0.011922 0.000000 0.001816 0.000000 0.028239 0.000000 0.000000 0.000000 0.015845 0.00000 0.00000 0.00000 Nowotny, M. Yang, W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 98.66 90.00 83.878 35.412 63.839 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA 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 C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA 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 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA 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 Mg 2 24.305 MAGNESIUM ION non-polymer 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 C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 R C N 12 N O N 13 R C Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C 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 O N 112 N P N 113 N O N 114 N O N 115 N O N 116 N C N 117 R C N 118 N O N 119 S C N 120 N O N 121 R C N 122 N O N 123 R C N 124 N N N 125 N C N 126 N O N 127 N N N 128 N C N 129 N N N 130 N C N 131 N C N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N O N 147 N P N 148 N O N 149 N O N 150 N O N 151 N C N 152 R C N 153 N O N 154 S C N 155 N O N 156 N C N 157 R C Y 158 N N Y 159 N C Y 160 N N Y 161 N C Y 162 N C N 163 N N Y 164 N N Y 165 N C Y 166 N N Y 167 N C N 168 N H N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N O N 183 N P N 184 N O N 185 N O N 186 N O N 187 N C N 188 R C N 189 N O N 190 S C N 191 N O N 192 N C N 193 R C N 194 N N N 195 N C N 196 N O N 197 N N N 198 N C N 199 N N N 200 N C N 201 N C N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N O N 217 N P N 218 N O N 219 N O N 220 N O N 221 N C N 222 R C N 223 N O N 224 S C N 225 N O N 226 N C N 227 R C Y 228 N N Y 229 N C Y 230 N N Y 231 N C N 232 N C N 233 N O N 234 N N N 235 N C N 236 N N N 237 N N Y 238 N C N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N H N 253 N O N 254 N P N 255 N O N 256 N O N 257 N O N 258 N C N 259 R C N 260 N O N 261 S C N 262 N O N 263 N C N 264 R C N 265 N N N 266 N C N 267 N O N 268 N N N 269 N C N 270 N O N 271 N C N 272 N C N 273 N C N 274 N H N 275 N H N 276 N H N 277 N H 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 H N 289 N O N 290 N P N 291 N O N 292 N O N 293 N O N 294 N C N 295 R C N 296 N O N 297 S C N 298 N O N 299 R C N 300 N O N 301 R C Y 302 N N Y 303 N C Y 304 N N Y 305 N C N 306 N C N 307 N O N 308 N N N 309 N C N 310 N N N 311 N N Y 312 N C N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H 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 N 332 N C N 333 N C N 334 N O N 335 N N N 336 N O N 337 N H 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 N N 348 S C N 349 N C N 350 N O N 351 N C N 352 N C N 353 N C N 354 N O N 355 N O N 356 N O 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 H N 364 N H N 365 N H N 366 N N N 367 N C N 368 N C N 369 N O N 370 N O N 371 N H N 372 N H N 373 N H N 374 N H N 375 N H N 376 N N N 377 S C N 378 N C N 379 N O N 380 N C Y 381 N C Y 382 N N Y 383 N C Y 384 N C Y 385 N N N 386 N O 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 O N 398 N H N 399 N H N 400 N N N 401 S C N 402 N C N 403 N O N 404 S C N 405 N C N 406 N C N 407 N C N 408 N O N 409 N H N 410 N H N 411 N H N 412 N H N 413 N H N 414 N H N 415 N H N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N H N 422 N N