DA)(DT)(DT)(DC) GGGGGAAGGATTC 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 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 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 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 ATCC 35092 / DSM 1617 / JCM 11322 / P2 sample dbh, dpo4, SSO2448 273057 Sulfolobus solfataricus 562 ESCHERICHIA COLI 1 2.650 53.650 VAPOR DIFFUSION, HANGING DROP 7.4 50 MM TRIS HCL, 15% PEG3350, 100MM CALCIUM DIACETATE, 2.5% GLYCEROL, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 -17.359 1 19 B 606 C 513 3.018 B_DG606:DC513_C 1 -5.442 -0.193 -0.250 -0.211 0.540 1 20 B 607 C 512 0.860 B_DA607:DT512_C 2 -2.754 0.047 0.105 -0.193 7.185 1 20 B 608 C 511 4.235 B_DA608:DT511_C 3 -11.185 -0.222 0.183 -0.050 10.403 1 20 B 609 C 510 -0.644 B_DT609:DA510_C 4 -10.311 -0.344 -0.182 -0.229 2.941 1 19 B 610 C 509 2.651 B_DC610:DG509_C 5 -12.092 0.470 0.142 -0.472 -7.574 1 19 B 611 C 508 1.307 B_DC611:DG508_C 6 -5.988 0.150 0.213 -0.044 -4.023 1 20 B 612 C 507 -2.867 B_DT612:DA507_C 7 -7.368 -0.135 0.502 -0.316 -4.512 1 20 B 613 C 506 -0.297 B_DT613:DA506_C 8 -15.590 -0.165 0.227 -0.389 -4.888 1 19 B 614 C 505 -3.637 B_DC614:DG505_C 9 -9.898 -0.401 0.191 -0.283 -12.959 1 19 B 615 C 504 -6.436 B_DC615:DG504_C 10 -6.126 0.445 0.333 -0.648 -4.930 1 19 B 616 C 503 -5.100 B_DC616:DG503_C 11 -2.488 0.009 0.239 -0.348 -5.000 1 19 B 617 C 502 0.051 B_DC617:DG502_C 12 -0.852 0.244 0.119 -0.406 -2.355 1 19 B 618 C 501 -6.831 B_DC618:DG501_C 13 -0.914 -0.087 0.316 -0.100 2.839 27.674 B B 606 607 12.804 C C 513 512 2.972 6.059 0.180 -0.065 BB_DG606DA607:DT512DC513_CC 1 -3.685 7.788 26.767 -1.463 -1.184 3.223 33.613 B B 607 608 0.345 C C 512 511 3.219 0.200 -0.571 -0.263 BB_DA607DA608:DT511DT512_CC 2 -0.293 0.506 33.612 -0.487 0.941 3.037 28.058 B B 608 609 11.347 C C 511 510 3.223 5.465 -0.020 -0.632 BB_DA608DT609:DA510DT511_CC 3 1.597 -3.317 27.486 -2.549 0.405 3.439 39.716 B B 609 610 -3.359 C C 510 509 3.474 -2.280 0.831 -0.302 BB_DT609DC610:DG509DA510_CC 4 -2.086 3.074 39.600 -0.163 -1.481 3.381 32.606 B B 610 611 9.413 C C 509 508 3.600 5.261 -0.435 -0.975 BB_DC610DC611:DG508DG509_CC 5 1.380 -2.469 32.161 -2.719 1.032 3.251 32.929 B B 611 612 4.661 C C 508 507 3.275 2.638 -0.195 -0.247 BB_DC611DT612:DA507DG508_CC 6 -2.019 3.568 32.765 -0.885 -0.001 3.219 31.838 B B 612 613 5.098 C C 507 506 3.250 2.784 0.518 -0.695 BB_DT612DT613:DA506DA507_CC 7 4.505 -8.248 31.406 -1.773 -0.125 3.128 34.774 B B 613 614 7.676 C C 506 505 3.225 4.575 0.241 -0.566 BB_DT613DC614:DG505DA506_CC 8 0.304 -0.510 34.480 -1.629 -0.358 3.303 34.370 B B 614 615 12.463 C C 505 504 3.473 7.311 -0.051 -0.460 BB_DC614DC615:DG504DG505_CC 9 -0.449 0.765 33.604 -1.976 0.014 2.787 29.571 B B 615 616 15.738 C C 504 503 3.122 7.938 -0.624 -0.829 BB_DC615DC616:DG503DG504_CC 10 0.369 -0.732 28.506 -3.174 1.294 3.501 33.751 B B 616 617 7.219 C C 503 502 3.388 4.170 1.521 -0.227 BB_DC616DC617:DG502DG503_CC 11 4.402 -7.621 33.218 -1.108 -1.862 3.389 30.496 B B 617 618 7.178 C C 502 501 3.332 3.759 -1.040 -0.091 BB_DC617DC618:DG501DG502_CC 12 -3.362 6.420 30.086 -0.948 1.284 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site