0.012168 0.000000 0.001350 0.000000 0.026495 0.000000 0.000000 0.000000 0.016065 0.00000 0.00000 0.00000 Kovalevsky, A. Gerlits, O. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 96.33 90.00 82.184 37.743 62.629 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 O3 P -3 78.972 PHOSPHITE ION non-polymer 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 P N 514 N O N 515 N O N 516 N O N 517 N N N 518 S C N 519 N C N 520 N O N 521 N C N 522 N C N 523 N C N 524 N O N 525 N H N 526 N H N 527 N H N 528 N H N 529 N H N 530 N H N 531 N H N 532 N H N 533 N H N 534 N N N 535 S C N 536 N C N 537 N O N 538 N C N 539 N O N 540 N O N 541 N H N 542 N H N 543 N H N 544 N H N 545 N H N 546 N H N 547 N H N 548 N N N 549 S C N 550 N C N 551 N O N 552 R C N 553 N O N 554 N C N 555 N O N 556 N H N 557 N H N 558 N H N 559 N H N 560 N H N 561 N H N 562 N H N 563 N H N 564 N H N 565 N N N 566 S C N 567 N C N 568 N O N 569 N C Y 570 N C Y 571 N C Y 572 N C Y 573 N N Y 574 N C Y 575 N C Y 576 N C Y 577 N C Y 578 N C N 579 N O 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 H N 589 N H N 590 N H N 591 N H N 592 N N N 593 S C N 594 N C N 595 N O N 596 N C Y 597 N C Y 598 N C Y 599 N C Y 600 N C Y 601 N C Y 602 N C N 603 N O N 604 N O 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 H N 613 N H N 614 N H N 615 N H N 616 N O N 617 N P N 618 N O N 619 N O N 620 N O N 621 N C N 622 R C N 623 N O N 624 S C N 625 N O N 626 R C N 627 N O N 628 R C N 629 N N N 630 N C N 631 N O N 632 N N N 633 N C N 634 N O N 635 N C N 636 N C 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 H N 647 N H N 648 N H N 649 N H N 650 N N N 651 S C N 652 N C N 653 N O N 654 N C N 655 N C N 656 N C N 657 N O 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 665 N H N 666 N H N 667 N H N 668 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 doub N 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 doub 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 sing N 535 N sing N 536 N sing N 537 N doub 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 sing N 548 N sing N 549 N sing N 550 N doub 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 sing N 564 N sing N 565 N sing N 566 N doub N 567 N sing N 568 N sing N 569 N sing N 570 N sing Y 571 N doub Y 572 N sing Y 573 N sing N 574 N sing Y 575 N doub Y 576 N sing Y 577 N sing N 578 N sing Y 579 N sing Y 580 N doub N 581 N sing Y 582 N doub N 583 N sing Y 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 sing N 592 N sing N 593 N sing N 594 