N 423 S C N 424 N C N 425 N O N 426 N C N 427 N C N 428 N C N 429 N C N 430 N O 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 H N 438 N H N 439 N H N 440 N H N 441 N H N 442 N H N 443 N H N 444 N N N 445 S C N 446 N C N 447 N O N 448 N C N 449 N C N 450 N C N 451 N C N 452 N N N 453 N O N 454 N H N 455 N H N 456 N H N 457 N H N 458 N H N 459 N H N 460 N H 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 N N 470 S C N 471 N C N 472 N O N 473 N C N 474 N C N 475 N S N 476 N C N 477 N O 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 H N 485 N H N 486 N H N 487 N H N 488 N H N 489 N MG N 490 N N N 491 S C N 492 N C N 493 N O N 494 N C Y 495 N C Y 496 N C Y 497 N C Y 498 N C Y 499 N C Y 500 N C N 501 N O N 502 N H N 503 N H N 504 N H N 505 N H N 506 N H N 507 N H N 508 N H N 509 N H N 510 N H N 511 N H N 512 N H N 513 N N N 514 S C N 515 N C N 516 N O N 517 N C N 518 N C N 519 N C N 520 N O 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 H N 528 N H N 529 N H N 530 N N N 531 S C N 532 N C N 533 N O N 534 N C N 535 N O N 536 N O 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 R C N 549 N O N 550 N C N 551 N O 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 H N 559 N H N 560 N H N 561 N N N 562 S C N 563 N C N 564 N O N 565 N C Y 566 N C Y 567 N C Y 568 N C Y 569 N N Y 570 N C Y 571 N C Y 572 N C Y 573 N C Y 574 N C N 575 N O N 576 N H N 577 N H N 578 N H N 579 N H N 580 N H N 581 N H N 582 N H N 583 N H N 584 N H N 585 N H N 586 N H N 587 N H N 588 N N N 589 S C N 590 N C N 591 N O N 592 N C Y 593 N C Y 594 N C Y 595 N C Y 596 N C Y 597 N C Y 598 N C N 599 N O N 600 N O N 601 N H N 602 N H N 603 N H N 604 N H N 605 N H N 606 N H N 607 N H N 608 N H N 609 N H N 610 N H N 611 N H N 612 N O N 613 N P N 614 N O N 615 N O N 616 N O N 617 N C N 618 R C N 619 N O N 620 S C N 621 N O N 622 R C N 623 N O N 624 R C N 625 N N N 626 N C N 627 N O N 628 N N N 629 N C N 630 N O N 631 N C N 632 N C N 633 N H N 634 N H N 635 N H N 636 N H N 637 N H N 638 N H N 639 N H N 640 N H N 641 N H N 642 N H N 643 N H N 644 N H N 645 N H N 646 N N N 647 S C N 648 N C N 649 N O N 650 N C N 651 N C N 652 N C N 653 N O N 654 N H N 655 N H N 656 N H N 657 N H N 658 N H N 659 N H N 660 N H N 661 N H N 662 N H N 663 N H N 664 N H N 1 N sing N 2 N sing N 3 N doub N 4 N sing N 5 N sing N 6 N sing N 7 N sing 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 sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing Y 25 N sing Y 26 N sing Y 27 N doub N 28 N sing Y 29 N sing Y 30 N sing Y 31 N doub N 32 N sing Y 33 N doub N 34 N sing N 35 N sing Y 36 N sing Y 37 N doub N 38 N sing Y 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 sing N 46 N doub 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 sing N 58 N doub 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 sing N 72 N doub 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 sing N 84 N doub N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N doub 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 doub N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N doub N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N doub N 112 N sing N 113 N sing N 114 N sing 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 sing 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 doub N 136 N sing N 137 N