0.010522 0.000000 0.000000 0.000000 0.008071 0.000000 0.000000 0.000000 0.019531 0.000000 0.000000 0.000000 Liu, Y.J. Lilley, D.M.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.000 90.000 90.000 95.043 123.895 51.201 C31 H39 N2 O2 1 471.654 1-(3-hydroxypropyl)-2-{(1E,3E,5E)-5-[1-(3-hydroxypropyl)-3,3-dimethyl-1,3-dihydro-2H-indol-2-ylidene]penta-1,3-dien-1-y l}-3,3-dimethyl-3H-indolium N,N'-(dipropyl)-tetramethylindodicarbocyanine non-polymer 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 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 H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking 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 N N 2 N C N 3 N O N 4 N C N 5 N C N 6 N C N 7 N C Y 8 N C Y 9 N C Y 10 N C Y 11 N C Y 12 N C Y 13 N C N 14 N O N 15 N C N 16 N N N 17 N C N 18 N C N 19 N C N 20 N C N 21 N C N 22 N C Y 23 N C Y 24 N C Y 25 N C Y 26 N C N 27 N C Y 28 N C Y 29 N C N 30 N C N 31 N C N 32 N C N 33 N C N 34 N C N 35 N C N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N H N 42 N H N 43 N H 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 H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H 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 O N 76 N P N 77 N O N 78 N O N 79 N O N 80 N C N 81 R C N 82 N O N 83 S C N 84 N O N 85 R C N 86 N O N 87 R C Y 88 N N Y 89 N C Y 90 N N Y 91 N C Y 92 N C N 93 N N Y 94 N N Y 95 N C Y 96 N N Y 97 N C N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H 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 H N 112 N N N 113 S C N 114 N C N 115 N O N 116 N C N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N N N 126 S C N 127 N C N 128 N O N 129 N C N 130 N C N 131 N C N 132 N N N 133 N C N 134 N N N 135 N N N 136 N O 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 H N 147 N H N 148 N H N 149 N H N 150 N H N 151 N H N 152 N N N 153 S C N 154 N C N 155 N O N 156 N C N 157 N C N 158 N O N 159 N N N 160 N O N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N N N 170 S C N 171 N C N 172 N O N 173 N C N 174 N C N 175 N O N 176 N O N 177 N O N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N O N 186 N P N 187 N O N 188 N O N 189 N O N 190 N C N 191 R C N 192 N O N 193 S C N 194 N O N 195 R C N 196 N O N 197 R C N 198 N N N 199 N C N 200 N O N 201 N N N 202 N C N 203 N N N 204 N C N 205 N C 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 H N 217 N H N 218 N H N 219 N H N 220 N O N 221 N P N 222 N O N 223 N O N 224 N O N 225 N C N 226 R C N 227 N O N 228 S C N 229 N O N 230 R C N 231 N O N 232 R C Y 233 N N Y 234 N C Y 235 N N Y 236 N C N 237 N C N 238 N O N 239 N N N 240 N C N 241 N N N 242 N N Y 243 N C 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 H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N N N 259 S C N 260 N C N 261 N O N 262 N C N 263 N C N 264 N C N 265 N O N 266 N N N 267 N O N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N N N 279 S C N 280 N C N 281 N O N 282 N C N 283 N C N 284 N C N 285 N O N 286 N O N 287 N O N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N N N 298 N C N 299 N C N 300 N O N 301 N O N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N O N 308 N H N 309 N H N 310 N N N 311 S C N 312 N C N 313 N