0.012230 0.000000 0.001387 0.000000 0.026717 0.000000 0.000000 0.000000 0.016288 0.000000 0.000000 0.000000 Samara, N.L. Yang, W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.000 96.470 90.000 81.764 37.429 61.787 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 C2 H6 O2 62.068 1,2-ETHANEDIOL ETHYLENE GLYCOL non-polymer 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 C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 I -1 126.904 IODIDE ION non-polymer K 1 39.098 POTASSIUM ION non-polymer 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 C N 290 N O N 291 N C N 292 N O N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N O N 300 N P N 301 N O N 302 N O N 303 N O N 304 N C N 305 R C N 306 N O N 307 S C N 308 N O N 309 R C N 310 N O N 311 R C Y 312 N N Y 313 N C Y 314 N N Y 315 N C N 316 N C N 317 N O N 318 N N N 319 N C N 320 N N N 321 N N Y 322 N C N 323 N H N 324 N H N 325 N H N 326 N H N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N H N 334 N H N 335 N H N 336 N H N 337 N N N 338 S C N 339 N C N 340 N O N 341 N C N 342 N C N 343 N C N 344 N O N 345 N N N 346 N O N 347 N H N 348 N H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N N N 358 S C N 359 N C N 360 N O N 361 N C N 362 N C N 363 N C N 364 N O N 365 N O N 366 N O N 367 N H N 368 N H N 369 N H N 370 N H 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 N C N 378 N C N 379 N O N 380 N O N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N C N 387 N O N 388 N C N 389 N O N 390 N C N 391 N O 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 N N 401 S C N 402 N C N 403 N O N 404 N C Y 405 N C Y 406 N N Y 407 N C Y 408 N C Y 409 N N N 410 N O 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 O N 422 N H N 423 N H N 424 N N N 425 S C N 426 N C N 427 N O N 428 S C N 429 N C N 430 N C N 431 N C N 432 N O 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 H N 445 N H N 446 N I N 447 N K N 448 N N N 449 S C N 450 N C N 451 N O N 452 N C N 453 N C N 454 N C N 455 N C N 456 N O 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 H N 470 N N N 471 S C N 472 N C N 473 N O N 474 N C N 475 N C N 476 N C N 477 N C N 478 N N N 479 N O 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 H N 490 N H N 491 N H N 492 N H N 493 N H N 494 N H N 495 N N N 496 S C N 497 N C N 498 N O N 499 N C N 500 N C N 501 N S N 502 N C N 503 N O 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 H N 514 N H N 515 N MG N 516 N N N 517 S C N 518 N C N 519 N O N 520 N C Y 521 N C Y 522 N C Y 523 N C Y 524 N C Y 525 N C Y 526 N C N 527 N O 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 H N 535 N H N 536 N H N 537 N H N 538 N H N 539 N N N 540 S C N 541 N C N 542 N O N 543 N C N 544 N C N 545 N C N 546 N O N 547 N H N 548 N H N 549 N H N 550 N H N 551 N H N 552 N H N 553 N H N 554 N H N 555 N H N 556 N N N 557 S C N 558 N C N 559 N O N 560 N C N 561 N O N 562 N O N 563 N H N 564 N H N 565 N H N 566 N H N 567 N H N 568 N H N 569 N H N 570 N N N 571 S C N 572 N C N 573 N O N 574 R C N 575 N O N 576 N C N 577 N O 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 N N 588 S C N 589 N C N 590 N O N 591 N C Y 592 N C Y 593 N C Y 594 N C Y 595 N N Y 596 N C Y 597 N C Y 598 N C Y 599 N C Y 600 N C N 601 N O 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 H N 613 N H N 614 N N N 615 S C N 616 N C N 617 N O N 618 N C Y 619 N C Y 620 N C Y 621 N C Y 622 N C Y 623 N C Y 624 N C N 625 N O N 626 N O N 627 N H N 628 N H N 629 N H N 630 N H N 631 N H N 632 N H N 633 N H N 634 N H N 635 N H N 636 N H N 637 N H N 638 N O N 639 N P N 640 N O N 641 N O N 642 N O N 643 N C N 644 R C N 645 N O N 646 S C N 647 N O N 648 R C N 649 N O N 650 R C N 651 N N N 652 N C N 653 N O N 654 N N N 655 N C N 656 N O N 657 N C N 658 N C 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 669 N H N 670 N H N 671 N H N 672 N N N 673 S C N 674 N C N 675 N O N 676 N C N 677 N C N 678 N C N 679 N