doub N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N doub N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing 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 Y 168 N sing Y 169 N sing Y 170 N doub N 171 N sing Y 172 N sing Y 173 N sing Y 174 N doub N 175 N sing Y 176 N doub N 177 N sing N 178 N sing Y 179 N sing Y 180 N doub N 181 N sing Y 182 N sing N 183 N sing N 184 N sing N 185 N doub N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing 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 doub N 209 N sing N 210 N doub N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N doub 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 sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing Y 241 N sing Y 242 N sing Y 243 N doub N 244 N sing Y 245 N sing N 246 N sing Y 247 N doub N 248 N doub N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N doub N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N doub N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing 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 sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N doub 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 doub N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N doub 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 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 sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing Y 318 N sing Y 319 N sing Y 320 N doub N 321 N sing Y 322 N sing N 323 N sing Y 324 N doub N 325 N doub N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N doub N 331 N sing N 332 N sing N 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 doub N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N doub 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 doub 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 sing N 367 N doub 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 doub 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 doub N 387 N sing N 388 N sing N 389 N sing N 390 N sing Y 391 N sing Y 392 N doub Y 393 N doub N 394 N sing Y 395 N sing N 396 N sing Y 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 doub 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 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 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 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 doub 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 sing 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 doub 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 sing N 489 N sing N 490 N sing N 491 N sing N 492 N sing N 493 N sing N 494 N doub N 495 N sing N 496 N sing N 497 N sing N 498 N sing Y 499 N doub Y 500 N sing Y 501 N sing N 502 N sing Y 503 N doub N 504 N sing Y 505 N doub N 506 N sing Y 507 N sing N 508 N sing N 509 N sing N 510 N sing N 511 N sing N 512 N sing N 513 N sing N 514 N sing N 515 N sing N 516 N sing N 517 N doub N 518 N sing N 519 N sing N 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 sing N 531 N sing N 532 N sing N 533 N sing N 534 N doub 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 sing N 561 N sing N 562 N sing N 563 N doub N 564 N sing N 565 N sing N 566 N sing N 567 N sing Y 568 N doub Y 569 N sing Y 570 N sing N 571 N sing Y 572 N doub Y 573 N sing Y 574 N sing N 575 N sing