repository Initial release Database references Data collection Database references Derived calculations 1 0 2013-08-28 1 1 2013-10-09 1 2 2024-02-28 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _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_seq_id _struct_conn.ptnr2_label_asym_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2013-03-25 REL REL DTP 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE CA CALCIUM ION HOH water DTP 7000 4 DTP DTP 401 A CA 1001 5 CA CA 402 A CA 1002 5 CA CA 403 A HOH 342 6 HOH HOH 501 A HOH 343 6 HOH HOH 502 A HOH 344 6 HOH HOH 503 A HOH 345 6 HOH HOH 504 A HOH 346 6 HOH HOH 505 A HOH 347 6 HOH HOH 506 A HOH 348 6 HOH HOH 507 A HOH 349 6 HOH HOH 508 A HOH 350 6 HOH HOH 509 A HOH 351 6 HOH HOH 510 A HOH 352 6 HOH HOH 511 A HOH 353 6 HOH HOH 512 A HOH 354 6 HOH HOH 513 A HOH 355 6 HOH HOH 514 A HOH 356 6 HOH HOH 515 A HOH 357 6 HOH HOH 516 A HOH 358 6 HOH HOH 517 A HOH 359 6 HOH HOH 518 A HOH 360 6 HOH HOH 519 A HOH 361 6 HOH HOH 520 A HOH 362 6 HOH HOH 521 A HOH 363 6 HOH HOH 522 A HOH 364 6 HOH HOH 523 A HOH 365 6 HOH HOH 524 A HOH 366 6 HOH HOH 525 A HOH 367 6 HOH HOH 526 A HOH 368 6 HOH HOH 527 A HOH 9 6 HOH HOH 528 A HOH 1 6 HOH HOH 701 B HOH 8 6 HOH HOH 702 B HOH 13 6 HOH HOH 703 B HOH 14 6 HOH HOH 704 B HOH 20 6 HOH HOH 705 B HOH 21 6 HOH HOH 706 B HOH 30 6 HOH HOH 707 B HOH 6 6 HOH HOH 601 C HOH 7 6 HOH HOH 602 C HOH 10 6 HOH HOH 603 C HOH 11 6 HOH HOH 604 C HOH 40 6 HOH HOH 605 C n 1 -5 A n 2 -4 A n 3 -3 A n 4 -2 A n 5 -1 A n 6 0 A MET 1 n 7 MET 1 A ILE 2 n 8 ILE 2 A VAL 3 n 9 VAL 3 A LEU 4 n 10 LEU 4 A PHE 5 n 11 PHE 5 A VAL 6 n 12 VAL 6 A ASP 7 n 13 ASP 7 A PHE 8 n 14 PHE 8 A ASP 9 n 15 ASP 9 A TYR 10 n 16 TYR 10 A PHE 11 n 17 PHE 11 A TYR 12 n 18 TYR 12 A ALA 13 n 19 ALA 13 A GLN 14 n 20 GLN 14 A VAL 15 n 21 VAL 15 A GLU 16 n 22 GLU 16 A GLU 17 n 23 GLU 17 A VAL 18 n 24 VAL 18 A LEU 19 n 25 LEU 19 A ASN 20 n 26 ASN 20 A PRO 21 n 27 PRO 21 A SER 22 n 28 SER 22 A LEU 23 n 29 LEU 23 A LYS 24 n 30 LYS 24 A GLY 25 n 31 GLY 25 A LYS 26 n 32 LYS 26 A PRO 27 n 33 PRO 27 A VAL 28 n 34 VAL 28 A VAL 29 n 35 VAL 29 A VAL 30 n 36 VAL 30 A CYS 31 n 37 CYS 31 A VAL 32 n 38 VAL 32 A PHE 33 n 39 PHE 33 A SER 34 n 40 SER 34 A GLY 35 n 41 GLY 35 A ARG 36 n 42 ARG 36 A PHE 37 n 43 PHE 37 A GLU 38 n 44 GLU 38 A ASP 39 n 45 ASP 39 A SER 40 n 46 SER 40 A GLY 41 n 47 GLY 41 A ALA 42 n 48 ALA 42 A VAL 43 n 49 VAL 43 A ALA 44 n 50 ALA 44 A THR 45 n 51 THR 45 A ALA 46 n 52 ALA 46 A ASN 47 n 53 ASN 47 A TYR 48 n 54 TYR 48 A GLU 49 n 55 GLU 49 A ALA 50 n 56 ALA 50 A ARG 51 n 57 ARG 51 A LYS 52 n 58 LYS 52 A PHE 53 n 59 PHE 53 A GLY 54 n 60 GLY 54 A VAL 55 n 61 VAL 55 A LYS 56 n 62 LYS 56 A ALA 57 n 63 ALA 57 A GLY 58 n 64 GLY 58 A ILE 59 n 65 ILE 59 A PRO 60 n 66 PRO 60 A ILE 61 n 67 ILE 61 A VAL 62 n 68 VAL 62 A GLU 63 n 69 GLU 63 A ALA 64 n 70 ALA 64 A LYS 65 n 71 LYS 65 A LYS 66 n 72 LYS 66 A ILE 67 n 73 ILE 67 A LEU 68 n 74 LEU 68 A PRO 69 n 75 PRO 69 A ASN 70 n 76 ASN 70 A ALA 71 n 77 ALA 71 A VAL 72 n 78 VAL 72 A TYR 73 n 79 TYR 73 A LEU 74 n 80 LEU 74 A PRO 75 n 81 PRO 75 A MET 76 n 82 MET 76 A ARG 77 n 83 ARG 77 A LYS 78 