O N 314 S C N 315 N C N 316 N C N 317 N C N 318 N O 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 H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N N N 333 S C N 334 N C N 335 N O N 336 N C N 337 N C N 338 N C N 339 N C N 340 N O N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N N N 355 S C N 356 N C N 357 N O N 358 N C N 359 N C N 360 N C N 361 N C N 362 N N N 363 N O N 364 N H N 365 N H N 366 N H 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 H N 377 N H N 378 N H N 379 N N N 380 S C N 381 N C N 382 N O N 383 N C N 384 N C N 385 N S N 386 N C N 387 N O N 388 N H N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N H N 395 N H N 396 N H N 397 N H N 398 N H N 399 N N N 400 S C N 401 N C N 402 N O N 403 N C Y 404 N C Y 405 N C Y 406 N C Y 407 N C Y 408 N C Y 409 N C 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 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 O N 430 N H N 431 N H N 432 N H N 433 N H N 434 N H N 435 N H N 436 N H N 437 N H N 438 N H N 439 N N N 440 S C N 441 N C N 442 N O N 443 N C N 444 N O N 445 N O N 446 N H N 447 N H N 448 N H N 449 N H N 450 N H N 451 N H N 452 N H N 453 N N N 454 S C N 455 N C N 456 N O N 457 R C N 458 N O N 459 N C N 460 N O N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N H N 468 N H N 469 N H N 470 N N N 471 S C N 472 N C N 473 N O N 474 N C Y 475 N C Y 476 N C Y 477 N C Y 478 N N Y 479 N C Y 480 N C Y 481 N C Y 482 N C Y 483 N C N 484 N O 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 H N 496 N H N 497 N N N 498 S C N 499 N C N 500 N O N 501 N C Y 502 N C Y 503 N C Y 504 N C Y 505 N C Y 506 N C Y 507 N C N 508 N O N 509 N O N 510 N H N 511 N H N 512 N H N 513 N H N 514 N H N 515 N H N 516 N H N 517 N H N 518 N H N 519 N H N 520 N H N 521 N O N 522 N P N 523 N O N 524 N O N 525 N O N 526 N C N 527 R C N 528 N O N 529 S C N 530 N O N 531 R C N 532 N O N 533 R C N 534 N N N 535 N C N 536 N O N 537 N N N 538 N C N 539 N O N 540 N C N 541 N C 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 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 N N 556 S C N 557 N C N 558 N O N 559 N C N 560 N C N 561 N C 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 H N 571 N H N 572 N H N 573 N H N 1 N sing N 2 N sing N 3 N sing Y 4 N doub Y 5 N sing N 6 N sing Y 7 N sing N 8 N sing N 9 N sing Y 10 N doub Y 11 N doub N 12 E doub N 13 N sing N 14 N sing Y 15 N sing N 16 N sing N 17 E doub N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 E doub N 26 N sing N 27 N doub N 28 N sing N 29 N sing Y 30 N doub Y 31 N sing Y 32 N sing N 33 N sing N 34 N sing N 35 N sing Y 36 N doub Y 37 N doub Y 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N doub N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing Y 102 N sing Y 103 N sing Y 104 N doub N 105 N sing Y 106 N sing Y 107 N sing Y 108 N doub N 109 N sing Y 110 N doub N 111 N sing N 112 N sing Y 113 N sing Y 114 N doub N 115 N sing Y 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N doub N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N doub 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 doub N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N doub N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N