Y 576 N sing Y 577 N doub N 578 N sing Y 579 N doub N 580 N sing Y 581 N sing N 582 N sing N 583 N sing N 584 N sing N 585 N sing N 586 N sing N 587 N sing N 588 N sing N 589 N sing N 590 N sing N 591 N doub N 592 N sing N 593 N sing N 594 N sing N 595 N sing Y 596 N doub Y 597 N sing Y 598 N sing N 599 N sing Y 600 N doub N 601 N sing Y 602 N doub N 603 N sing Y 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 doub N 612 N sing N 613 N sing N 614 N sing N 615 N sing N 616 N sing N 617 N sing N 618 N sing N 619 N sing N 620 N sing N 621 N sing N 622 N sing N 623 N sing N 624 N sing N 625 N sing N 626 N sing N 627 N sing N 628 N sing N 629 N sing N 630 N sing N 631 N sing N 632 N sing N 633 N sing N 634 N sing N 635 N doub N 636 N sing N 637 N sing N 638 N sing N 639 N doub N 640 N sing N 641 N doub N 642 N sing N 643 N sing N 644 N sing N 645 N sing N 646 N sing N 647 N sing N 648 N sing N 649 N sing N 650 N doub N 651 N sing N 652 N sing N 653 N sing N 654 N sing N 655 N sing N 656 N sing N 657 N sing N 658 N sing N 659 N sing N 660 N sing N 661 N sing UK Embo J. EMJODG 0897 0261-4189 25 1924 1933 10.1038/sj.emboj.7601076 16601679 Stepwise analyses of metal ions in RNase H catalysis from substrate destabilization to product release. 2006 10.2210/pdb2g8u/pdb pdb_00002g8u 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 95 1 IMAGE PLATE 2005-06-06 RIGAKU RAXIS IV SINGLE WAVELENGTH M x-ray 1 1.0 ROTATING ANODE RIGAKU 1875.189 5'-R(*UP*CP*GP*AP*CP*A)-3' 1 syn polymer 1824.228 5'-D(*AP*TP*GP*TP*CP*G)-3' 1 syn polymer 16329.478 Ribonuclease H 3.1.26.4 Bh-RNase HC D132N 1 man polymer 24.305 MAGNESIUM ION 2 syn non-polymer 18.015 water 20 nat water RNase H no no UCGACA UCGACA B polyribonucleotide no no (DA)(DT)(DG)(DT)(DC)(DG) ATGTCG C polydeoxyribonucleotide no no GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQ TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQ TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Bacillus Escherichia sample rnhA 86665 Bacillus halodurans 562 Escherichia coli BL21 pLysS pET15b plasmid 1 2.33 47.25 VAPOR DIFFUSION, SITTING DROP 7.5 25% MPD, 0.2M NaCl, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 278K 278 MPD 1 NaCl 1 HEPES 1 H2O 1 MPD 2 NaCl 2 HEPES 2 5.270 1 19 B 2 C 6 -1.200 B_C2:DG6_C 1 -11.738 -0.027 -0.347 0.124 -2.967 1 19 B 3 C 5 4.513 B_G3:DC5_C 2 -11.085 0.711 0.160 -0.199 -8.759 1 20 B 4 C 4 3.885 B_A4:DT4_C 3 -14.629 0.596 0.089 -0.154 -3.816 1 19 B 5 C 3 0.029 B_C5:DG3_C 4 -11.138 -0.767 -0.052 -0.040 -12.764 1 20 B 6 C 2 2.047 B_A6:DT2_C 5 -7.496 0.542 -0.590 -0.100 3.243 40.669 B B 2 3 10.551 C C 6 5 3.439 7.296 0.620 -0.784 BB_C2G3:DC5DG6_CC 1 -0.653 0.944 40.031 -1.961 -0.966 3.100 32.414 B B 3 4 7.861 C C 5 4 3.315 4.365 0.031 -1.259 BB_G3A4:DT4DC5_CC 2 4.038 -7.273 31.879 -3.016 0.647 1.900 24.872 B B 4 5 31.960 C C 4 3 3.082 13.090 -0.666 -1.421 BB_A4C5:DG3DT4_CC 3 -0.303 0.740 21.193 -6.546 1.472 3.471 36.677 B B 5 6 8.585 C C 3 2 3.613 5.344 0.843 -1.431 BB_C5A6:DT2DG3_CC 4 7.891 -12.676 35.458 -3.081 -0.148 database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site chem_comp_atom chem_comp_bond pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Database references Derived calculations Data collection Refinement description 1 0 2006-04-25 1 1 2008-05-01 1 2 2011-07-13 1 3 2021-10-20 1 4 2023-08-30 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_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_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_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.