n 84 LYS 78 A GLU 79 n 85 GLU 79 A VAL 80 n 86 VAL 80 A TYR 81 n 87 TYR 81 A GLN 82 n 88 GLN 82 A GLN 83 n 89 GLN 83 A VAL 84 n 90 VAL 84 A SER 85 n 91 SER 85 A SER 86 n 92 SER 86 A ARG 87 n 93 ARG 87 A ILE 88 n 94 ILE 88 A MET 89 n 95 MET 89 A ASN 90 n 96 ASN 90 A LEU 91 n 97 LEU 91 A LEU 92 n 98 LEU 92 A ARG 93 n 99 ARG 93 A GLU 94 n 100 GLU 94 A TYR 95 n 101 TYR 95 A SER 96 n 102 SER 96 A GLU 97 n 103 GLU 97 A LYS 98 n 104 LYS 98 A ILE 99 n 105 ILE 99 A GLU 100 n 106 GLU 100 A ILE 101 n 107 ILE 101 A ALA 102 n 108 ALA 102 A SER 103 n 109 SER 103 A ILE 104 n 110 ILE 104 A ASP 105 n 111 ASP 105 A GLU 106 n 112 GLU 106 A ALA 107 n 113 ALA 107 A TYR 108 n 114 TYR 108 A LEU 109 n 115 LEU 109 A ASP 110 n 116 ASP 110 A ILE 111 n 117 ILE 111 A SER 112 n 118 SER 112 A ASP 113 n 119 ASP 113 A LYS 114 n 120 LYS 114 A VAL 115 n 121 VAL 115 A ARG 116 n 122 ARG 116 A ASP 117 n 123 ASP 117 A TYR 118 n 124 TYR 118 A ARG 119 n 125 ARG 119 A GLU 120 n 126 GLU 120 A ALA 121 n 127 ALA 121 A TYR 122 n 128 TYR 122 A ASN 123 n 129 ASN 123 A LEU 124 n 130 LEU 124 A GLY 125 n 131 GLY 125 A LEU 126 n 132 LEU 126 A GLU 127 n 133 GLU 127 A ILE 128 n 134 ILE 128 A LYS 129 n 135 LYS 129 A ASN 130 n 136 ASN 130 A LYS 131 n 137 LYS 131 A ILE 132 n 138 ILE 132 A LEU 133 n 139 LEU 133 A GLU 134 n 140 GLU 134 A LYS 135 n 141 LYS 135 A GLU 136 n 142 GLU 136 A LYS 137 n 143 LYS 137 A ILE 138 n 144 ILE 138 A THR 139 n 145 THR 139 A VAL 140 n 146 VAL 140 A THR 141 n 147 THR 141 A VAL 142 n 148 VAL 142 A GLY 143 n 149 GLY 143 A ILE 144 n 150 ILE 144 A SER 145 n 151 SER 145 A LYS 146 n 152 LYS 146 A ASN 147 n 153 ASN 147 A LYS 148 n 154 LYS 148 A VAL 149 n 155 VAL 149 A PHE 150 n 156 PHE 150 A ALA 151 n 157 ALA 151 A LYS 152 n 158 LYS 152 A ILE 153 n 159 ILE 153 A ALA 154 n 160 ALA 154 A ALA 155 n 161 ALA 155 A ASP 156 n 162 ASP 156 A MET 157 n 163 MET 157 A ALA 158 n 164 ALA 158 A LYS 159 n 165 LYS 159 A PRO 160 n 166 PRO 160 A ASN 161 n 167 ASN 161 A GLY 162 n 168 GLY 162 A ILE 163 n 169 ILE 163 A LYS 164 n 170 LYS 164 A VAL 165 n 171 VAL 165 A ILE 166 n 172 ILE 166 A ASP 167 n 173 ASP 167 A ASP 168 n 174 ASP 168 A GLU 169 n 175 GLU 169 A GLU 170 n 176 GLU 170 A VAL 171 n 177 VAL 171 A LYS 172 n 178 LYS 172 A ARG 173 n 179 ARG 173 A LEU 174 n 180 LEU 174 A ILE 175 n 181 ILE 175 A ARG 176 n 182 ARG 176 A GLU 177 n 183 GLU 177 A LEU 178 n 184 LEU 178 A ASP 179 n 185 ASP 179 A ILE 180 n 186 ILE 180 A ALA 181 n 187 ALA 181 A ASP 182 n 188 ASP 182 A VAL 183 n 189 VAL 183 A PRO 184 n 190 PRO 184 A GLY 185 n 191 GLY 185 A ILE 186 n 192 ILE 186 A GLY 187 n 193 GLY 187 A ASN 188 n 194 ASN 188 A ILE 189 n 195 ILE 189 A THR 190 n 196 THR 190 A ALA 191 n 197 ALA 191 A GLU 192 n 198 GLU 192 A LYS 193 n 199 LYS 193 A LEU 194 n 200 LEU 194 A LYS 195 n 201 LYS 195 A LYS 196 n 202 LYS 196 A LEU 197 n 203 LEU 197 A GLY 198 n 204 GLY 198 A ILE 199 n 205 ILE 199 A ASN 200 n 206 ASN 200 A LYS 201 n 207 LYS 201 A LEU 202 n 208 LEU 202 A VAL 203 n 209 VAL 203 A ASP 204 n 210 ASP 204 A THR 205 n 211 THR 205 A LEU 206 n 212 LEU 206 A SER 207 n 213 SER 207 A ILE 208 n 214 ILE 208 A GLU 209 n 215 GLU 209 A PHE 210 n 216 PHE 210 A ASP 211 n 217 ASP 