O N 680 N H N 681 N H N 682 N H N 683 N H N 684 N H N 685 N H N 686 N H N 687 N H N 688 N H N 689 N H N 690 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 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 sing 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 sing N 324 N sing N 325 N sing N 326 N sing Y 327 N sing Y 328 N sing Y 329 N doub N 330 N sing Y 331 N sing N 332 N sing Y 333 N doub N 334 N doub N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N doub N 340 N sing 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 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 sing N 357 N doub N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N sing N 366 N sing N 367 N sing N 368 N doub 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 doub 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 doub 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 doub N 409 N sing N 410 N sing N 411 N sing N 412 N sing Y 413 N sing Y 414 N doub Y 415 N doub N 416 N sing Y 417 N sing N 418 N sing Y 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 sing N 431 N doub 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 sing N 452 N doub 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 doub 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 sing N 489 N sing N 490 N sing N 491 N sing N 492 N sing N 493 N sing N 494 N sing N 495 N sing N 496 N sing N 497 N doub 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 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 doub N 517 N sing N 518 N sing N 519 N sing N 520 N sing Y 521 N doub Y 522 N sing Y 523 N sing N 524 N sing Y 525 N doub N 526 N sing Y 527 N doub N 528 N sing Y 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 sing N 538 N sing N 539 N doub 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 sing N 551 N sing N 552 N sing N 553 N sing N 554 N sing N 555 N sing N 556 N doub 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 sing N 567 N sing N 568 N sing N 569 N doub 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 sing N 577 N sing N 578 N sing N 579 N sing N 580 N sing N 581 N sing N 582 N sing N 583 N sing N 584 N sing N 585 N doub N 586 N sing N 587 N sing N 588 N sing N 589 N sing Y 590 N doub Y 591 N sing Y 592 N sing N 593 N sing Y 594 N doub Y 595 N sing Y 596 N sing N 597 N sing Y 598 N sing Y 599 N doub N 600 N sing Y 601 N doub N 602 N sing Y 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 N 612 N sing N 613 N doub N 614 N sing N 615 N sing N 616 N sing N 617 N sing Y 618 N doub Y 619 N sing Y 620 N sing N 621 N sing Y 622 N doub N 623 N sing Y 624 N doub N 625 N sing Y 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 doub N 634 N sing N 635 N sing N 636 N sing N 637 N sing N 638 N sing N 639 N sing N 640 N sing N 641 N sing 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 sing 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 doub N 658 N sing N 659 N sing N 660 N sing N 661 N doub N 662 N sing N 663 N doub N 664 N sing N 665 N sing N 666 N sing N 667 N sing N 668 N sing N 669 N sing N 670 N sing N 671 N sing N 672 N doub N 673 N sing N 674 N sing N 675 N sing N 676 N sing N 677 N sing N 678 N sing N 679 N sing N 680 N sing N 681 N sing N 682 N sing N 683 N sing US Nat. Struct. Mol. Biol. 1545-9985 25 715 721 10.1038/s41594-018-0099-4 30076410 Cation trafficking propels RNA hydrolysis. 