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_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 2006-03-03 REL REL MG MAGNESIUM ION HOH water 1ZBI PDB ENTRY 1ZBI PDB experimental model MG2 1 4 MG MG 401 A MG2 2 4 MG MG 402 A HOH 6 5 HOH HOH 7 B HOH 10 5 HOH HOH 8 B HOH 12 5 HOH HOH 12 C HOH 15 5 HOH HOH 15 C HOH 1 5 HOH HOH 1 A HOH 2 5 HOH HOH 2 A HOH 3 5 HOH HOH 3 A HOH 4 5 HOH HOH 4 A HOH 5 5 HOH HOH 5 A HOH 7 5 HOH HOH 7 A HOH 8 5 HOH HOH 8 A HOH 9 5 HOH HOH 9 A HOH 11 5 HOH HOH 11 A HOH 13 5 HOH HOH 13 A HOH 14 5 HOH HOH 14 A HOH 16 5 HOH HOH 16 A HOH 17 5 HOH HOH 17 A HOH 18 5 HOH HOH 18 A HOH 19 5 HOH HOH 19 A HOH 20 5 HOH HOH 20 A URI 1 n 1 U 1 B CYT 2 n 2 C 2 B GUA 3 n 3 G 3 B ADE 4 n 4 A 4 B CYT 5 n 5 C 5 B ADE 6 n 6 A 6 B ADE 1 n 1 DA 1 C THY 2 n 2 DT 2 C GUA 3 n 3 DG 3 C THY 4 n 4 DT 4 C CYT 5 n 5 DC 5 C GUA 6 n 6 DG 6 C n 1 55 A n 2 56 A n 3 57 A n 4 58 A n 5 59 A n 6 60 A n 7 61 A GLU 62 n 8 GLU 62 A ILE 63 n 9 ILE 63 A ILE 64 n 10 ILE 64 A TRP 65 n 11 TRP 65 A GLU 66 n 12 GLU 66 A SER 67 n 13 SER 67 A LEU 68 n 14 LEU 68 A SER 69 n 15 SER 69 A VAL 70 n 16 VAL 70 A ASP 71 n 17 ASP 71 A VAL 72 n 18 VAL 72 A GLY 73 n 19 GLY 73 A SER 74 n 20 SER 74 A GLN 75 n 21 GLN 75 A GLY 76 n 22 GLY 76 A ASN 77 n 23 ASN 77 A PRO 78 n 24 PRO 78 A GLY 79 n 25 GLY 79 A ILE 80 n 26 ILE 80 A VAL 81 n 27 VAL 81 A GLU 82 n 28 GLU 82 A TYR 83 n 29 TYR 83 A LYS 84 n 30 LYS 84 A GLY 85 n 31 GLY 85 A VAL 86 n 32 VAL 86 A ASP 87 n 33 ASP 87 A THR 88 n 34 THR 88 A LYS 89 n 35 LYS 89 A THR 90 n 36 THR 90 A GLY 91 n 37 GLY 91 A GLU 92 n 38 GLU 92 A VAL 93 n 39 VAL 93 A LEU 94 n 40 LEU 94 A PHE 95 n 41 PHE 95 A GLU 96 n 42 GLU 96 A ARG 97 n 43 ARG 97 A GLU 98 n 44 GLU 98 A PRO 99 n 45 PRO 99 A ILE 100 n 46 ILE 100 A PRO 101 n 47 PRO 101 A ILE 102 n 48 ILE 102 A GLY 103 n 49 GLY 103 A THR 104 n 50 THR 104 A ASN 105 n 51 ASN 105 A ASN 106 n 52 ASN 106 A MET 107 n 53 MET 107 A GLY 108 n 54 GLY 108 A GLU 109 n 55 GLU 109 A PHE 110 n 56 PHE 110 A LEU 111 n 57 LEU 111 A ALA 112 n 58 ALA 112 A ILE 113 n 59 ILE 113 A VAL 114 n 60 VAL 114 A HIS 115 n 61 HIS 115 A GLY 116 n 62 GLY 116 A LEU 117 n 63 LEU 117 A ARG 118 n 64 ARG 118 A TYR 119 n 65 TYR 119 A LEU 120 n 66 LEU 120 A LYS 121 n 67 LYS 121 A GLU 122 n 68 GLU 122 A ARG 123 n 69 ARG 123 A ASN 124 n 70 ASN 124 A SER 125 n 71 SER 125 A ARG 126 n 72 ARG 126 A LYS 127 n 73 LYS 127 A PRO 128 n 74 PRO 128 A ILE 129 n 75 ILE 129 A TYR 130 n 76 TYR 130 A SER 131 n 77 SER 131 A ASN 132 n 78 ASN 132 A SER 133 n 79 SER 133 A GLN 134 n 80 GLN 134 A THR 135 n 81 THR 135 A ALA 136 n 82 ALA 136 A ILE 137 n 83 ILE 137 A LYS 138 n 84 LYS 138 A TRP 139 n 85 TRP 139 A VAL 140 n 86 VAL 140 A LYS 141 n 87 LYS 141 A ASP 142 n 88 ASP 142 A LYS 143 n 89 LYS 143 A LYS 144 n 90 LYS 144 A ALA 145 n 91 ALA 145 A LYS 146 n 92 LYS 146 A SER 147 n 93 SER 147 A THR 148 n 94 THR 148 A LEU 149 n 95 LEU 149 A VAL 150 n 96 VAL 150 A ARG 151 n 97 ARG 151 A ASN 152 n 98 ASN 152 A GLU 153 n 99 GLU 153 A GLU 154 n 100 GLU 154 A THR 155 n 101 THR 155 A ALA 156 n 102 ALA 156 A LEU 157 n 103 LEU 157 A ILE 158 n 104 ILE 158 A TRP 159 n 105 TRP 159 A LYS 