doub N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N doub N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N doub 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 sing N 209 N sing N 210 N sing N 211 N sing N 212 N doub N 213 N sing N 214 N doub N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N doub N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N doub N 225 N sing N 226 N sing N 227 N 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 N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing Y 246 N sing Y 247 N sing Y 248 N doub N 249 N sing Y 250 N sing N 251 N sing Y 252 N doub N 253 N doub N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N doub N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N doub N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N doub N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N doub N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N doub N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N 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 doub 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 N 327 N sing N 328 N sing N 329 N sing N 330 N sing 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 doub N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N doub 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 sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N doub N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N sing N 401 N doub N 402 N sing N 403 N sing N 404 N sing N 405 N sing Y 406 N doub Y 407 N sing Y 408 N sing N 409 N sing Y 410 N doub N 411 N sing Y 412 N doub N 413 N sing Y 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 doub N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing N 431 N sing N 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N doub 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 sing N 453 N sing N 454 N doub N 455 N sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N sing N 462 N sing N 463 N sing N 464 N sing N 465 N sing N 466 N sing N 467 N sing N 468 N sing N 469 N sing N 470 N doub N 471 N sing N 472 N sing N 473 N sing N 474 N sing Y 475 N doub Y 476 N sing Y 477 N sing N 478 N sing Y 479 N doub Y 480 N sing Y 481 N sing N 482 N sing Y 483 N sing Y 484 N doub N 485 N sing Y 486 N doub N 487 N sing Y 488 N sing N 489 N sing N 490 N sing N 491 N sing N 492 N sing N 493 N sing N 494 N sing N 495 N sing N 496 N sing N 497 N sing N 498 N doub N 499 N sing N 500 N sing N 501 N sing N 502 N sing Y 503 N doub Y 504 N sing Y 505 N sing N 506 N sing Y 507 N doub N 508 N sing Y 509 N doub N 510 N sing Y 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 sing N 518 N doub 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 sing N 535 N sing N 536 N sing N 537 N sing N 538 N sing N 539 N sing N 540 N sing N 541 N sing N 542 N doub N 543 N sing N 544 N sing N 545 N sing N 546 N doub N 547 N sing N 548 N doub 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 doub 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 US Biophys. J. BIOJAU 0030 1542-0086 113 2336 2343 10.1016/j.bpj.2017.10.002 29211987 Crystal Structures of Cyanine Fluorophores Stacked onto the End of Double-Stranded RNA. 2017 