2018 0000-0002-3591-2195 10.2210/pdb6dp1/pdb pdb_00006dp1 100 1 CCD 2017-06-23 MARMOSAIC 225 mm CCD SINGLE WAVELENGTH M x-ray 1 1 1.0 22-BM APS 1 SYNCHROTRON APS BEAMLINE 22-BM 16330.462 Ribonuclease H 3.1.26.4 Catalytic Domain residues 59-196 1 man polymer 1224.802 5'-R(*AP*CP*AP*U)-3' portion of uncleaved RNA 5'-R(*AP*CP*AP*UP*CP*G)-3' 1 syn polymer 605.430 5'-R(P*CP*G)-3' portion of uncleaved RNA 5'-R(*AP*CP*AP*UP*CP*G)-3' 1 syn polymer 1824.228 DNA (5'-D(*CP*GP*AP*TP*GP*T)-3') 1 syn polymer 24.305 MAGNESIUM ION 2 syn non-polymer 39.098 POTASSIUM ION 2 syn non-polymer 126.904 IODIDE ION 4 syn non-polymer 92.094 GLYCEROL 4 syn non-polymer 62.068 1,2-ETHANEDIOL 2 syn non-polymer 18.015 water 199 nat water RNase H no no GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQ TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQ TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK A polypeptide(L) no no ACAU ACAU B polyribonucleotide no no CG CG b polyribonucleotide no no (DC)(DG)(DA)(DT)(DG)(DT) CGATGT 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 ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125 sample 1 142 rnhA, BH0863 272558 Bacillus halodurans 469008 Escherichia coli BL21(DE3) BL21(DE3) plasmid Biological sequence pET15b 1 2.44 49.49 0.000 VAPOR DIFFUSION, HANGING DROP 14% PEG3350, 20% glycerol, 200 mM KI, and 25 mM CaCl2 294 -3.858 1 20 B 1 C 6 -0.126 B_A1:DT6_C 1 -6.800 0.121 0.000 -0.168 1.715 1 19 B 2 C 5 2.416 B_C2:DG5_C 2 -12.578 0.067 0.122 -0.178 -6.652 1 20 B 3 C 4 1.660 B_A3:DT4_C 3 -11.469 0.077 -0.245 -0.142 -7.307 1 20 B 4 C 3 0.732 B_U4:DA3_C 4 -8.080 -0.029 -0.024 -0.135 -9.975 1 19 b 5 C 2 1.705 b_C5:DG2_C 5 -6.311 0.036 0.213 -0.179 -3.249 1 19 b 6 C 1 -1.227 b_G6:DC1_C 6 -8.081 -0.278 0.107 -0.177 3.084 35.556 B B 1 2 5.902 C C 6 5 3.240 3.597 0.687 -1.078 BB_A1C2:DG5DT6_CC 1 -1.695 2.782 35.340 -2.274 -1.365 2.458 29.106 B B 2 3 25.098 C C 5 4 3.445 12.203 -0.380 -1.470 BB_C2A3:DT4DG5_CC 2 3.669 -7.545 26.223 -5.468 1.521 3.254 25.298 B B 3 4 5.447 C C 4 3 3.388 2.378 0.963 -2.166 BB_A3U4:DA3DT4_CC 3 2.629 -6.022 25.052 -5.651 -1.420 3.111 34.500 B b 4 5 6.134 C C 3 2 3.299 3.630 0.198 -1.733 Bb_U4C5:DG2DA3_CC 4 1.574 -2.660 34.279 -3.475 -0.093 2.515 23.262 b b 5 6 18.330 C C 2 1 3.140 7.216 1.031 -2.010 bb_C5G6:DC1DG2_CC 5 4.868 -12.365 21.594 -7.213 -1.054 citation citation_author chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_conn_type repository Initial release Data collection Database references Data collection Database references Derived calculations Refinement description 1 0 2018-08-15 1 1 2018-08-22 1 2 2023-10-11 _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _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.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_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.conn_type_id _struct_conn.id _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_value_order _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn_type.id N RCSB Y RCSB 2018-06-09 REL REL The structures represent different time points in the divalent and monovalent metal-dependent hydrolysis reaction of RNA by Ribonuclease H1, which is bound to an RNA/DNA hybrid in the crystal. Cleavage of RNA by B. Halodurans Ribonuclease H1 undefined 1 A O HOH 464 6.40 1 A O HOH 465 6.61 1 A O HOH 466 6.63 1 A O HOH 467 7.37 K K SUBJECT OF INVESTIGATION MG MG SUBJECT OF INVESTIGATION MG MAGNESIUM ION K POTASSIUM ION IOD IODIDE ION GOL GLYCEROL EDO 1,2-ETHANEDIOL HOH water 32630 synthetic construct sample 1 4 32630 synthetic construct sample 1 2 32630 synthetic construct sample 1 6 1ZBL PDB experimental model MG 201 5 MG MG 201 A MG 202 5 MG MG 202 A K 211 6 K K 203 A IOD 1 7 IOD IOD 204 A IOD 2 7 IOD IOD 205 A IOD 3 7 IOD IOD 206 A IOD 4 7 IOD IOD 207 A GOL 1 8 GOL GOL 208 A GOL 2 8 GOL GOL 209 A GOL 3 8 GOL GOL 210 A EDO 5 9 EDO EDO 211 A GOL 7 8 GOL GOL 212 A EDO 1 9 EDO EDO 213 A K 213 6 K K 101 C HOH 5 10 HOH HOH 301 A HOH 208 10 HOH HOH 302 A HOH 193 10 HOH HOH 303 A HOH 163 10 HOH HOH 304 A HOH 16 10 HOH HOH 305 A HOH 83 10 HOH HOH 306 A HOH 202 10 HOH HOH 307 A HOH 154 10 HOH HOH 308 A HOH 49 10 HOH HOH 309 A HOH 138 10 HOH HOH 310 A HOH 187 10 HOH HOH 311 A HOH 174 10 HOH HOH 312 A HOH 60 10 HOH HOH 313 A HOH 62 10 HOH HOH 314 A HOH 207 10 HOH HOH 315 A HOH 17 10 HOH HOH 316 A HOH 117 10 HOH HOH 317 A HOH 88 10 HOH HOH 318 A HOH 212 10 HOH HOH 319 A HOH 167 10 HOH HOH 320 A HOH 130 10 HOH HOH 321 A