211 A LYS 212 n 218 LYS 212 A LEU 213 n 219 LEU 213 A LYS 214 n 220 LYS 214 A GLY 215 n 221 GLY 215 A MET 216 n 222 MET 216 A ILE 217 n 223 ILE 217 A GLY 218 n 224 GLY 218 A GLU 219 n 225 GLU 219 A ALA 220 n 226 ALA 220 A LYS 221 n 227 LYS 221 A ALA 222 n 228 ALA 222 A LYS 223 n 229 LYS 223 A TYR 224 n 230 TYR 224 A LEU 225 n 231 LEU 225 A ILE 226 n 232 ILE 226 A SER 227 n 233 SER 227 A LEU 228 n 234 LEU 228 A ALA 229 n 235 ALA 229 A ARG 230 n 236 ARG 230 A ASP 231 n 237 ASP 231 A GLU 232 n 238 GLU 232 A TYR 233 n 239 TYR 233 A ASN 234 n 240 ASN 234 A GLU 235 n 241 GLU 235 A PRO 236 n 242 PRO 236 A ILE 237 n 243 ILE 237 A ARG 238 n 244 ARG 238 A THR 239 n 245 THR 239 A ARG 240 n 246 ARG 240 A VAL 241 n 247 VAL 241 A ARG 242 n 248 ARG 242 A LYS 243 n 249 LYS 243 A SER 244 n 250 SER 244 A ILE 245 n 251 ILE 245 A GLY 246 n 252 GLY 246 A ARG 247 n 253 ARG 247 A ILE 248 n 254 ILE 248 A VAL 249 n 255 VAL 249 A THR 250 n 256 THR 250 A MET 251 n 257 MET 251 A LYS 252 n 258 LYS 252 A ARG 253 n 259 ARG 253 A ASN 254 n 260 ASN 254 A SER 255 n 261 SER 255 A ARG 256 n 262 ARG 256 A ASN 257 n 263 ASN 257 A LEU 258 n 264 LEU 258 A GLU 259 n 265 GLU 259 A GLU 260 n 266 GLU 260 A ILE 261 n 267 ILE 261 A LYS 262 n 268 LYS 262 A PRO 263 n 269 PRO 263 A TYR 264 n 270 TYR 264 A LEU 265 n 271 LEU 265 A PHE 266 n 272 PHE 266 A ARG 267 n 273 ARG 267 A ALA 268 n 274 ALA 268 A ILE 269 n 275 ILE 269 A GLU 270 n 276 GLU 270 A GLU 271 n 277 GLU 271 A SER 272 n 278 SER 272 A TYR 273 n 279 TYR 273 A TYR 274 n 280 TYR 274 A LYS 275 n 281 LYS 275 A LEU 276 n 282 LEU 276 A ASP 277 n 283 ASP 277 A LYS 278 n 284 LYS 278 A ARG 279 n 285 ARG 279 A ILE 280 n 286 ILE 280 A PRO 281 n 287 PRO 281 A LYS 282 n 288 LYS 282 A ALA 283 n 289 ALA 283 A ILE 284 n 290 ILE 284 A HIS 285 n 291 HIS 285 A VAL 286 n 292 VAL 286 A VAL 287 n 293 VAL 287 A ALA 288 n 294 ALA 288 A VAL 289 n 295 VAL 289 A THR 290 n 296 THR 290 A GLU 291 n 297 GLU 291 A ASP 292 n 298 ASP 292 A LEU 293 n 299 LEU 293 A ASP 294 n 300 ASP 294 A ILE 295 n 301 ILE 295 A VAL 296 n 302 VAL 296 A SER 297 n 303 SER 297 A ARG 298 n 304 ARG 298 A GLY 299 n 305 GLY 299 A ARG 300 n 306 ARG 300 A THR 301 n 307 THR 301 A PHE 302 n 308 PHE 302 A PRO 303 n 309 PRO 303 A HIS 304 n 310 HIS 304 A GLY 305 n 311 GLY 305 A ILE 306 n 312 ILE 306 A SER 307 n 313 SER 307 A LYS 308 n 314 LYS 308 A GLU 309 n 315 GLU 309 A THR 310 n 316 THR 310 A ALA 311 n 317 ALA 311 A TYR 312 n 318 TYR 312 A SER 313 n 319 SER 313 A GLU 314 n 320 GLU 314 A SER 315 n 321 SER 315 A VAL 316 n 322 VAL 316 A LYS 317 n 323 LYS 317 A LEU 318 n 324 LEU 318 A LEU 319 n 325 LEU 319 A GLN 320 n 326 GLN 320 A LYS 321 n 327 LYS 321 A ILE 322 n 328 ILE 322 A LEU 323 n 329 LEU 323 A GLU 324 n 330 GLU 324 A GLU 325 n 331 GLU 325 A ASP 326 n 332 ASP 326 A GLU 327 n 333 GLU 327 A ARG 328 n 334 ARG 328 A LYS 329 n 335 LYS 329 A ILE 330 n 336 ILE 330 A ARG 331 n 337 ARG 331 A ARG 332 n 338 ARG 332 A ILE 333 n 339 ILE 333 A GLY 334 n 340 GLY 334 A VAL 335 n 341 VAL 335 A ARG 336 n 342 ARG 336 A PHE 337 n 343 PHE 337 A SER 338 n 344 SER 338 A LYS 339 n 345 LYS 339 A PHE 340 n 346 PHE 340 A ILE 341 n 347 ILE 341 A DT 604 n 1 DT 604 B