N doub N 595 N sing N 596 N sing N 597 N sing N 598 N sing Y 599 N doub Y 600 N sing Y 601 N sing N 602 N sing Y 603 N doub N 604 N sing Y 605 N doub N 606 N sing Y 607 N sing N 608 N sing N 609 N sing N 610 N sing N 611 N sing N 612 N sing N 613 N sing N 614 N doub 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 sing N 636 N sing N 637 N sing N 638 N doub N 639 N sing N 640 N sing N 641 N sing N 642 N doub N 643 N sing N 644 N doub N 645 N sing N 646 N sing N 647 N sing N 648 N sing N 649 N sing N 650 N sing N 651 N sing N 652 N sing N 653 N doub 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 N 662 N sing N 663 N sing N 664 N sing UK Curr Res Struct Biol 2665-928X 11 100188 100188 10.1016/j.crstbi.2026.100188 41853683 Structural insights into RNase H catalytic mechanism from room-temperature X-ray and neutron crystallography of apo- and RNA/DNA hybrid-bound enzyme. 2026 To Be Published 0353 Generalized X-ray and neutron crystallographic analysis: more accurate and complete structures for biological macromolecules To Be Published 0353 Structural insights into RNase H catalytic mechanism from room-temperature X-ray and neutron crystallography of apo- and RNA/DNA hybrid-bound enzyme 10.2210/pdb9yk1/pdb pdb_00009yk1 293 1 N PIXEL 2024-07-08 DECTRIS EIGER R 4M SINGLE WAVELENGTH M x-ray 1 1.54 1.0 1.54 ROTATING ANODE RIGAKU MICROMAX-007 HF 16003.082 Ribonuclease H 3.1.26.4 1 man polymer 1875.189 RNA (5'-R(*UP*CP*GP*AP*CP*A)-3') 1 syn polymer 1824.228 DNA (5'-D(*AP*TP*GP*TP*CP*G)-3') 1 syn polymer 24.305 MAGNESIUM ION 1 syn non-polymer 78.972 PHOSPHITE ION 1 syn non-polymer 18.015 water 50 nat water RNase H no no SAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQTAI KWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK SAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQTAI KWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK A polypeptide(L) no no UCGACA UCGACA B polyribonucleotide no no (DA)(DT)(DG)(DT)(DC)(DG) ATGTCG 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 sample 1 139 rnhA, BH0863 86665 Halalkalibacterium halodurans 562 Escherichia coli Biological sequence 1 2.41 49.02 VAPOR DIFFUSION, SITTING DROP 7.5 0.1 M HEPES pH 7.5, 0.2 M NaCl, and 12-16% PEG 10,000 293 -0.943 1 19 B 2 C 6 -2.902 B_C2:DG6_C 1 -7.083 0.028 0.056 -0.087 -18.693 1 19 B 3 C 5 2.127 B_G3:DC5_C 2 -13.892 -0.248 -0.330 -0.031 -11.247 1 20 B 4 C 4 3.768 B_A4:DT4_C 3 -15.705 -0.030 -0.122 -0.099 -3.797 1 19 B 5 C 3 -0.925 B_C5:DG3_C 4 -11.399 0.276 0.223 -0.221 -12.854 1 20 