HOH 36 10 HOH HOH 322 A HOH 70 10 HOH HOH 323 A HOH 194 10 HOH HOH 324 A HOH 215 10 HOH HOH 325 A HOH 161 10 HOH HOH 326 A HOH 53 10 HOH HOH 327 A HOH 143 10 HOH HOH 328 A HOH 97 10 HOH HOH 329 A HOH 20 10 HOH HOH 330 A HOH 157 10 HOH HOH 331 A HOH 156 10 HOH HOH 332 A HOH 32 10 HOH HOH 333 A HOH 192 10 HOH HOH 334 A HOH 198 10 HOH HOH 335 A HOH 46 10 HOH HOH 336 A HOH 21 10 HOH HOH 337 A HOH 132 10 HOH HOH 338 A HOH 84 10 HOH HOH 339 A HOH 14 10 HOH HOH 340 A HOH 126 10 HOH HOH 341 A HOH 118 10 HOH HOH 342 A HOH 141 10 HOH HOH 343 A HOH 56 10 HOH HOH 344 A HOH 105 10 HOH HOH 345 A HOH 85 10 HOH HOH 346 A HOH 57 10 HOH HOH 347 A HOH 2 10 HOH HOH 348 A HOH 34 10 HOH HOH 349 A HOH 22 10 HOH HOH 350 A HOH 120 10 HOH HOH 351 A HOH 203 10 HOH HOH 352 A HOH 9 10 HOH HOH 353 A HOH 213 10 HOH HOH 354 A HOH 81 10 HOH HOH 355 A HOH 145 10 HOH HOH 356 A HOH 172 10 HOH HOH 357 A HOH 122 10 HOH HOH 358 A HOH 160 10 HOH HOH 359 A HOH 153 10 HOH HOH 360 A HOH 45 10 HOH HOH 361 A HOH 35 10 HOH HOH 362 A HOH 42 10 HOH HOH 363 A HOH 28 10 HOH HOH 364 A HOH 64 10 HOH HOH 365 A HOH 6 10 HOH HOH 366 A HOH 166 10 HOH HOH 367 A HOH 169 10 HOH HOH 368 A HOH 135 10 HOH HOH 369 A HOH 47 10 HOH HOH 370 A HOH 129 10 HOH HOH 371 A HOH 71 10 HOH HOH 372 A HOH 8 10 HOH HOH 373 A HOH 168 10 HOH HOH 374 A HOH 86 10 HOH HOH 375 A HOH 76 10 HOH HOH 376 A HOH 186 10 HOH HOH 377 A HOH 119 10 HOH HOH 378 A HOH 54 10 HOH HOH 379 A HOH 44 10 HOH HOH 380 A HOH 69 10 HOH HOH 381 A HOH 77 10 HOH HOH 382 A HOH 211 10 HOH HOH 383 A HOH 50 10 HOH HOH 384 A HOH 26 10 HOH HOH 385 A HOH 188 10 HOH HOH 386 A HOH 201 10 HOH HOH 387 A HOH 4 10 HOH HOH 388 A HOH 1 10 HOH HOH 389 A HOH 195 10 HOH HOH 390 A HOH 206 10 HOH HOH 391 A HOH 162 10 HOH HOH 392 A HOH 106 10 HOH HOH 393 A HOH 93 10 HOH HOH 394 A HOH 182 10 HOH HOH 395 A HOH 199 10 HOH HOH 396 A HOH 155 10 HOH HOH 397 A HOH 180 10 HOH HOH 398 A HOH 128 10 HOH HOH 399 A HOH 95 10 HOH HOH 400 A HOH 158 10 HOH HOH 401 A HOH 91 10 HOH HOH 402 A HOH 108 10 HOH HOH 403 A HOH 104 10 HOH HOH 404 A HOH 23 10 HOH HOH 405 A HOH 59 10 HOH HOH 406 A HOH 51 10 HOH HOH 407 A HOH 18 10 HOH HOH 408 A HOH 139 10 HOH HOH 409 A HOH 214 10 HOH HOH 410 A HOH 204 10 HOH HOH 411 A HOH 55 10 HOH HOH 412 A HOH 124 10 HOH HOH 413 A HOH 112 10 HOH HOH 414 A HOH 52 10 HOH HOH 415 A HOH 181 10 HOH HOH 416 A HOH 205 10 HOH HOH 417 A HOH 72 10 HOH HOH 418 A HOH 171 10 HOH HOH 419 A HOH 146 10 HOH HOH 420 A HOH 127 10 HOH HOH 421 A HOH 13 10 HOH HOH 422 A HOH 200 10 HOH HOH 423 A HOH 151 10 HOH HOH 424 A HOH 159 10 HOH HOH 425 A HOH 66 10 HOH HOH 426 A HOH 7 10 HOH HOH 427 A HOH 131 10 HOH HOH 428 A HOH 189 10 HOH HOH 429 A HOH 185 10 HOH HOH 430 A HOH 89 10 HOH HOH 431 A HOH 197 10 HOH HOH 432 A HOH 176 10 HOH HOH 433 A HOH 148 10 HOH HOH 434 A HOH 165 10 HOH HOH 435 A HOH 90 10 HOH HOH 436 A HOH 68 10 HOH HOH 437 A HOH 134 10 HOH HOH 438 A HOH 136 10 HOH HOH 439 A HOH 73 10 HOH HOH 440 A HOH 101 10 HOH HOH 441 A HOH 218 10 HOH HOH 442 A HOH 102 10 HOH HOH 443 A HOH 12 10 HOH HOH 444 A HOH 75 10 HOH HOH 445 A HOH 98 10 HOH HOH 446 A HOH 125 10 HOH HOH 447 A HOH 190 10 HOH HOH 448 A HOH 27 10 HOH HOH 449 A HOH 39 10 HOH HOH 450 A HOH 123 10 HOH HOH 451 A HOH 29 10 HOH HOH 452 A HOH 74 10 HOH HOH 453 A HOH 40 10 HOH HOH 454 A HOH 100 10 HOH HOH 455 A HOH 31 10 HOH HOH 456 A HOH 144 10 HOH HOH 457 A HOH 179 10 HOH HOH 458 A HOH 82 10 HOH HOH 459 A HOH 61 10 HOH HOH 460 A HOH 209 10 HOH HOH 461 A HOH 217 10 HOH HOH 462 A HOH 216 10 HOH HOH 463 A HOH 99 10 HOH HOH 464 A HOH 210 10 HOH HOH 465 A HOH 140 10 HOH HOH 466 A HOH 43 10 HOH HOH 467 A HOH 109 10 HOH HOH 101 B HOH 15 10 HOH HOH 102 B HOH 147 10 HOH HOH 103 B HOH 79 10 HOH HOH 104 B HOH 133 10 HOH HOH 105 B HOH 67 10 HOH HOH 106 B HOH 150 10 HOH HOH 107 B HOH 80 10 HOH HOH 108 B HOH 38 10 HOH HOH 109 B HOH 111 10 HOH HOH 101 b HOH 149 10 HOH HOH 102 b HOH 96 10 HOH HOH 103 b HOH 115 10 HOH HOH 104 b HOH 184 10 HOH HOH 105 b HOH 