160 n 106 LYS 160 A LEU 161 n 107 LEU 161 A VAL 162 n 108 VAL 162 A ASP 163 n 109 ASP 163 A GLU 164 n 110 GLU 164 A ALA 165 n 111 ALA 165 A GLU 166 n 112 GLU 166 A GLU 167 n 113 GLU 167 A TRP 168 n 114 TRP 168 A LEU 169 n 115 LEU 169 A ASN 170 n 116 ASN 170 A THR 171 n 117 THR 171 A HIS 172 n 118 HIS 172 A THR 173 n 119 THR 173 A TYR 174 n 120 TYR 174 A GLU 175 n 121 GLU 175 A THR 176 n 122 THR 176 A PRO 177 n 123 PRO 177 A ILE 178 n 124 ILE 178 A LEU 179 n 125 LEU 179 A LYS 180 n 126 LYS 180 A TRP 181 n 127 TRP 181 A GLN 182 n 128 GLN 182 A THR 183 n 129 THR 183 A ASP 184 n 130 ASP 184 A LYS 185 n 131 LYS 185 A TRP 186 n 132 TRP 186 A GLY 187 n 133 GLY 187 A GLU 188 n 134 GLU 188 A ILE 189 n 135 ILE 189 A LYS 190 n 136 LYS 190 A ALA 191 n 137 ALA 191 A ASP 192 n 138 ASP 192 A TYR 193 n 139 TYR 193 A n 140 194 A n 141 195 A n 142 196 A author_defined_assembly 3 trimeric B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 A HOH 4 H O HOH 1_555 155.8 B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 A ASP 71 C OD1 ASP 17 1_555 103.7 A HOH 4 H O HOH 1_555 A MG 401 D MG MG 1_555 A ASP 71 C OD1 ASP 17 1_555 78.7 B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE1 GLU 55 1_555 134.3 A HOH 4 H O HOH 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE1 GLU 55 1_555 68.4 A ASP 71 C OD1 ASP 17 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE1 GLU 55 1_555 95.0 B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE2 GLU 55 1_555 88.3 A HOH 4 H O HOH 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE2 GLU 55 1_555 112.0 A ASP 71 C OD1 ASP 17 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE2 GLU 55 1_555 119.1 A GLU 109 C OE1 GLU 55 1_555 A MG 401 D MG MG 1_555 A GLU 109 C OE2 GLU 55 1_555 46.6 B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 A ASN 132 C OD1 ASN 78 1_555 97.1 A HOH 4 H O HOH 1_555 A MG 401 D MG MG 1_555 A ASN 132 C OD1 ASN 78 1_555 61.7 A ASP 71 C OD1 ASP 17 1_555 A MG 401 D MG MG 1_555 A ASN 132 C OD1 ASN 78 1_555 116.9 A GLU 109 C OE1 GLU 55 1_555 A MG 401 D MG MG 1_555 A ASN 132 C OD1 ASN 78 1_555 111.0 A GLU 109 C OE2 GLU 55 1_555 A MG 401 D MG MG 1_555 A ASN 132 C OD1 ASN 78 1_555 120.5 A HOH 1 H O HOH 1_555 A MG 402 E MG MG 1_555 A ASP 71 C OD2 ASP 17 1_555 112.3 A HOH 1 H O HOH 1_555 A MG 402 E MG MG 1_555 A ASP 192 C OD2 ASP 138 1_555 68.5 A ASP 71 C OD2 ASP 17 1_555 A MG 402 E MG MG 1_555 A ASP 192 C OD2 ASP 138 1_555 90.8 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 O PHE 95 C O PHE 41 A N GLY 85 C N GLY 31 A N VAL 81 C N VAL 27 A O ILE 100 C O ILE 46 A O PHE 95 C O PHE 41 A N GLY 85 C N GLY 31 A O GLU 82 C O GLU 28 A N GLY 73 C N GLY 19 A N LEU 68 C N LEU 14 A O TYR 130 C O TYR 76 A N ILE 129 C N ILE 75 A O LEU 179 C O LEU 125 1 A GLY 55 C GLY 1 1 Y 1 A SER 56 C SER 2 1 Y 1 A HIS 57 C HIS 3 1 Y 1 A MET 58 C MET 4 1 Y 1 A ALA 59 C ALA 5 1 Y 1 A LYS 60 C LYS 6 1 Y 1 A GLU 61 C GLU 7 1 Y 1 A GLY 194 C GLY 140 1 Y 1 A ARG 195 C ARG 141 1 Y 1 A LYS 196 C LYS 142 1 Y 1 A A O O HOH HOH 18 19 2.08 1 C DA 1 0.064 SIDE CHAIN 1 C DT 4 0.079 SIDE CHAIN 1 A THR 88 -49.62 -19.70 1 A LYS 89 -108.37 -61.95 1 A PRO 99 -33.71 113.18 1 A PRO 101 -51.73 -70.36 1 A LYS 143 43.23 25.34 1 A LYS 146 -96.39 48.98 1 A GLU 153 -43.05 -16.21 1 A THR 155 -97.31 47.03 1 A TYR 174 175.54 142.77 1 A THR 176 -39.87 115.80 0.288 0.223 2.7 30 