HN1 605 n 2 HN1 605 B DG 606 n 3 DG 606 B DA 607 n 4 DA 607 B DA 608 n 5 DA 608 B DT 609 n 6 DT 609 B DC 610 n 7 DC 610 B DC 611 n 8 DC 611 B DT 612 n 9 DT 612 B DT 613 n 10 DT 613 B DC 614 n 11 DC 614 B DC 615 n 12 DC 615 B DC 616 n 13 DC 616 B DC 617 n 14 DC 617 B DC 618 n 15 DC 618 B DG 501 n 1 DG 501 C DG 502 n 2 DG 502 C DG 503 n 3 DG 503 C DG 504 n 4 DG 504 C DG 505 n 5 DG 505 C DA 506 n 6 DA 506 C DA 507 n 7 DA 507 C DG 508 n 8 DG 508 C DG 509 n 9 DG 509 C DA 510 n 10 DA 510 C DT 511 n 11 DT 511 C DT 512 n 12 DT 512 C DC 513 n 13 DC 513 C author_and_software_defined_assembly PISA 3 trimeric 4830 -55 20180 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 A PHE 8 A O PHE 14 1_555 129.5 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 A ASP 105 A OD2 ASP 111 1_555 53.6 A PHE 8 A O PHE 14 1_555 A CA 402 E CA CA 1_555 A ASP 105 A OD2 ASP 111 1_555 103.1 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O3G DTP 1_555 105.6 A PHE 8 A O PHE 14 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O3G DTP 1_555 123.1 A ASP 105 A OD2 ASP 111 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O3G DTP 1_555 122.4 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2A DTP 1_555 73.4 A PHE 8 A O PHE 14 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2A DTP 1_555 132.5 A ASP 105 A OD2 ASP 111 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2A DTP 1_555 53.2 A DTP 401 D O3G DTP 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2A DTP 1_555 69.8 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2B DTP 1_555 132.7 A PHE 8 A O PHE 14 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2B DTP 1_555 70.8 A ASP 105 A OD2 ASP 111 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2B DTP 1_555 82.2 A DTP 401 D O3G DTP 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2B DTP 1_555 82.6 A DTP 401 D O2A DTP 1_555 A CA 402 E CA CA 1_555 A DTP 401 D O2B DTP 1_555 65.9 A ALA 181 A O ALA 187 1_555 A CA 403 F CA CA 1_555 A ILE 186 A O ILE 192 1_555 71.4 A ALA 181 A O ALA 187 1_555 A CA 403 F CA CA 1_555 A HOH 502 G O HOH 1_555 69.5 A ILE 186 A O ILE 192 1_555 A CA 403 F CA CA 1_555 A HOH 502 G O HOH 1_555 61.9 A ALA 181 A O ALA 187 1_555 A CA 403 F CA CA 1_555 A HOH 503 G O HOH 1_555 79.0 A ILE 186 A O ILE 192 1_555 A CA 403 F CA CA 1_555 A HOH 503 G O HOH 1_555 55.5 A HOH 502 G O HOH 1_555 A CA 403 F CA CA 1_555 A HOH 503 G O HOH 1_555 115.9 A ALA 181 A O ALA 187 1_555 A CA 403 F CA CA 1_555 A HOH 504 G O HOH 1_555 92.4 A ILE 186 A O ILE 192 1_555 A CA 403 F CA CA 1_555 A HOH 504 G O HOH 1_555 156.9 A HOH 502 G O HOH 1_555 A CA 403 F CA CA 1_555 A HOH 504 G O HOH 1_555 97.5 A HOH 503 G O HOH 1_555 A CA 403 F CA CA 1_555 A HOH 504 G O HOH 1_555 139.1 B HN1 605 B HN1 2 DG 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 GLU 100 A N GLU 106 A O TYR 108 A O TYR 114 A O ALA 107 A O ALA 113 A N VAL 6 A N VAL 12 A N PHE 5 A N PHE 11 A O GLY 143 A O GLY 149 A N VAL 142 A N VAL 148 A O LYS 164 A O LYS 170 A O ALA 42 A O ALA 48 A N VAL 32 A N VAL 38 A N CYS 31 A N CYS 37 A O LEU 74 A O LEU 80 A N ILE 245 A N ILE 251 A O PHE 337 A O PHE 343 A O ARG 331 A O ARG 337 A N VAL 289 A N