183 10 HOH HOH 106 b HOH 11 10 HOH HOH 201 C HOH 110 10 HOH HOH 202 C HOH 113 10 HOH HOH 203 C HOH 10 10 HOH HOH 204 C HOH 30 10 HOH HOH 205 C HOH 19 10 HOH HOH 206 C HOH 58 10 HOH HOH 207 C HOH 107 10 HOH HOH 208 C HOH 196 10 HOH HOH 209 C HOH 191 10 HOH HOH 210 C HOH 33 10 HOH HOH 211 C HOH 114 10 HOH HOH 212 C HOH 142 10 HOH HOH 213 C HOH 78 10 HOH HOH 214 C HOH 65 10 HOH HOH 215 C HOH 116 10 HOH HOH 216 C HOH 94 10 HOH HOH 217 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 GLU 61 n 7 GLU 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 ASP 132 n 78 ASP 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 GLY 194 n 140 GLY 194 A ARG 195 n 141 ARG 195 A n 142 196 A A 1 n 1 A 1 B C 2 n 2 C 2 B A 3 n 3 A 3 B U 4 n 4 U 4 B C 5 n 1 C 5 b G 6 n 2 G 6 b DC 1 n 1 DC 1 C DG 2 n 2 DG 2 C DA 3 n 3 DA 3 C DT 4 n 4 DT 4 C DG 5 n 5 DG 5 C DT 6 n 6 DT 6 C 3.4362 -1.3736 1.5645 2.1099 -0.5103 3.7305 0.3915 0.2592 -0.3755 -0.1696 -0.1673 -0.0224 0.4056 0.1714 -0.1318 0.1818 0.0372 0.0215 0.1279 -0.0025 0.1492 refined 25.1866 -5.8515 16.9889 X-RAY DIFFRACTION 5.7312 -1.6390 -5.0203 2.3733 0.7649 4.7038 -0.0397 -0.4040 -1.1858 0.0036 0.1586 -0.3187 0.7304 0.3931 0.0647 0.2627 0.0564 0.0037 0.2133 0.0232 0.3728 refined 28.1766 -11.5416 23.8057 X-RAY DIFFRACTION 4.0838 -0.0889 2.7529 0.6718 0.3070 4.5648 0.0616 -0.2667 -0.0693 -0.0486 -0.0520 0.0278 0.0416 -0.2986 -0.0240 0.1222 0.0165 0.0284 0.0942 0.0079 0.1324 refined 22.0683 -0.9624 23.1876 X-RAY DIFFRACTION 4.7909 -4.8861 -0.0919 8.2429 0.6367 6.9021 0.1771 0.1122 0.5457 -0.0235 -0.1965 -0.5214 -1.0121 0.1747 -0.0564 0.3025 -0.0072 0.0409 0.1127 0.0368 0.2067 refined 24.0051 9.3864 16.5013 X-RAY DIFFRACTION 7.1335 0.5425 2.5710 3.5349 0.2528 3.3814 0.6484 -0.2039 0.3957 -0.1834 -0.7914 0.5068 -0.9995 -1.2020 0.1452 0.3033 0.4191 -0.0084 0.5267 -0.1375 0.2294 refined 8.7704 7.6060 16.0554 X-RAY DIFFRACTION 8.9949 1.1078 6.8684 2.0358 2.1745 8.0147 0.1987 -0.3545 0.0081 0.0052 -0.2896 0.1187 -0.3516 -0.8384 0.1377 0.2089 0.0950 0.0371 0.2745 -0.0312 0.1725 refined 12.4774 5.6692 24.7445 X-RAY DIFFRACTION 3.9231 -0.8444 -0.9981 2.9667 0.9217 5.6136 0.1205 0.3831 -0.0322 -0.2777 -0.0744 -0.1766 0.0800 0.2744 -0.0753 0.1485 0.0468 0.0139 0.1363 0.0425 0.1321 refined 29.1095 -0.3267 18.0787 X-RAY DIFFRACTION 4.7009 -0.4738 3.0175 5.9523 -0.6848 5.5399 0.0720 0.6045 -0.1213 -0.6322 -0.1812 -0.2205 0.1403 0.3005 0.1573 0.3328 0.0857 0.0377 0.2560 0.0014 0.1805 refined 23.8674 1.3035 4.4511 X-RAY DIFFRACTION 3.5936 -1.5946 -2.5792 4.0010 0.7609 6.8565 0.0815 0.3871 -0.1524 -0.8461 -0.3999 0.1753 -0.5074 -0.4290 0.3519 0.3772 0.1071 -0.0077 0.2113 -0.0008 0.1658 refined 16.4854 3.7523 3.1215 X-RAY DIFFRACTION X-RAY DIFFRACTION A 61 A 87 X-RAY DIFFRACTION 1 chain 'A' and (resid 61 through 87 ) A 88 A 96 X-RAY DIFFRACTION 2 chain 'A' and (resid 88 through 96 ) A 97 A 133 X-RAY DIFFRACTION 3 chain 'A' and (resid 97 through 133 ) A 134 A 142 X-RAY DIFFRACTION 4 chain 'A' and (resid 134 through 142 ) A 143 A 155 X-RAY DIFFRACTION 5 chain 'A' and (resid 143 through 155 ) A 156 A 169 X-RAY DIFFRACTION 6 chain 'A' and (resid 156 through 169 ) A 170 A 196 X-RAY DIFFRACTION 7 chain 'A' and (resid 170 through 196 ) B 1 B 4 X-RAY DIFFRACTION 8 (chain 'B' and (resid 1 through 4 )) OR (chain 'b' and (resid 5 through 6 )) C 1 C 6 X-RAY DIFFRACTION 9 chain 'C' and (resid 1 through 6 ) b 5 b 6 X-RAY DIFFRACTION 8 (chain 'B' and (resid 1 through 4 )) OR (chain 'b' and (resid 5 through 6 )) author_and_software_defined_assembly PISA 4 tetrameric none 5170 -39 8040 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 A ASP 192 A OD1 ASP 138 1_555 97.9 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 A HOH 318 S O HOH 1_555 172.7 A ASP 192 A OD1 ASP 138 1_555 A MG 201 E MG MG 1_555 A HOH 318 S O HOH 1_555 75.5 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 A HOH 322 S O HOH 1_555 91.2 A ASP 192 A OD1 ASP 138 1_555 A MG 