10.2210/pdb5ns3/pdb pdb_00005ns3 94 1 PIXEL 2014-02-25 DECTRIS PILATUS3 S 6M SINGLE WAVELENGTH M x-ray 1 1 1.0 ID23-1 ESRF 1 SYNCHROTRON ESRF BEAMLINE ID23-1 20475.859 50S ribosomal protein L5 2 man polymer 10995.998 double-stranded RNA 2 syn polymer 18.015 water 14 nat water TL4,TthL5 no no VALKRKYYEEVRPELIRRFGYQNVWEVPRLEKVVINQGLGEAKEDARILEKAAQELALITGQKPAVTRAKKSISNFKLRK GMPIGLRVTLRRDRMWIFLEKLLNVALPRIRDFRGLNPNSFDGRGNYNLGLREQLIFPEITYDMVDALRGMDIAVVTTAE TDEEARALLELLGFPFR VALKRKYYEEVRPELIRRFGYQNVWEVPRLEKVVINQGLGEAKEDARILEKAAQELALITGQKPAVTRAKKSISNFKLRK GMPIGLRVTLRRDRMWIFLEKLLNVALPRIRDFRGLNPNSFDGRGNYNLGLREQLIFPEITYDMVDALRGMDIAVVTTAE TDEEARALLELLGFPFR A,B polypeptide(L) no yes (5CY)CGCACCUGACCCCAUGCCGAACUCAGAAGUGCG XCGCACCUGACCCCAUGCCGAACUCAGAAGUGCG C,D polyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n 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 1 177 rplE, rpl5 274 Thermus thermophilus 562 Escherichia coli Biological sequence 1 2.42 49.11 VAPOR DIFFUSION 0.3 M Magnesium formate dehydrate 0.1 M BIS-TRIS pH 5.5 50mM KF 289 -8.104 1 19 C 26 C 58 -0.771 C_C26:G58_C 1 -7.298 0.114 0.025 -0.032 -1.588 1 19 C 27 C 57 0.811 C_G27:C57_C 2 -10.123 -0.292 0.126 -0.123 6.956 1 19 C 28 C 56 -1.263 C_C28:G56_C 3 -10.884 -0.139 0.030 -0.121 1.190 1 20 C 29 C 55 2.638 C_A29:U55_C 4 -13.474 -0.098 -0.015 -0.171 -4.981 1 19 C 30 C 54 5.329 C_C30:G54_C 5 -18.378 0.523 0.142 -0.028 1.685 1 19 C 31 C 51 2.173 C_C31:G51_C 6 -19.068 0.375 -0.090 -0.147 0.180 1 20 C 32 C 50 3.237 C_U32:A50_C 7 -12.968 -0.034 0.376 -0.122 -0.145 1 19 C 33 C 49 -2.666 C_G33:C49_C 8 -14.975 -0.084 0.424 -0.209 6.844 1 20 C 34 C 48 -1.242 C_A34:U48_C 9 -14.197 0.005 0.309 -0.056 7.339 1 19 C 38 C 44 -1.843 C_C38:G44_C 10 -13.538 0.042 0.276 -0.103 -26.802 5 C 39 C 46 60.329 C_A39:A46_C 11 -4.760 6.370 -0.205 -0.279 -7.289 C 40 C 45 7.110 C_U40:A45_C 12 14.445 6.708 1.195 -4.309 -1.233 1 19 D 26 D 58 3.097 D_C26:G58_D 13 -8.447 0.432 0.059 0.150 3.372 1 19 D 27 D 57 3.048 D_G27:C57_D 14 -13.120 -0.359 0.196 -0.111 8.209 1 19 D 28 D 56 0.758 D_C28:G56_D 15 -14.885 -0.075 -0.004 -0.091 -2.132 1 20 D 29 D 55 2.409 D_A29:U55_D 16 -12.186 -0.062 -0.140 -0.162 -4.760 1 19 D 30 D 54 4.843 D_C30:G54_D 17 -15.045 0.526 -0.093 -0.020 4.018 1 19 D 31 D 51 2.153 D_C31:G51_D 18 -22.574 0.393 -0.033 -0.158 1.062 1 20 D 32 D 50 4.154 D_U32:A50_D 19 -14.868 -0.033 0.379 -0.119 -0.492 1 19 D 33 D 49 -1.360 D_G33:C49_D 20 -15.812 -0.106 0.399 -0.202 5.460 1 20 D 34 D 48 -0.611 D_A34:U48_D 21 -13.957 0.045 0.275 -0.054 7.249 1 19 D 38 D 44 -2.933 D_C38:G44_D 22 -13.951 0.022 0.276 -0.118 -26.458 5 D 39 D 46 61.129 D_A39:A46_D 23 -4.509 6.374 -0.194 -0.293 -7.181 D 40 D 45 8.448 D_U40:A45_D 24 16.056 6.722 1.284 -4.335 2.624 27.761 C C 26 27 13.186 C C 58 57 3.121 6.274 -0.449 -1.910 CC_C26G27:C57G58_CC 1 -0.233 0.490 27.055 -5.325 0.885 2.924 30.540 C C 27 28 9.000 C C 57 56 3.137 4.720 -0.691 -1.389 CC_G27C28:G56C57_CC 2 -1.710 3.260 30.134 -3.511 0.995 2.611 33.047 C C 28 29 20.763 C C 56 55 3.359 11.569 0.053 -1.583 CC_C28A29:U55G56_CC 3 -1.432 2.570 30.976 -4.632 -0.321 2.998 36.895 C C 29 30 9.915 C C 55 54 3.274 6.242 0.776 -1.683 CC_A29C30:G54U55_CC 4 2.474 -3.930 36.300 -3.475 -0.903 3.039 57.733 C C 30 31 13.921 C C 54 