B 6 C 2 0.978 B_A6:DT2_C 5 -11.046 0.040 -0.125 -0.074 3.558 36.251 B B 2 3 11.627 C C 6 5 3.828 7.170 0.330 -1.096 BB_C2G3:DC5DG6_CC 1 4.702 -7.624 35.256 -2.913 0.225 3.066 34.230 B B 3 4 7.639 C C 5 4 3.247 4.484 0.455 -1.174 BB_G3A4:DT4DC5_CC 2 -0.430 0.733 33.942 -2.680 -0.839 2.909 30.760 B B 4 5 12.004 C C 4 3 3.180 6.321 -0.728 -1.196 BB_A4C5:DG3DT4_CC 3 -1.661 3.155 30.074 -3.419 1.066 3.051 27.628 B B 5 6 16.028 C C 3 2 3.521 7.452 0.971 -1.767 BB_C5A6:DT2DG3_CC 4 7.990 -17.184 25.414 -5.601 0.004 citation repository Initial release Database references 1 0 2026-03-18 1 1 2026-04-01 _citation.page_last _citation.pdbx_database_id_PubMed _citation.title Not funded kovalevskyay@ornl.gov 0000-0003-4459-9142 Andrey Kovalevsky principal investigator/group leader 9YJL contains the wild-type protein in apo-form 9YJM contains the same mutant protein in apo-form N RCSB Y RCSB 2025-10-06 REL REL MG MG SUBJECT OF INVESTIGATION MG MAGNESIUM ION PO3 PHOSPHITE ION HOH water 86665 Halalkalibacterium halodurans sample 1 6 86665 Halalkalibacterium halodurans sample 1 6 Y N 2G8U PDB experimental model MG 401 4 MG MG 401 A DT 7 5 PO3 PO3 101 C HOH 5 6 HOH HOH 501 A HOH 50 6 HOH HOH 502 A HOH 40 6 HOH HOH 503 A HOH 2 6 HOH HOH 504 A HOH 49 6 HOH HOH 505 A HOH 46 6 HOH HOH 506 A HOH 8 6 HOH HOH 507 A HOH 6 6 HOH HOH 508 A HOH 25 6 HOH HOH 509 A HOH 36 6 HOH HOH 510 A HOH 17 6 HOH HOH 511 A HOH 26 6 HOH HOH 512 A HOH 7 6 HOH HOH 513 A HOH 1 6 HOH HOH 514 A HOH 21 6 HOH HOH 515 A HOH 20 6 HOH HOH 516 A HOH 10 6 HOH HOH 517 A HOH 37 6 HOH HOH 518 A HOH 45 6 HOH HOH 519 A HOH 3 6 HOH HOH 520 A HOH 43 6 HOH HOH 521 A HOH 19 6 HOH HOH 522 A HOH 32 6 HOH HOH 523 A HOH 24 6 HOH HOH 524 A HOH 9 6 HOH HOH 525 A HOH 23 6 HOH HOH 526 A HOH 16 6 HOH HOH 527 A HOH 38 6 HOH HOH 528 A HOH 27 6 HOH HOH 529 A HOH 33 6 HOH HOH 530 A HOH 18 6 HOH HOH 531 A HOH 51 6 HOH HOH 532 A HOH 34 6 HOH HOH 533 A HOH 22 6 HOH HOH 534 A HOH 35 6 HOH HOH 101 B HOH 11 6 HOH HOH 102 B HOH 14 6 HOH HOH 103 B HOH 4 6 HOH HOH 104 B HOH 44 6 HOH HOH 105 B HOH 31 6 HOH HOH 106 B HOH 30 6 HOH HOH 107 B HOH 47 6 HOH HOH 108 B HOH 39 6 HOH HOH 109 B HOH 48 6 HOH HOH 201 C HOH 41 6 HOH HOH 202 C HOH 15 6 HOH HOH 203 C HOH 12 6 HOH HOH 204 C HOH 28 6 HOH HOH 205 C HOH 29 6 HOH HOH 206 C HOH 13 6 HOH HOH 207 C n 1 58 A n 2 59 A n 3 60 A GLU 61 n 4 GLU 61 A GLU 62 n 5 GLU 62 A ILE 63 n 6 ILE 63 A ILE 64 n 7 ILE 64 A TRP 65 n 8 TRP 65 A GLU 66 n 9 GLU 66 A SER 67 n 10 SER 67 A LEU 68 n 11 LEU 68 A SER 69 n 12 SER 69 A VAL 70 n 13 VAL 70 A