201 E MG MG 1_555 A HOH 322 S O HOH 1_555 96.8 A HOH 318 S O HOH 1_555 A MG 201 E MG MG 1_555 A HOH 322 S O HOH 1_555 86.7 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 A HOH 365 S O HOH 1_555 87.4 A ASP 192 A OD1 ASP 138 1_555 A MG 201 E MG MG 1_555 A HOH 365 S O HOH 1_555 90.5 A HOH 318 S O HOH 1_555 A MG 201 E MG MG 1_555 A HOH 365 S O HOH 1_555 95.6 A HOH 322 S O HOH 1_555 A MG 201 E MG MG 1_555 A HOH 365 S O HOH 1_555 172.7 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 100.8 A ASP 192 A OD1 ASP 138 1_555 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 159.5 A HOH 318 S O HOH 1_555 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 86.2 A HOH 322 S O HOH 1_555 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 91.1 A HOH 365 S O HOH 1_555 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 82.1 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 A GLU 109 A OE1 GLU 55 1_555 100.7 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 A ASP 132 A OD1 ASP 78 1_555 136.2 A GLU 109 A OE1 GLU 55 1_555 A MG 202 F MG MG 1_555 A ASP 132 A OD1 ASP 78 1_555 97.6 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 A ASP 132 A OD2 ASP 78 1_555 111.0 A GLU 109 A OE1 GLU 55 1_555 A MG 202 F MG MG 1_555 A ASP 132 A OD2 ASP 78 1_555 144.6 A ASP 132 A OD1 ASP 78 1_555 A MG 202 F MG MG 1_555 A ASP 132 A OD2 ASP 78 1_555 48.3 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 B U 4 B O3' U 4 1_555 137.4 A GLU 109 A OE1 GLU 55 1_555 A MG 202 F MG MG 1_555 B U 4 B O3' U 4 1_555 82.8 A ASP 132 A OD1 ASP 78 1_555 A MG 202 F MG MG 1_555 B U 4 B O3' U 4 1_555 84.0 A ASP 132 A OD2 ASP 78 1_555 A MG 202 F MG MG 1_555 B U 4 B O3' U 4 1_555 84.2 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 83.7 A GLU 109 A OE1 GLU 55 1_555 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 109.7 A ASP 132 A OD1 ASP 78 1_555 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 126.2 A ASP 132 A OD2 ASP 78 1_555 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 89.5 B U 4 B O3' U 4 1_555 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 56.1 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 A ARG 195 A O ARG 141 1_555 139.7 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 A HOH 317 S O HOH 1_555 66.5 A ARG 195 A O ARG 141 1_555 A K 203 G K K 1_555 A HOH 317 S O HOH 1_555 73.7 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 A HOH 318 S O HOH 1_555 50.1 A ARG 195 A O ARG 141 1_555 A K 203 G K K 1_555 A HOH 318 S O HOH 1_555 105.8 A HOH 317 S O HOH 1_555 A K 203 G K K 1_555 A HOH 318 S O HOH 1_555 63.5 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 A HOH 322 S O HOH 1_555 57.4 A ARG 195 A O ARG 141 1_555 A K 203 G K K 1_555 A HOH 322 S O HOH 1_555 145.2 A HOH 317 S O HOH 1_555 A K 203 G K K 1_555 A HOH 322 S O HOH 1_555 116.5 A HOH 318 S O HOH 1_555 A K 203 G K K 1_555 A HOH 322 S O HOH 1_555 58.9 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 100.6 A ARG 195 A O ARG 141 1_555 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 94.2 A HOH 317 S O HOH 1_555 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 121.3 A HOH 318 S O HOH 1_555 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 65.7 A HOH 322 S O HOH 1_555 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 51.5 B HOH 109 T O HOH 1_555 C K 101 A R K K 1_555 C DT 4 D O4 DT 4 1_555 158.1 B HOH 109 T O HOH 1_555 C K 101 A R K K 1_555 C DG 5 D O6 DG 5 1_555 91.2 C DT 4 D O4 DT 4 1_555 C K 101 A R K K 1_555 C DG 5 D O6 DG 5 1_555 73.5 B HOH 109 T O HOH 1_555 C K 101 A R K K 1_555 C HOH 209 V O HOH 1_555 108.8 C DT 4 D O4 DT 4 1_555 C K 101 A R K K 1_555 C HOH 209 V O HOH 1_555 84.6 C DG 5 D O6 DG 5 1_555 C K 101 A R K K 1_555 C HOH 209 V O HOH 1_555 81.1 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 ILE 100 A O ILE 46 A N VAL 81 A N VAL 27 A O VAL 86 A O VAL 32 A N SER 69 A N SER 15 A N LEU 68 A N LEU 14 A O TYR 130 A O TYR 76 A N ILE 129 A N