VAL 295 A N VAL 286 A N VAL 292 A O ARG 298 A O ARG 304 1 B C7 HN1 605 B C7 HN1 2 1 Y 1 B C9 HN1 605 B C9 HN1 2 1 Y 1 B C10 HN1 605 B C10 HN1 2 1 Y 1 B O10 HN1 605 B O10 HN1 2 1 Y 1 B C11 HN1 605 B C11 HN1 2 1 Y 1 B C12 HN1 605 B C12 HN1 2 1 Y 1 B C13 HN1 605 B C13 HN1 2 1 Y 1 A HIS -5 A HIS 1 1 Y 1 A HIS -4 A HIS 2 1 Y 1 A HIS -3 A HIS 3 1 Y 1 A HIS -2 A HIS 4 1 Y 1 A HIS -1 A HIS 5 1 Y 1 A HIS 0 A HIS 6 1 Y 1 A A O O HOH HOH 506 507 1.99 1 A A O2A O DTP HOH 401 501 2.14 1 A A OE2 OH GLU TYR 270 312 2.15 1 A A OE2 O GLU HOH 106 501 2.18 1 A A O O HOH HOH 515 517 2.19 1 -6.42 1.00 110.10 103.68 B B B C1' O4' C4' DA DA DA 607 607 607 N 1 2.47 0.30 108.30 110.77 B B B O4' C1' N9 DA DA DA 607 607 607 N 1 -5.52 0.80 109.40 103.88 B B B O5' C5' C4' DT DT DT 609 609 609 N 1 2.05 0.30 108.30 110.35 B B B O4' C1' N1 DC DC DC 611 611 611 N 1 2.89 0.30 108.30 111.19 B B B O4' C1' N1 DT DT DT 612 612 612 N 1 2.09 0.30 108.30 110.39 B B B O4' C1' N1 DC DC DC 615 615 615 N 1 4.04 0.30 108.30 112.34 B B B O4' C1' N1 DC DC DC 617 617 617 N 1 3.78 0.30 108.30 112.08 B B B O4' C1' N1 DC DC DC 618 618 618 N 1 2.10 0.30 108.30 110.40 C C C O4' C1' N9 DG DG DG 501 501 501 N 1 -5.19 0.80 102.40 97.21 C C C C3' C2' C1' DG DG DG 502 502 502 N 1 5.48 0.30 108.30 113.78 C C C O4' C1' N9 DG DG DG 502 502 502 N 1 -5.02 0.80 102.40 97.38 C C C C3' C2' C1' DG DG DG 504 504 504 N 1 5.41 0.30 108.30 113.71 C C C O4' C1' N9 DG DG DG 504 504 504 N 1 2.12 0.30 108.30 110.42 C C C O4' C1' N9 DG DG DG 508 508 508 N 1 3.54 0.30 108.30 111.84 C C C O4' C1' N9 DG DG DG 509 509 509 N 1 8.36 0.30 108.30 116.66 C C C O4' C1' N1 DC DC DC 513 513 513 N 1 A TYR 10 28.38 51.66 1 A ARG 77 -119.70 75.89 1 A SER 145 -160.35 -166.85 1 A ASP 167 -70.82 -107.91 1 A ASP 168 -131.01 -41.78 1 A MET 216 -92.20 -66.13 1 A ASP 231 48.32 27.46 1 A ASN 234 -154.42 30.49 1 A ASP 277 44.85 78.40 1 A LYS 278 72.89 -2.52 101.070 56.1056 32.400 5.6627 -0.0000 -0.0000 -1.1584 0.0000 -4.5043 0.2650 0.2030 0.2090 2.7400 42.0900 1401 14000 10.0100 99.0000 1.000 1.000 0.7500 1 1.340 MOLECULAR REPLACEMENT 27.5600 0.7300 1.0000 ML FLAT BULK SOLVENT MODEL 31.4600 0.3400 2.7400 42.0900 40 3392 32 576 2744 0.009 1.3 0.4511 0.4036 2.8404 126 1139 1265 10 91.0000 0.4116 0.3252 2.9541 139 1245 1384 10 99.0000 0.3328 0.2709 3.0885 138 1239 1377 10 100.0000 0.2966 0.2213 3.2513 139 1258 1397 10 100.0000 0.2929 0.2069 3.4549 138 1236 1374 10 100.0000 0.2480 0.1977 3.7216 141 1273 1414 10 100.0000 0.2587 0.1926 4.0958 141 1265 1406 10 100.0000 0.2097 0.1488 4.6878 142 1276 1418 10 100.0000 0.2541 0.1836 5.9035 145 1304 1449 10 100.0000 0.2298 0.1954 42.0951 152 1364 1516 10 100.0000 2.740 50.000 4JV2 14000 0.000 0.088 1 0.644 2.75 2.85 1 refinement Paul D. Adams PDAdams@lbl.gov C++ http://www.phenix-online.org/ PHENIX package 1.7.2_869 data extraction PDB deposit@deposit.rcsb.org April 22, 2011 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.11 data reduction HKL-2000 data scaling HKL-2000 phasing CNS Ternary complex of gamma-OHPDG adduct modified dna with dna (-1 primer) polymerase iv and incoming datp 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N 6 N