51 4.237 13.201 2.758 -1.385 CC_C30C31:G51G54_CC 5 -15.349 16.186 54.356 -2.252 -3.807 2.745 33.831 C C 31 32 16.849 C C 51 50 3.318 9.662 0.158 -1.493 CC_C31U32:A50G51_CC 6 -3.052 5.321 32.320 -4.046 -0.739 2.492 28.004 C C 32 33 14.762 C C 50 49 3.054 7.069 -0.147 -1.878 CC_U32G33:C49A50_CC 7 0.290 -0.605 27.113 -5.323 0.362 2.857 36.171 C C 33 34 7.024 C C 49 48 3.009 4.351 -0.744 -1.283 CC_G33A34:U48C49_CC 8 -0.927 1.496 35.906 -2.618 1.081 3.152 130.734 C C 34 38 -2.868 C C 48 44 3.232 -5.214 -1.544 3.621 CC_A34C38:G44U48_CC 9 0.544 -0.299 130.679 2.028 0.853 3.162 -20.043 C C 38 39 -24.706 C C 44 46 3.811 5.926 -2.503 -1.062 CC_C38A39:A46G44_CC 10 18.985 79.147 -2.498 -2.211 9.670 1.853 31.759 C C 39 40 16.493 C C 46 45 3.004 8.831 -2.795 -1.202 CC_A39U40:A45A46_CC 11 7.334 -13.696 29.662 -3.443 6.143 2.392 26.097 D D 26 27 17.783 D D 58 57 3.070 7.888 -0.618 -1.984 DD_C26G27:C57G58_DD 12 -3.184 7.178 24.695 -6.243 0.622 2.931 32.425 D D 27 28 9.308 D D 57 56 3.166 5.174 -0.756 -1.514 DD_G27C28:G56C57_DD 13 -1.937 3.485 31.963 -3.566 1.033 2.553 33.841 D D 28 29 23.981 D D 56 55 3.455 13.586 -0.035 -1.599 DD_C28A29:U55G56_DD 14 -0.860 1.518 31.056 -4.852 -0.074 2.887 35.509 D D 29 30 11.030 D D 55 54 3.198 6.681 0.721 -1.688 DD_A29C30:G54U55_DD 15 3.158 -5.214 34.756 -3.687 -0.747 2.610 53.707 D D 30 31 18.520 D D 54 51 3.754 16.376 2.372 -1.457 DD_C30C31:G51G54_DD 16 -11.824 13.372 50.028 -2.650 -3.375 2.680 34.915 D D 31 32 18.543 D D 51 50 3.297 10.935 0.184 -1.420 DD_C31U32:A50G51_DD 17 -3.085 5.232 33.069 -3.923 -0.746 2.388 27.858 D D 32 33 17.762 D D 50 49 3.075 8.422 -0.096 -1.839 DD_U32G33:C49A50_DD 18 0.509 -1.074 26.574 -5.543 0.304 2.847 36.664 D D 33 34 8.270 D D 49 48 3.029 5.185 -0.729 -1.234 DD_G33A34:U48C49_DD 19 -0.783 1.248 36.300 -2.603 1.062 3.127 129.964 D D 34 38 -2.768 D D 48 44 3.206 -5.017 -1.558 3.571 DD_A34C38:G44U48_DD 20 0.915 -0.505 129.911 2.006 0.866 3.076 -19.442 D D 38 39 -25.795 D D 44 46 3.788 5.929 -2.504 -1.024 DD_C38A39:A46G44_DD 21 18.408 80.081 -2.007 -2.584 10.019 1.901 32.314 D D 39 40 17.047 D D 46 45 2.995 9.287 -2.778 -1.163 DD_A39U40:A45A46_DD 22 6.891 -12.648 30.225 -3.364 5.937 chem_comp chem_comp_atom chem_comp_bond database_2 repository Initial release Data collection Database references Structure summary 1 0 2017-12-20 1 1 2024-05-08 _chem_comp.name _database_2.pdbx_DOI _database_2.pdbx_database_accession N PDBE Y PDBE 2017-04-25 REL REL HOH water 274 Thermus thermophilus sample 1 34 HOH 10 3 HOH HOH 201 A HOH 12 3 HOH HOH 202 A HOH 7 3 HOH HOH 203 A HOH 9 3 HOH HOH 201 B HOH 8 3 HOH HOH 202 B HOH 3 3 HOH HOH 203 B HOH 4 3 HOH HOH 204 B HOH 15 3 HOH HOH 101 C HOH 2 3 HOH HOH 102 C HOH 1 3 HOH HOH 103 C HOH 5 3 HOH HOH 104 C HOH 14 3 HOH HOH 105 C HOH 13 3 HOH HOH 106 C HOH 11 3 HOH HOH 101 D VAL 5 n 1 VAL 5 A ALA 6 n 2 ALA 6 A LEU 7 n 3 LEU 7 A LYS 8 n 4 LYS 8 A ARG 9 n 5 ARG 9 A LYS 10 n 6 LYS 10 A TYR 11 n 7 TYR 11 A TYR 12 n 8 TYR 12 A GLU 13 n 9 GLU 13 A GLU 14 n 10 GLU 14 A VAL 15 n 11 VAL 15 A ARG 16 n 12 ARG 16 A PRO 17 n 13 PRO 17 A GLU 18 n 14 GLU 18 A LEU 19 n 15 LEU 19 A ILE 20 n 16 ILE 20 A ARG 21 n 17 ARG 21 A ARG 22 n 18 ARG 22 A PHE 23 n 19 PHE 23 A GLY 24 n 20 GLY 24 A TYR 25 n 21 TYR 25 A GLN 