512 5252 4718 RANDOM 1 2.4 MOLECULAR REPLACEMENT PDB ENTRY 1ZBI Engh & Huber 2.7 30 20 1343 2 245 1076 1.3 0.007 2.7 30 2G8U 5252 4718 2.4 1 89.8 2.7 2.82 data collection HKL-2000 data scaling SCALEPACK refinement CNS data reduction HKL-2000 phasing CNS B. halodurans RNase H catalytic domain D132N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site) 1 N N 2 N N 3 N N 4 N N 4 N N 5 N N 5 N N 5 N N A THR 104 C THR 50 HELX_P A GLU 122 C GLU 68 1 1 19 A SER 133 C SER 79 HELX_P A ASP 142 C ASP 88 1 2 10 A ALA 156 C ALA 102 HELX_P A ASN 170 C ASN 116 1 3 15 A GLN 182 C GLN 128 HELX_P A GLY 187 C GLY 133 1 4 6 metalc 2.971 B A 6 A O3' A 6 1_555 A MG 401 D MG MG 1_555 metalc 2.381 A HOH 1 H O HOH 1_555 A MG 402 E MG MG 1_555 metalc 2.876 A HOH 4 H O HOH 1_555 A MG 401 D MG MG 1_555 metalc 2.428 A ASP 71 C OD1 ASP 17 1_555 A MG 401 D MG MG 1_555 metalc 2.853 A ASP 71 C OD2 ASP 17 1_555 A MG 402 E MG MG 1_555 metalc 3.034 A GLU 109 C OE1 GLU 55 1_555 A MG 401 D MG MG 1_555 metalc 2.041 A GLU 109 C OE2 GLU 55 1_555 A MG 401 D MG MG 1_555 metalc 2.345 A ASN 132 C OD1 ASN 78 1_555 A MG 401 D MG MG 1_555 metalc 2.352 A ASP 192 C OD2 ASP 138 1_555 A MG 402 E MG MG 1_555 hydrog WATSON-CRICK B C 2 A N3 C 2 1_555 C DG 6 B N1 DG 6 1_555 hydrog WATSON-CRICK B C 2 A N4 C 2 1_555 C DG 6 B O6 DG 6 1_555 hydrog WATSON-CRICK B C 2 A O2 C 2 1_555 C DG 6 B N2 DG 6 1_555 hydrog WATSON-CRICK B G 3 A N1 G 3 1_555 C DC 5 B N3 DC 5 1_555 hydrog WATSON-CRICK B G 3 A N2 G 3 1_555 C DC 5 B O2 DC 5 1_555 hydrog WATSON-CRICK B G 3 A O6 G 3 1_555 C DC 5 B N4 DC 5 1_555 hydrog WATSON-CRICK B A 4 A N1 A 4 1_555 C DT 4 B N3 DT 4 1_555 hydrog WATSON-CRICK B A 4 A N6 A 4 1_555 C DT 4 B O4 DT 4 1_555 hydrog WATSON-CRICK B C 5 A N3 C 5 1_555 C DG 3 B N1 DG 3 1_555 hydrog WATSON-CRICK B C 5 A N4 C 5 1_555 C DG 3 B O6 DG 3 1_555 hydrog WATSON-CRICK B C 5 A O2 C 5 1_555 C DG 3 B N2 DG 3 1_555 hydrog WATSON-CRICK B A 6 A N1 A 6 1_555 C DT 2 B N3 DT 2 1_555 hydrog WATSON-CRICK B A 6 A N6 A 6 1_555 C DT 2 B O4 DT 2 1_555 HYDROLASE/RNA/DNA RNase H, Ribonuclease H, RNA/DNA hybrid, HYDROLASE-RNA-DNA COMPLEX A ASN 77 C ASN 23 1 A PRO 78 C PRO 24 -0.11 RNH1_BACHD UNP 3 59 Q9KEI9 AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQTAIK WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK 2G8U PDB 1 2G8U 2G8U PDB 2 2G8U 59 196 2G8U 59 196 Q9KEI9 A 1 5 142 1 6 2G8U 1 6 2G8U B 2 1 6 1 6 2G8U 1 6 2G8U C 3 1 6 1 cloning artifact GLY 55 2G8U A Q9KEI9 UNP 1 1 cloning artifact SER 56 2G8U A Q9KEI9 UNP 2 1 cloning artifact HIS 57 2G8U A Q9KEI9 UNP 3 1 cloning artifact MET 58 2G8U A Q9KEI9 UNP 4 1 ASP engineered mutation ASN 132 2G8U A Q9KEI9 UNP 132 78 3 5 anti-parallel anti-parallel anti-parallel anti-parallel parallel parallel A VAL 93 C VAL 39 A GLU 96 C GLU 42 A GLY 79 C GLY 25 A ASP 87 C ASP 33 A ILE 100 C ILE 46 A GLY 103 C GLY 49 A VAL 93 C VAL 39 A GLU 96 C GLU 42 A GLY 79 C GLY 25 A ASP 87 C ASP 33 A LEU 68 C LEU 14 A GLN 75 C GLN 21 A ILE 129 C ILE 75 A SER 131 C SER 77 A ILE 178 C ILE 124 A LYS 180 C LYS 126 BINDING SITE FOR RESIDUE MG A 401 A MG 401 Software 5 BINDING SITE FOR RESIDUE MG A 402 A MG 402 Software 3 A HOH 4 H HOH 5 1_555 A ASP 71 C ASP 17 5 1_555 A GLU 109 C GLU 55 5 1_555 A ASN 132 C ASN 78 5 1_555 B A 6 A A 6 5 1_555 A HOH 1 H HOH 3 1_555 A ASP 71 C ASP 17 3 1_555 A ASP 192 C ASP 138 3 1_555 5 C 1 2 1