ASP 71 n 14 ASP 71 A VAL 72 n 15 VAL 72 A GLY 73 n 16 GLY 73 A SER 74 n 17 SER 74 A GLN 75 n 18 GLN 75 A GLY 76 n 19 GLY 76 A ASN 77 n 20 ASN 77 A PRO 78 n 21 PRO 78 A GLY 79 n 22 GLY 79 A ILE 80 n 23 ILE 80 A VAL 81 n 24 VAL 81 A GLU 82 n 25 GLU 82 A TYR 83 n 26 TYR 83 A LYS 84 n 27 LYS 84 A GLY 85 n 28 GLY 85 A VAL 86 n 29 VAL 86 A ASP 87 n 30 ASP 87 A THR 88 n 31 THR 88 A LYS 89 n 32 LYS 89 A THR 90 n 33 THR 90 A GLY 91 n 34 GLY 91 A GLU 92 n 35 GLU 92 A VAL 93 n 36 VAL 93 A LEU 94 n 37 LEU 94 A PHE 95 n 38 PHE 95 A GLU 96 n 39 GLU 96 A ARG 97 n 40 ARG 97 A GLU 98 n 41 GLU 98 A PRO 99 n 42 PRO 99 A ILE 100 n 43 ILE 100 A PRO 101 n 44 PRO 101 A ILE 102 n 45 ILE 102 A GLY 103 n 46 GLY 103 A THR 104 n 47 THR 104 A ASN 105 n 48 ASN 105 A ASN 106 n 49 ASN 106 A MET 107 n 50 MET 107 A GLY 108 n 51 GLY 108 A GLU 109 n 52 GLU 109 A PHE 110 n 53 PHE 110 A LEU 111 n 54 LEU 111 A ALA 112 n 55 ALA 112 A ILE 113 n 56 ILE 113 A VAL 114 n 57 VAL 114 A HIS 115 n 58 HIS 115 A GLY 116 n 59 GLY 116 A LEU 117 n 60 LEU 117 A ARG 118 n 61 ARG 118 A TYR 119 n 62 TYR 119 A LEU 120 n 63 LEU 120 A LYS 121 n 64 LYS 121 A GLU 122 n 65 GLU 122 A ARG 123 n 66 ARG 123 A ASN 124 n 67 ASN 124 A SER 125 n 68 SER 125 A ARG 126 n 69 ARG 126 A LYS 127 n 70 LYS 127 A PRO 128 n 71 PRO 128 A ILE 129 n 72 ILE 129 A TYR 130 n 73 TYR 130 A SER 131 n 74 SER 131 A ASN 132 n 75 ASN 132 A SER 133 n 76 SER 133 A GLN 134 n 77 GLN 134 A THR 135 n 78 THR 135 A ALA 136 n 79 ALA 136 A ILE 137 n 80 ILE 137 A LYS 138 n 81 LYS 138 A TRP 139 n 82 TRP 139 A VAL 140 n 83 VAL 140 A LYS 141 n 84 LYS 141 A ASP 142 n 85 ASP 142 A LYS 143 n 86 LYS 143 A LYS 144 n 87 LYS 144 A ALA 145 n 88 ALA 145 A LYS 146 n 89 LYS 146 A SER 147 n 90 SER 147 A THR 148 n 91 THR 148 A LEU 149 n 92 LEU 149 A VAL 150 n 93 VAL 150 A ARG 151 n 94 ARG 151 A ASN 152 n 95 ASN 152 A GLU 153 n 96 GLU 153 A GLU 154 n 97 GLU 154 A THR 155 n 98 THR 155 A ALA 156 n 99 ALA 156 A LEU 157 n 100 LEU 157 A ILE 158 n 101 ILE 158 A TRP 159 n 102 TRP 159 A LYS 160 n 103 LYS 160 A LEU 161 n 104 LEU 161 A VAL 162 n 105 VAL 162 A ASP 163 n 106 ASP 163 A GLU 164 n 107 GLU 164 A ALA 165 n 108 ALA 165 A GLU 166 n 109 GLU 166 A GLU 167 n 110 GLU 167 A TRP 168 n 111 TRP 168 A LEU 169 n 112 LEU 169 A ASN 170 n 113 ASN 170 A THR 171 n 114 THR 171 A HIS 172 n 115 HIS 172 A THR 173 n 116 THR 173 A TYR 174 n 117 TYR 174 A GLU 175 n 118 GLU 175 A THR 176 n 119 THR 176 A PRO 177 n 120 PRO 177 A ILE 178 n 121 ILE 178 A LEU 179 n 122 LEU 179 A LYS 180 n 123 LYS 180 A TRP 181 n 124 TRP 181 A GLN 