ILE 75 A O LEU 179 A O LEU 125 1 B O2' A 1 B O2' A 1 1 Y 1 b O2' G 6 C O2' G 2 1 Y 1 A GLY 55 A GLY 1 1 Y 1 A SER 56 A SER 2 1 Y 1 A HIS 57 A HIS 3 1 Y 1 A MET 58 A MET 4 1 Y 1 A ALA 59 A ALA 5 1 Y 1 A LYS 60 A LYS 6 1 Y 1 A LYS 196 A LYS 142 1 Y 1 A A O2 O GOL HOH 212 301 2.02 1 A A O1 O EDO HOH 213 302 2.07 1 A A OH O TYR HOH 174 303 2.11 B 1 A A OG1 O THR HOH 90 304 2.15 1 A A OE2 O GLU HOH 154 305 2.18 1 C C O3' C3' DG DG 2 2 -0.042 0.006 1.419 1.377 N 1 A A O O HOH HOH 428 428 1.81 1_555 2_656 1 A A O O HOH HOH 429 460 2.11 1_555 3_545 133.900 31.3492 12.040 Structures refined in Phenix and nucleic acid and protein residues built in Coot 0.1895 0.1534 0.1551 1.42 19.16 1717 34440 4.9900 96.6500 0.1500 1 THROUGHOUT 1.350 MOLECULAR REPLACEMENT 20.5800 0.9000 1.1100 1ZBL 1.42 19.16 199 1582 65.27 42.51 40 243 1100 147 0.007 1462 1.004 2022 0.071 220 0.006 212 23.387 575 0.2921 0.0000 0.3026 1.4575 117 2227 2344 12 79.0000 0.2745 0.0000 0.2608 1.5046 149 2645 2794 12 95.0000 0.2642 0.0000 0.2346 1.5583 123 2661 2784 12 95.0000 0.2812 0.0000 0.1980 1.6207 153 2697 2850 12 96.0000 0.2041 0.0000 0.1831 1.6944 150 2709 2859 12 97.0000 0.1826 0.0000 0.1700 1.7837 155 2773 2928 12 99.0000 0.2307 0.0000 0.1802 1.8953 149 2771 2920 12 99.0000 0.1798 0.0000 0.1569 2.0415 161 2816 2977 12 100.0000 0.2044 0.0000 0.1473 2.2467 141 2830 2971 12 100.0000 0.1786 0.0000 0.1487 2.5711 125 2839 2964 12 100.0000 0.1739 0.0000 0.1516 3.2368 154 2842 2996 12 100.0000 0.1709 0.0000 0.1275 19.1664 140 2913 3053 12 99.0000 19.660 1.420 19.160 6DP1 34456 1 6.500 34456 1.000 96.800 1.420 1.440 1219 1 1.000 69.200 7.760 19.160 221 1 1.000 92.600 data scaling Aimless 0.5.31 refinement PHENIX 1.10.1_2155 data extraction PDB_EXTRACT 3.24 data reduction HKL-2000 phasing PHENIX N Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA Hybrid: Reaction in 5 mM Mg2+ and 75 mM K+ for 40 s at 21 C 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N 6 N N 7 N N 7 N N 7 N N 7 N N 8 N N 8 N N 8 N N 9 N N 8 N N 9 N N 6 N N 10 N N 10 N N 10 N N 10 N N A THR 104 A THR 50 HELX_P A ARG 123 A ARG 69 1 AA1 20 A SER 133 A SER 79 HELX_P A LYS 143 A LYS 89 1 AA2 11 A THR 155 A THR 101 HELX_P A ASN 170 A ASN 116 1 AA3 16 A GLN 182 A GLN 128 HELX_P A GLY 187 A GLY 133 1 AA4 6 covale 1.591 both sing B U 4 B O3' U 4 1_555 b C 5 C P C 1 1_555 metalc 2.032 A ASP 71 A OD2 ASP 17 1_555 A MG 201 E MG MG 1_555 metalc 2.118 A ASP 71 A OD1 ASP 17 1_555 A MG 202 F MG MG 1_555 metalc 2.274 A GLU 109 A OE1 GLU 55 1_555 A MG 202 F MG MG 1_555 metalc 2.328 A ASP 132 A OD1 ASP 78 1_555 A MG 202 F MG MG 1_555 metalc 2.868 A ASP 132 A OD2 ASP 78 1_555 A MG 202 F MG MG 1_555 metalc 1.966 A ASP 192 A OD1 ASP 138 1_555 A MG 201 E MG MG 1_555 metalc 3.165 A ASP 192 A OD1 ASP 138 1_555 A K 203 G K K 1_555 metalc 3.076 A ARG 195 A O ARG 141 1_555 A K 203 G K K 1_555 metalc 2.197 A MG 201 E MG MG 1_555 A HOH 318 S O HOH 1_555 metalc 2.059 A MG 201 E MG MG 1_555 A HOH 322 S O HOH 1_555 metalc 2.094 A MG 201 E MG MG 1_555 A HOH 365 S O HOH 1_555 metalc 2.141 A MG 201 E MG MG 1_555 b C 5 C OP1 C 1 1_555 metalc 2.727 A MG 202 F MG MG 1_555 B U 4 B O3' U 4 1_555 metalc 2.505 A MG 202 F MG MG 1_555 b C 5 C OP1 C 1 1_555 metalc 2.844 A K 203 G K K 1_555 A HOH 317 S O HOH 1_555 metalc 2.820 A K 203 G K K 1_555 A HOH 318 S O HOH 1_555 metalc 3.107 A K 203 G K K 1_555 A HOH 322 S O HOH 1_555 metalc 3.101 A K 203 G K K 1_555 b G 6 C OP2 G 2 1_555 metalc 3.064 A B HOH 109 T O HOH 1_555 C K 101 R K K 1_555 metalc 3.278 A C DT 4 D O4 DT 4 1_555 C K 101 R K K 1_555 metalc 2.655 A C DG 5 D O6 DG 5 1_555 C K 101 R K K 1_555 metalc 3.298 A C K 101 R K K 1_555 C HOH 209 V O HOH 1_555 hydrog WATSON-CRICK B A 1 B N1 A 1 1_555 C DT 6 D N3 DT 6 1_555 hydrog WATSON-CRICK B A 1 B N6 A 1 1_555 C DT 6 D O4 DT 6 1_555 hydrog WATSON-CRICK B C 2 B N3 C 2 1_555 C DG 5 D N1 DG 5 1_555 hydrog WATSON-CRICK B C 2 B N4 C 2 1_555 C DG 5 D O6 DG 5 1_555 hydrog