N 6 N N 6 N N A TYR 10 A TYR 16 HELX_P A ASN 20 A ASN 26 1 1 11 A PRO 21 A PRO 27 HELX_P A LYS 24 A LYS 30 5 2 4 A ASN 47 A ASN 53 HELX_P A LYS 52 A LYS 58 1 3 6 A PRO 60 A PRO 66 HELX_P A LEU 68 A LEU 74 1 4 9 A ARG 77 A ARG 83 HELX_P A GLU 94 A GLU 100 1 5 18 A ASP 117 A ASP 123 HELX_P A LYS 137 A LYS 143 1 6 21 A ASN 147 A ASN 153 HELX_P A LYS 159 A LYS 165 1 7 13 A ASP 168 A ASP 174 HELX_P A LEU 178 A LEU 184 1 8 11 A ASP 179 A ASP 185 HELX_P A VAL 183 A VAL 189 5 9 5 A GLY 187 A GLY 193 HELX_P A LYS 196 A LYS 202 1 10 10 A LYS 201 A LYS 207 HELX_P A ILE 208 A ILE 214 5 11 8 A GLU 209 A GLU 215 HELX_P A GLY 218 A GLY 224 1 12 10 A GLY 218 A GLY 224 HELX_P A ARG 230 A ARG 236 1 13 13 A ASN 257 A ASN 263 HELX_P A ASP 277 A ASP 283 1 14 21 A SER 307 A SER 313 HELX_P A ASP 326 A ASP 332 1 15 20 covale 1.613 both B DT 604 B O3' DT 1 1_555 B HN1 605 B P HN1 2 1_555 covale 1.605 both B HN1 605 B O3' HN1 2 1_555 B DG 606 B P DG 3 1_555 metalc 2.784 A ASP 7 A OD2 ASP 13 1_555 A CA 402 E CA CA 1_555 metalc 2.694 A PHE 8 A O PHE 14 1_555 A CA 402 E CA CA 1_555 metalc 2.820 A ASP 105 A OD2 ASP 111 1_555 A CA 402 E CA CA 1_555 metalc 2.749 A ALA 181 A O ALA 187 1_555 A CA 403 F CA CA 1_555 metalc 3.085 A ILE 186 A O ILE 192 1_555 A CA 403 F CA CA 1_555 metalc 2.836 A DTP 401 D O3G DTP 1_555 A CA 402 E CA CA 1_555 metalc 3.011 A DTP 401 D O2A DTP 1_555 A CA 402 E CA CA 1_555 metalc 3.092 A DTP 401 D O2B DTP 1_555 A CA 402 E CA CA 1_555 metalc 2.898 A CA 403 F CA CA 1_555 A HOH 502 G O HOH 1_555 metalc 3.077 A CA 403 F CA CA 1_555 A HOH 503 G O HOH 1_555 metalc 2.822 A CA 403 F CA CA 1_555 A HOH 504 G O HOH 1_555 hydrog WATSON-CRICK B DG 606 B N1 DG 3 1_555 C DC 513 C N3 DC 13 1_555 hydrog WATSON-CRICK B DG 606 B N2 DG 3 1_555 C DC 513 C O2 DC 13 1_555 hydrog WATSON-CRICK B DG 606 B O6 DG 3 1_555 C DC 513 C N4 DC 13 1_555 hydrog WATSON-CRICK B DA 607 B N1 DA 4 1_555 C DT 512 C N3 DT 12 1_555 hydrog WATSON-CRICK B DA 607 B N6 DA 4 1_555 C DT 512 C O4 DT 12 1_555 hydrog WATSON-CRICK B DA 608 B N1 DA 5 1_555 C DT 511 C N3 DT 11 1_555 hydrog WATSON-CRICK B DA 608 B N6 DA 5 1_555 C DT 511 C O4 DT 11 1_555 hydrog WATSON-CRICK B DT 609 B N3 DT 6 1_555 C DA 510 C N1 DA 10 1_555 hydrog WATSON-CRICK B DT 609 B O4 DT 6 1_555 C DA 510 C N6 DA 10 1_555 hydrog WATSON-CRICK B DC 610 B N3 DC 7 1_555 C DG 509 C N1 DG 9 1_555 hydrog WATSON-CRICK B DC 610 B N4 DC 7 1_555 C DG 509 C O6 DG 9 1_555 hydrog WATSON-CRICK B DC 610 B O2 DC 7 1_555 C DG 509 C N2 DG 9 1_555 hydrog WATSON-CRICK B DC 611 B N3 DC 8 1_555 C DG 508 C N1 DG 8 1_555 hydrog WATSON-CRICK B DC 611 B N4 DC 8 1_555 C DG 508 C O6 DG 8 1_555 hydrog WATSON-CRICK B DC 611 B O2 DC 8 1_555 C DG 508 C N2 DG 8 1_555 hydrog WATSON-CRICK B DT 612 B N3 DT 9 1_555 C DA 507 C N1 DA 7 1_555 hydrog WATSON-CRICK B DT 612 B O4 DT 9 1_555 C DA 507 C N6 DA 7 1_555 hydrog WATSON-CRICK B DT 613 B N3 DT 10 1_555 C DA 506 C N1 DA 6 1_555 hydrog WATSON-CRICK B DT 613 B O4 DT 10 1_555 C DA 506 C N6 DA 6 1_555 hydrog WATSON-CRICK B DC 614 B N3 DC 11 1_555 C DG 505 C N1 DG 5 1_555 hydrog WATSON-CRICK B DC 614 B N4 DC 11 1_555 C DG 505 C O6 DG 5 1_555 hydrog WATSON-CRICK B DC 614 B