26 n 22 GLN 26 A ASN 27 n 23 ASN 27 A VAL 28 n 24 VAL 28 A TRP 29 n 25 TRP 29 A GLU 30 n 26 GLU 30 A VAL 31 n 27 VAL 31 A PRO 32 n 28 PRO 32 A ARG 33 n 29 ARG 33 A LEU 34 n 30 LEU 34 A GLU 35 n 31 GLU 35 A LYS 36 n 32 LYS 36 A VAL 37 n 33 VAL 37 A VAL 38 n 34 VAL 38 A ILE 39 n 35 ILE 39 A ASN 40 n 36 ASN 40 A GLN 41 n 37 GLN 41 A GLY 42 n 38 GLY 42 A LEU 43 n 39 LEU 43 A n 40 44 A n 41 45 A n 42 46 A n 43 47 A n 44 48 A n 45 49 A n 46 50 A n 47 51 A ILE 52 n 48 ILE 52 A LEU 53 n 49 LEU 53 A GLU 54 n 50 GLU 54 A LYS 55 n 51 LYS 55 A ALA 56 n 52 ALA 56 A ALA 57 n 53 ALA 57 A GLN 58 n 54 GLN 58 A GLU 59 n 55 GLU 59 A LEU 60 n 56 LEU 60 A ALA 61 n 57 ALA 61 A LEU 62 n 58 LEU 62 A ILE 63 n 59 ILE 63 A THR 64 n 60 THR 64 A GLY 65 n 61 GLY 65 A GLN 66 n 62 GLN 66 A LYS 67 n 63 LYS 67 A PRO 68 n 64 PRO 68 A ALA 69 n 65 ALA 69 A VAL 70 n 66 VAL 70 A THR 71 n 67 THR 71 A ARG 72 n 68 ARG 72 A ALA 73 n 69 ALA 73 A n 70 74 A n 71 75 A n 72 76 A n 73 77 A n 74 78 A n 75 79 A n 76 80 A n 77 81 A n 78 82 A n 79 83 A n 80 84 A n 81 85 A n 82 86 A PRO 87 n 83 PRO 87 A ILE 88 n 84 ILE 88 A GLY 89 n 85 GLY 89 A LEU 90 n 86 LEU 90 A ARG 91 n 87 ARG 91 A VAL 92 n 88 VAL 92 A THR 93 n 89 THR 93 A LEU 94 n 90 LEU 94 A ARG 95 n 91 ARG 95 A ARG 96 n 92 ARG 96 A ASP 97 n 93 ASP 97 A ARG 98 n 94 ARG 98 A MET 99 n 95 MET 99 A TRP 100 n 96 TRP 100 A ILE 101 n 97 ILE 101 A PHE 102 n 98 PHE 102 A LEU 103 n 99 LEU 103 A GLU 104 n 100 GLU 104 A LYS 105 n 101 LYS 105 A LEU 106 n 102 LEU 106 A LEU 107 n 103 LEU 107 A ASN 108 n 104 ASN 108 A VAL 109 n 105 VAL 109 A ALA 110 n 106 ALA 110 A LEU 111 n 107 LEU 111 A PRO 112 n 108 PRO 112 A ARG 113 n 109 ARG 113 A ILE 114 n 110 ILE 114 A ARG 115 n 111 ARG 115 A n 112 116 A n 113 117 A n 114 118 A GLY 119 n 115 GLY 119 A LEU 120 n 116 LEU 120 A ASN 121 n 117 ASN 121 A PRO 122 n 118 PRO 122 A ASN 123 n 119 ASN 123 A SER 124 n 120 SER 124 A PHE 125 n 121 PHE 125 A ASP 126 n 122 ASP 126 A GLY 127 n 123 GLY 127 A ARG 128 n 124 ARG 128 A GLY 129 n 125 GLY 129 A ASN 130 n 126 ASN 130 A TYR 131 n 127 TYR 131 A ASN 132 n 128 ASN 132 A LEU 133 n 129 LEU 133 A GLY 134 n 130 GLY 134 A LEU 135 n 131 LEU 135 A n 132 136 A n 133 137 A n 134 138 A n 135 139 A n 136 140 A n 137 141 A n 138 142 A n 139 143 A n 140 144 A n 141 145 A n 142 146 A n 143 147 A n 144 148 A n 145 149 A n 146 150 A n 147 151 A n 148 152 A n 149 153 A GLY 154 n 150 GLY 154 A MET 155 n 151 MET 155 A ASP 156 n 152 ASP 156 A ILE 157 n 153 ILE 157 A ALA 158 n 154 ALA 158 A VAL 159 n 155 VAL 159 A VAL 160 n 156 VAL 160 A THR 161 n 157 THR 161 A THR 162 n 158 THR 162 A ALA 163 n 159 ALA 163 A GLU 164 n 160 GLU 164 A THR 165 n 161 THR 165 A ASP 166 n 162 ASP 166 A GLU 167 n 163 GLU 167 A GLU 168 n 164 GLU 168 A ALA 169 n 165 ALA 169 A ARG 170 n 166 ARG 170 A ALA 171 n 167 ALA 171 A LEU 172 n 168 LEU 172 A LEU 173 n 169 LEU 173 A GLU 174 n 170 GLU 174 A LEU 175 n 171 LEU 175 A LEU 176 n 172 LEU 176 A GLY 177 n 173 GLY 177 A PHE 178 n 174 PHE 178 A PRO 179 n 175 PRO 179 A PHE 180 n 176 PHE 180 A ARG 181 n 177 ARG 181 A VAL 5 n 1 VAL 5 B ALA 6 n 2 ALA 6 B LEU 7 n 3 LEU 7 B LYS 8 n 4 LYS 8 B ARG 9 n 5 ARG 9 B LYS 10 n 6 LYS 10 B TYR 11 n 7 TYR 11 B TYR 12 n 8 TYR 12 B GLU 13 n 9 GLU 13 B GLU 14 n 10 GLU 14 B VAL 15 