WATSON-CRICK B C 2 B O2 C 2 1_555 C DG 5 D N2 DG 5 1_555 hydrog WATSON-CRICK B A 3 B N1 A 3 1_555 C DT 4 D N3 DT 4 1_555 hydrog WATSON-CRICK B A 3 B N6 A 3 1_555 C DT 4 D O4 DT 4 1_555 hydrog WATSON-CRICK B U 4 B N3 U 4 1_555 C DA 3 D N1 DA 3 1_555 hydrog WATSON-CRICK B U 4 B O4 U 4 1_555 C DA 3 D N6 DA 3 1_555 hydrog WATSON-CRICK b C 5 C N3 C 1 1_555 C DG 2 D N1 DG 2 1_555 hydrog WATSON-CRICK b C 5 C N4 C 1 1_555 C DG 2 D O6 DG 2 1_555 hydrog WATSON-CRICK b C 5 C O2 C 1 1_555 C DG 2 D N2 DG 2 1_555 hydrog WATSON-CRICK b G 6 C N1 G 2 1_555 C DC 1 D N3 DC 1 1_555 hydrog WATSON-CRICK b G 6 C N2 G 2 1_555 C DC 1 D O2 DC 1 1_555 hydrog WATSON-CRICK b G 6 C O6 G 2 1_555 C DC 1 D N4 DC 1 1_555 HYDROLASE/DNA/RNA protein-RNA-DNA complex, RNA hydrolysis, in crystallo catalysis, metal dependent catalysis, HYDROLASE-DNA-RNA complex A ASN 77 A ASN 23 1 A PRO 78 A PRO 24 1.10 RNH1_BACHD UNP 1 59 Q9KEI9 AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQTAIK WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK 6DP1 PDB 2 1 6DP1 6DP1 PDB 3 1 6DP1 6DP1 PDB 4 1 6DP1 59 196 6DP1 59 196 Q9KEI9 A 1 5 142 1 4 6DP1 1 4 6DP1 B 2 1 4 5 6 6DP1 5 6 6DP1 b 3 1 2 1 6 6DP1 1 6 6DP1 C 4 1 6 1 expression tag GLY 55 6DP1 A Q9KEI9 UNP 1 1 expression tag SER 56 6DP1 A Q9KEI9 UNP 2 1 expression tag HIS 57 6DP1 A Q9KEI9 UNP 3 1 expression tag MET 58 6DP1 A Q9KEI9 UNP 4 5 anti-parallel anti-parallel parallel parallel A VAL 93 A VAL 39 A GLY 103 A GLY 49 A GLY 79 A GLY 25 A ASP 87 A ASP 33 A LEU 68 A LEU 14 A GLN 75 A GLN 21 A ILE 129 A ILE 75 A SER 131 A SER 77 A ILE 178 A ILE 124 A LYS 180 A LYS 126 binding site for residue MG A 201 A MG 201 Software 6 binding site for residue MG A 202 A MG 202 Software 5 binding site for residue K A 203 A K 203 Software 6 binding site for residue IOD A 204 A IOD 204 Software 1 binding site for residue IOD A 205 A IOD 205 Software 1 binding site for residue IOD A 206 A IOD 206 Software 3 binding site for residue IOD A 207 A IOD 207 Software 2 binding site for residue GOL A 208 A GOL 208 Software 6 binding site for residue GOL A 209 A GOL 209 Software 7 binding site for residue GOL A 210 A GOL 210 Software 5 binding site for residue EDO A 211 A EDO 211 Software 5 binding site for residue GOL A 212 A GOL 212 Software 6 binding site for residue EDO A 213 A EDO 213 Software 5 binding site for residue K C 101 C K 101 Software 4 A ASP 71 A ASP 17 6 1_555 A ASP 192 A ASP 138 6 1_555 A HOH 318 S HOH 6 1_555 A HOH 322 S HOH 6 1_555 A HOH 365 S HOH 6 1_555 b C 5 C C 1 6 1_555 A ASP 71 A ASP 17 5 1_555 A GLU 109 A GLU 55 5 1_555 A ASP 132 A ASP 78 5 1_555 B U 4 B U 4 5 1_555 b C 5 C C 1 5 1_555 A ASP 192 A ASP 138 6 1_555 A GLY 194 A GLY 140 6 1_555 A ARG 195 A ARG 141 6 1_555 A HOH 317 S HOH 6 1_555 A HOH 318 S HOH 6 1_555 b G 6 C G 2 6 1_555 A TYR 83 A TYR 29 1 1_555 A HOH 339 S HOH 1 1_555 A ILE 64 A ILE 10 3 1_555 A HOH 459 S HOH 3 1_555 A HOH 464 S HOH 3 1_555 A HIS 172 A HIS 118 2 1_555 A HOH 447 S HOH 2 1_555 A GLY 76 A GLY 22 6 1_555 A ASN 77 A ASN 23 6 1_555 A PRO 78 A PRO 24 6 1_555 A HOH 312 S HOH 6 1_555 C DG 2 D DG 2 6 1_555 C DA 3 D DA 3 6 1_555 A HIS 115 A HIS 61 7 1_555 A ARG 118 A ARG 64 7 1_555 A TYR 119 A TYR 65 7 1_555 A ARG 123 A ARG 69 7 1_555 A GLU 167 A GLU 113 7 4_546 A ASN 170 A ASN 116 7 4_546 A HOH 309 S HOH 7 1_555 A GLU 66 A GLU 12 5 2_656 A SER 125 A SER 71 5 1_555 A LYS 127 A LYS 73 5 1_555 A HOH 308 S HOH 5 1_555 A HOH 418 S HOH 5 1_555 A LYS 143 A LYS 89 5 1_555 A THR 173 A THR 119 5 1_555 A TYR 174 A TYR 120 5 1_555 A HOH 366 S HOH 5 1_555 A HOH 421 S HOH 5 1_555 A THR 148 A THR 94 6 1_555 A HOH 301 S HOH 6 1_555 A HOH 367 S HOH 6 1_555 C DT 4 D DT 4 6 1_555 C DG 5 D DG 5 6 1_555 C HOH 208 V HOH 6 1_555 A LYS 89 A LYS 35 5 3_455 A ALA 156 A ALA 102 5 1_555 A HOH 302 S HOH 5 1_555 A HOH 307 S HOH 5 1_555 A HOH 436 S HOH 5 1_555 B HOH 109 T HOH 4 1_555 C DT 4 D DT 4 4 1_555 C DG 5 D DG 5 4 1_555 C HOH 212 V HOH 4 1_555 5 C 1 2 1