182 n 125 GLN 182 A THR 183 n 126 THR 183 A ASP 184 n 127 ASP 184 A LYS 185 n 128 LYS 185 A TRP 186 n 129 TRP 186 A GLY 187 n 130 GLY 187 A GLU 188 n 131 GLU 188 A ILE 189 n 132 ILE 189 A LYS 190 n 133 LYS 190 A ALA 191 n 134 ALA 191 A ASP 192 n 135 ASP 192 A TYR 193 n 136 TYR 193 A GLY 194 n 137 GLY 194 A n 138 195 A n 139 196 A U 1 n 1 U 1 B C 2 n 2 C 2 B G 3 n 3 G 3 B A 4 n 4 A 4 B C 5 n 5 C 5 B A 6 n 6 A 6 B DA 1 n 1 DA 1 C DT 2 n 2 DT 2 C DG 3 n 3 DG 3 C DT 4 n 4 DT 4 C DC 5 n 5 DC 5 C DG 6 n 6 DG 6 C author_and_software_defined_assembly PISA 3 trimeric none 2060 -17 8770 A ASP 71 A OD1 ASP 14 1_555 A MG 401 D MG MG 1_555 A GLU 109 A OE1 GLU 52 1_555 99.5 A ASP 71 A OD1 ASP 14 1_555 A MG 401 D MG MG 1_555 A GLU 109 A OE2 GLU 52 1_555 107.6 A GLU 109 A OE1 GLU 52 1_555 A MG 401 D MG MG 1_555 A GLU 109 A OE2 GLU 52 1_555 49.5 A ASP 71 A OD1 ASP 14 1_555 A MG 401 D MG MG 1_555 A ASN 132 A OD1 ASN 75 1_555 141.7 A GLU 109 A OE1 GLU 52 1_555 A MG 401 D MG MG 1_555 A ASN 132 A OD1 ASN 75 1_555 107.0 A GLU 109 A OE2 GLU 52 1_555 A MG 401 D MG MG 1_555 A ASN 132 A OD1 ASN 75 1_555 110.6 A ASP 71 A OD1 ASP 14 1_555 A MG 401 D MG MG 1_555 A HOH 514 F O HOH 1_555 93.5 A GLU 109 A OE1 GLU 52 1_555 A MG 401 D MG MG 1_555 A HOH 514 F O HOH 1_555 63.9 A GLU 109 A OE2 GLU 52 1_555 A MG 401 D MG MG 1_555 A HOH 514 F O HOH 1_555 112.0 A ASN 132 A OD1 ASN 75 1_555 A MG 401 D MG MG 1_555 A HOH 514 F O HOH 1_555 74.8 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 LEU 94 A O LEU 37 A N GLY 85 A N GLY 28 A N VAL 81 A N VAL 24 A O ILE 100 A O ILE 43 A O LEU 94 A O LEU 37 A N GLY 85 A N GLY 28 A O VAL 86 A O VAL 29 A N SER 69 A N SER 12 A N LEU 68 A N LEU 11 A O TYR 130 A O TYR 73 A N ILE 129 A N ILE 72 A O LEU 179 A O LEU 122 1 A SER 58 A SER 1 1 Y 1 A ALA 59 A ALA 2 1 Y 1 A LYS 60 A LYS 3 1 Y 1 A ARG 195 A ARG 138 1 Y 1 A LYS 196 A LYS 139 1 Y 1 A LYS 146 -91.68 57.37 0.2163 0.1850 0.1866 1.80 23.53 860 17340 4.96 96.74 0.21 random 1 FREE R-VALUE 1.34 MOLECULAR REPLACEMENT 25.86 0.90 1.11 ML FLAT BULK SOLVENT MODEL 1.80 23.53 50 1389 1 249 1089 0.016 1399 1.533 1950 16.723 271 0.093 219 0.011 204 0.3371 0.2975 1.91 148 2617 94.00 0.2685 0.2303 2.06 120 2726 95.00 0.2242 0.2021 2.27 136 2730 96.00 0.2390 0.1923 2.60 153 2734 97.00 0.2415 0.2029 3.27 163 2782 98.00 0.1756 0.1542 23.53 140 2891 99.00 1.80 62.2 9YK1 17367 0.949 0.088 0.052 1 13.6 4.1 96.8 0.678 1.80 1.87 1.04 1693 0.638 0.385 1 3.9 94.1 refinement PHENIX (1.19.2_4158: ???) data extraction PDB_EXTRACT data reduction CrysalisPro