n 11 VAL 15 B ARG 16 n 12 ARG 16 B PRO 17 n 13 PRO 17 B GLU 18 n 14 GLU 18 B LEU 19 n 15 LEU 19 B ILE 20 n 16 ILE 20 B ARG 21 n 17 ARG 21 B ARG 22 n 18 ARG 22 B PHE 23 n 19 PHE 23 B GLY 24 n 20 GLY 24 B TYR 25 n 21 TYR 25 B GLN 26 n 22 GLN 26 B ASN 27 n 23 ASN 27 B VAL 28 n 24 VAL 28 B TRP 29 n 25 TRP 29 B GLU 30 n 26 GLU 30 B VAL 31 n 27 VAL 31 B PRO 32 n 28 PRO 32 B ARG 33 n 29 ARG 33 B LEU 34 n 30 LEU 34 B GLU 35 n 31 GLU 35 B LYS 36 n 32 LYS 36 B VAL 37 n 33 VAL 37 B VAL 38 n 34 VAL 38 B ILE 39 n 35 ILE 39 B ASN 40 n 36 ASN 40 B n 37 41 B n 38 42 B n 39 43 B n 40 44 B n 41 45 B n 42 46 B n 43 47 B n 44 48 B n 45 49 B n 46 50 B n 47 51 B ILE 52 n 48 ILE 52 B LEU 53 n 49 LEU 53 B GLU 54 n 50 GLU 54 B LYS 55 n 51 LYS 55 B ALA 56 n 52 ALA 56 B ALA 57 n 53 ALA 57 B GLN 58 n 54 GLN 58 B GLU 59 n 55 GLU 59 B LEU 60 n 56 LEU 60 B ALA 61 n 57 ALA 61 B LEU 62 n 58 LEU 62 B ILE 63 n 59 ILE 63 B THR 64 n 60 THR 64 B GLY 65 n 61 GLY 65 B GLN 66 n 62 GLN 66 B LYS 67 n 63 LYS 67 B PRO 68 n 64 PRO 68 B ALA 69 n 65 ALA 69 B VAL 70 n 66 VAL 70 B THR 71 n 67 THR 71 B ARG 72 n 68 ARG 72 B ALA 73 n 69 ALA 73 B LYS 74 n 70 LYS 74 B n 71 75 B n 72 76 B n 73 77 B n 74 78 B n 75 79 B n 76 80 B n 77 81 B n 78 82 B n 79 83 B LYS 84 n 80 LYS 84 B GLY 85 n 81 GLY 85 B MET 86 n 82 MET 86 B PRO 87 n 83 PRO 87 B ILE 88 n 84 ILE 88 B GLY 89 n 85 GLY 89 B LEU 90 n 86 LEU 90 B ARG 91 n 87 ARG 91 B VAL 92 n 88 VAL 92 B THR 93 n 89 THR 93 B LEU 94 n 90 LEU 94 B ARG 95 n 91 ARG 95 B ARG 96 n 92 ARG 96 B ASP 97 n 93 ASP 97 B ARG 98 n 94 ARG 98 B MET 99 n 95 MET 99 B TRP 100 n 96 TRP 100 B ILE 101 n 97 ILE 101 B PHE 102 n 98 PHE 102 B LEU 103 n 99 LEU 103 B GLU 104 n 100 GLU 104 B LYS 105 n 101 LYS 105 B LEU 106 n 102 LEU 106 B LEU 107 n 103 LEU 107 B ASN 108 n 104 ASN 108 B VAL 109 n 105 VAL 109 B ALA 110 n 106 ALA 110 B LEU 111 n 107 LEU 111 B PRO 112 n 108 PRO 112 B ARG 113 n 109 ARG 113 B ILE 114 n 110 ILE 114 B ARG 115 n 111 ARG 115 B n 112 116 B PHE 117 n 113 PHE 117 B ARG 118 n 114 ARG 118 B GLY 119 n 115 GLY 119 B LEU 120 n 116 LEU 120 B ASN 121 n 117 ASN 121 B PRO 122 n 118 PRO 122 B ASN 123 n 119 ASN 123 B SER 124 n 120 SER 124 B PHE 125 n 121 PHE 125 B ASP 126 n 122 ASP 126 B GLY 127 n 123 GLY 127 B ARG 128 n 124 ARG 128 B GLY 129 n 125 GLY 129 B ASN 130 n 126 ASN 130 B TYR 131 n 127 TYR 131 B ASN 132 n 128 ASN 132 B LEU 133 n 129 LEU 133 B GLY 134 n 130 GLY 134 B LEU 135 n 131 LEU 135 B n 132 136 B n 133 137 B n 134 138 B n 135 139 B n 136 140 B n 137 141 B n 138 142 B n 139 143 B n 140 144 B n 141 145 B n 142 146 B n 143 147 B n 144 148 B n 145 149 B n 146 150 B n 147 151 B n 148 152 B n 149 153 B GLY 154 n 150 GLY 154 B MET 155 n 151 MET 155 B ASP 156 n 152 ASP 156 B ILE 157 n 153 ILE 157 B ALA 158 n 154 ALA 158 B VAL 159 n 155 VAL 159 B VAL 160 n 156 VAL 160 B THR 161 n 157 THR 161 B THR 162 n 158 THR 162 B ALA 163 n 159 ALA 163 B GLU 164 n 160 GLU 164 B THR 165 n 161 THR 165 B ASP 166 n 162 ASP 166 B GLU 167 n 163 GLU 167 B GLU 168 n 164 GLU 168 B ALA 169 n 165 ALA 169 B ARG 170 n 166 ARG 170 B ALA 171 n 167 ALA 171 B LEU 172 n 168 LEU 172 B LEU 173 n 169 LEU 173 B GLU 174 n 170 GLU 174 B LEU 175 n 171 LEU 175 B LEU 176 n 172 LEU 176 B GLY 177 n 173 GLY 177 B PHE 178 n 174 PHE 178 B PRO 