O2 DC 11 1_555 C DG 505 C N2 DG 5 1_555 hydrog WATSON-CRICK B DC 615 B N3 DC 12 1_555 C DG 504 C N1 DG 4 1_555 hydrog WATSON-CRICK B DC 615 B N4 DC 12 1_555 C DG 504 C O6 DG 4 1_555 hydrog WATSON-CRICK B DC 615 B O2 DC 12 1_555 C DG 504 C N2 DG 4 1_555 hydrog WATSON-CRICK B DC 616 B N3 DC 13 1_555 C DG 503 C N1 DG 3 1_555 hydrog WATSON-CRICK B DC 616 B N4 DC 13 1_555 C DG 503 C O6 DG 3 1_555 hydrog WATSON-CRICK B DC 616 B O2 DC 13 1_555 C DG 503 C N2 DG 3 1_555 hydrog WATSON-CRICK B DC 617 B N3 DC 14 1_555 C DG 502 C N1 DG 2 1_555 hydrog WATSON-CRICK B DC 617 B N4 DC 14 1_555 C DG 502 C O6 DG 2 1_555 hydrog WATSON-CRICK B DC 617 B O2 DC 14 1_555 C DG 502 C N2 DG 2 1_555 hydrog WATSON-CRICK B DC 618 B N3 DC 15 1_555 C DG 501 C N1 DG 1 1_555 hydrog WATSON-CRICK B DC 618 B N4 DC 15 1_555 C DG 501 C O6 DG 1 1_555 hydrog WATSON-CRICK B DC 618 B O2 DC 15 1_555 C DG 501 C N2 DG 1 1_555 TRANSFERASE/DNA TERNARY COMPLEX OF DPO4-DNA-DATP, DNA POLYMERASE, DNA ADDUCT, TRANSFERASE-DNA COMPLEX A LYS 159 A LYS 165 1 A PRO 160 A PRO 166 4.86 DPO4_SULSO UNP 1 1 Q97W02 MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEV YQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKP NGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTR VRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQ KILEEDERKIRRIGVRFSKFI 4JV2 PDB 2 4JV2 4JV2 PDB 3 4JV2 1 341 4JV2 1 341 Q97W02 A 1 7 347 604 618 4JV2 604 618 4JV2 B 2 1 15 501 513 4JV2 501 513 4JV2 C 3 1 13 1 expression tag HIS -5 4JV2 A Q97W02 UNP 1 1 expression tag HIS -4 4JV2 A Q97W02 UNP 2 1 expression tag HIS -3 4JV2 A Q97W02 UNP 3 1 expression tag HIS -2 4JV2 A Q97W02 UNP 4 1 expression tag HIS -1 4JV2 A Q97W02 UNP 5 1 expression tag HIS 0 4JV2 A Q97W02 UNP 6 5 3 4 anti-parallel anti-parallel anti-parallel parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel A ILE 99 A ILE 105 A ILE 101 A ILE 107 A GLU 106 A GLU 112 A ASP 110 A ASP 116 A VAL 3 A VAL 9 A PHE 8 A PHE 14 A VAL 140 A VAL 146 A SER 145 A SER 151 A ILE 163 A ILE 169 A VAL 165 A VAL 171 A GLY 41 A GLY 47 A ALA 46 A ALA 52 A VAL 28 A VAL 34 A PHE 33 A PHE 39 A VAL 72 A VAL 78 A PRO 75 A PRO 81 A SER 244 A SER 250 A SER 255 A SER 261 A ILE 330 A ILE 336 A SER 338 A SER 344 A ALA 283 A ALA 289 A THR 290 A THR 296 A ILE 295 A ILE 301 A THR 301 A THR 307 BINDING SITE FOR RESIDUE DTP A 401 A DTP 401 Software 17 BINDING SITE FOR RESIDUE CA A 402 A CA 402 Software 4 BINDING SITE FOR RESIDUE CA A 403 A CA 403 Software 5 A ASP 7 A ASP 13 17 1_555 A PHE 8 A PHE 14 17 1_555 A ASP 9 A ASP 15 17 1_555 A TYR 10 A TYR 16 17 1_555 A PHE 11 A PHE 17 17 1_555 A TYR 12 A TYR 18 17 1_555 A ALA 44 A ALA 50 17 1_555 A THR 45 A THR 51 17 1_555 A TYR 48 A TYR 54 17 1_555 A ARG 51 A ARG 57 17 1_555 A ALA 57 A ALA 63 17 1_555 A ASP 105 A ASP 111 17 1_555 A LYS 159 A LYS 165 17 1_555 A CA 402 E CA 17 1_555 A HOH 501 G HOH 17 1_555 B DT 604 B DT 1 17 1_555 B HN1 605 B HN1 2 17 1_555 A ASP 7 A ASP 13 4 1_555 A PHE 8 A PHE 14 4 1_555 A ASP 105 A ASP 111 4 1_555 A DTP 401 D DTP 4 1_555 A ALA 181 A ALA 187 5 1_555 A ILE 186 A ILE 192 5 1_555 A HOH 502 G HOH 5 1_555 A HOH 503 G HOH 5 1_555 A HOH 504 G HOH 5 1_555 18 P 21 21 2