data scaling Aimless phasing PHASER N Room-temperature X-ray structure of D132N Bacillus halodurans RNase H1 in complex with RNA/DNA duplex 1 N N 2 N N 3 N N 4 N N 5 N N 6 N N 6 N N 6 N N A THR 104 A THR 47 HELX_P A ARG 123 A ARG 66 1 AA1 20 A SER 133 A SER 76 HELX_P A ASP 142 A ASP 85 1 AA2 10 A THR 155 A THR 98 HELX_P A HIS 172 A HIS 115 1 AA3 18 A GLN 182 A GLN 125 HELX_P A GLY 187 A GLY 130 1 AA4 6 covale 1.612 one C DG 6 C O3' DG 6 1_555 C PO3 101 E P PO3 1_555 metalc 2.197 A ASP 71 A OD1 ASP 14 1_555 A MG 401 D MG MG 1_555 metalc 2.850 A GLU 109 A OE1 GLU 52 1_555 A MG 401 D MG MG 1_555 metalc 2.259 A GLU 109 A OE2 GLU 52 1_555 A MG 401 D MG MG 1_555 metalc 2.237 A ASN 132 A OD1 ASN 75 1_555 A MG 401 D MG MG 1_555 metalc 2.842 A MG 401 D MG MG 1_555 A HOH 514 F O HOH 1_555 hydrog WATSON-CRICK B C 2 B N3 C 2 1_555 C DG 6 C N1 DG 6 1_555 hydrog WATSON-CRICK B C 2 B N4 C 2 1_555 C DG 6 C O6 DG 6 1_555 hydrog WATSON-CRICK B C 2 B O2 C 2 1_555 C DG 6 C N2 DG 6 1_555 hydrog WATSON-CRICK B G 3 B N1 G 3 1_555 C DC 5 C N3 DC 5 1_555 hydrog WATSON-CRICK B G 3 B N2 G 3 1_555 C DC 5 C O2 DC 5 1_555 hydrog WATSON-CRICK B G 3 B O6 G 3 1_555 C DC 5 C N4 DC 5 1_555 hydrog WATSON-CRICK B A 4 B N1 A 4 1_555 C DT 4 C N3 DT 4 1_555 hydrog WATSON-CRICK B A 4 B N6 A 4 1_555 C DT 4 C O4 DT 4 1_555 hydrog WATSON-CRICK B C 5 B N3 C 5 1_555 C DG 3 C N1 DG 3 1_555 hydrog WATSON-CRICK B C 5 B N4 C 5 1_555 C DG 3 C O6 DG 3 1_555 hydrog WATSON-CRICK B C 5 B O2 C 5 1_555 C DG 3 C N2 DG 3 1_555 hydrog WATSON-CRICK B A 6 B N1 A 6 1_555 C DT 2 C N3 DT 2 1_555 hydrog WATSON-CRICK B A 6 B N6 A 6 1_555 C DT 2 C O4 DT 2 1_555 HYDROLASE/RNA/DNA rna hydrolase, nucleic acid binding, RNA/DNA hybrid, HYDROLASE, HYDROLASE-RNA-DNA complex A ASN 77 A ASN 20 1 A PRO 78 A PRO 21 1.92 RNH1_HALH5 UNP 1 59 Q9KEI9 AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQTAIK WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK 9YK1 PDB 2 1 9YK1 9YK1 PDB 3 1 9YK1 59 196 9YK1 59 196 Q9KEI9 A 1 2 139 1 6 9YK1 1 6 9YK1 B 2 1 6 1 6 9YK1 1 6 9YK1 C 3 1 6 1 expression tag SER 58 9YK1 A Q9KEI9 UNP 1 1 ASP engineered mutation ASN 132 9YK1 A Q9KEI9 UNP 132 75 3 5 anti-parallel anti-parallel anti-parallel anti-parallel parallel parallel A VAL 93 A VAL 36 A GLU 96 A GLU 39 A GLY 79 A GLY 22 A ASP 87 A ASP 30 A ILE 100 A ILE 43 A GLY 103 A GLY 46 A VAL 93 A VAL 36 A GLU 96 A GLU 39 A GLY 79 A GLY 22 A ASP 87 A ASP 30 A LEU 68 A LEU 11 A GLN 75 A GLN 18 A ILE 129 A ILE 72 A SER 131 A SER 74 A ILE 178 A ILE 121 A LYS 180 A LYS 123 5 C 1 2 1