179 n 175 PRO 179 B PHE 180 n 176 PHE 180 B ARG 181 n 177 ARG 181 B DRG 25 n 1 5CY 25 C C 26 n 2 C 26 C G 27 n 3 G 27 C C 28 n 4 C 28 C A 29 n 5 A 29 C C 30 n 6 C 30 C C 31 n 7 C 31 C U 32 n 8 U 32 C G 33 n 9 G 33 C A 34 n 10 A 34 C C 35 n 11 C 35 C C 36 n 12 C 36 C C 37 n 13 C 37 C C 38 n 14 C 38 C A 39 n 15 A 39 C U 40 n 16 U 40 C G 41 n 17 G 41 C C 42 n 18 C 42 C C 43 n 19 C 43 C G 44 n 20 G 44 C A 45 n 21 A 45 C A 46 n 22 A 46 C C 47 n 23 C 47 C U 48 n 24 U 48 C C 49 n 25 C 49 C A 50 n 26 A 50 C G 51 n 27 G 51 C A 52 n 28 A 52 C DA 53 n 29 A 53 C G 54 n 30 G 54 C U 55 n 31 U 55 C G 56 n 32 G 56 C C 57 n 33 C 57 C G 58 n 34 G 58 C DRG 25 n 1 5CY 25 D C 26 n 2 C 26 D G 27 n 3 G 27 D C 28 n 4 C 28 D A 29 n 5 A 29 D C 30 n 6 C 30 D C 31 n 7 C 31 D U 32 n 8 U 32 D G 33 n 9 G 33 D A 34 n 10 A 34 D n 11 35 D C 36 n 12 C 36 D C 37 n 13 C 37 D C 38 n 14 C 38 D A 39 n 15 A 39 D U 40 n 16 U 40 D G 41 n 17 G 41 D C 42 n 18 C 42 D C 43 n 19 C 43 D G 44 n 20 G 44 D A 45 n 21 A 45 D A 46 n 22 A 46 D C 47 n 23 C 47 D U 48 n 24 U 48 D C 49 n 25 C 49 D A 50 n 26 A 50 D G 51 n 27 G 51 D n 28 52 D A 53 n 29 A 53 D G 54 n 30 G 54 D U 55 n 31 U 55 D G 56 n 32 G 56 D C 57 n 33 C 57 D G 58 n 34 G 58 D author_and_software_defined_assembly PISA 4 tetrameric none 5810 -42 22950 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N THR 71 A N THR 67 A O GLY 89 A O GLY 85 A O LEU 90 A O LEU 86 A N GLN 41 A N GLN 37 A N GLU 35 A N GLU 31 A O VAL 160 A O VAL 156 A O VAL 159 A O VAL 155 A N TYR 131 A N TYR 127 B N ALA 69 B N ALA 65 B O ARG 91 B O ARG 87 B O VAL 92 B O VAL 88 B N ILE 39 B N ILE 35 B N LYS 36 B N LYS 32 B O VAL 160 B O VAL 156 B O ILE 157 B O ILE 153 B N LEU 133 B N LEU 129 1 C C8 G 41 C C8 G 17 1 Y 1 C N7 G 41 C N7 G 17 1 Y 1 C C5 G 41 C C5 G 17 1 Y 1 C C6 G 41 C C6 G 17 1 Y 1 C O6 G 41 C O6 G 17 1 Y 1 C N1 G 41 C N1 G 17 1 Y 1 C C2 G 41 C C2 G 17 1 Y 1 C N2 G 41 C N2 G 17 1 Y 1 C N3 G 41 C N3 G 17 1 Y 1 C C4 G 41 C C4 G 17 1 Y 1 C C5' A 53 C C5' A 29 1 Y 1 C C4' A 53 C C4' A 29 1 Y 1 C O4' A 53 C O4' A 29 1 Y 1 C C3' A 53 C C3' A 29 1 Y 1 C O3' A 53 C O3' A 29 1 Y 1 C C2' A 53 C C2' A 29 1 Y 1 C O2' A 53 C O2' A 29 1 Y 1 C C1' A 53 C C1' A 29 1 Y 1 C N9 A 53 C N9 A 29 1 Y 1 C C8 A 53 C C8 A 29 1 Y 1 C N7 A 53 C N7 A 29 1 Y 1 C C5 A 53 C C5 A 29 1 Y 1 C C6 A 53 C C6 A 29 1 Y 1 C N6 A 53 C N6 A 29 1 Y 1 C N1 A 53 C N1 A 29 1 Y 1 C C2 A 53 C C2 A 29 1 Y 1 C N3 A 53 C N3 A 29 1 Y 1 C C4 A 53 C C4 A 29 1 Y 1 D C1 5CY 25 D C1 5CY 1 1 Y 1 D O2 5CY 25 D O2 5CY 1 1 Y 1 D C2 5CY 25 D C2 5CY 1 1 Y 1 D N2 5CY 25 D N2 5CY 1 1 Y 1 D C23 5CY 25 D C23 5CY 1 1 Y 1 D C24 5CY 25 D C24 5CY 1 1 Y 1 D C25 5CY 25 D C25 5CY 1 1 Y 1 D C26 5CY 25 D C26 5CY 1 1 Y 1 D C27 5CY 25 D C27 5CY 1 1 Y 1 D C28 5CY 25 D C28 5CY 1 1 Y 1 D C29 5CY 25 D C29 5CY 1 1 Y 1 D C3 5CY 25 D C3 5CY 1 1 Y 1 D C30 5CY 25 D C30 5CY 1 1 Y 1 D C31 5CY 25 D C31 5CY 1 1 Y 1 D C4 5CY 25 D C4 5CY 1 1 Y 1 D C5 5CY 25 D C5 5CY 1 1 Y 1 D C6 5CY 25 D C6 5CY 1 1 Y 1 D C7 5CY 25 D C7 5CY 1 1 Y 1 D C8 5CY 25 D C8 5CY 1 1 Y 1 D C9 5CY 25 D C9 5CY 1 1 Y 1 D C8 G 41 D C8 G 17 1 Y 1 D N7 G 41 D N7 G 17 1 Y 1 D C5 G 41 D C5 G 17 1 Y 1 D C6 G 41 D C6 G 17 1 Y 1 D O6 G 41 D O6 G 17 1 Y 1 D N1 G 41 D N1 G 17 1 Y 1 D C2 G 41 D C2 G 17 1 Y 1 D N2 G 41 D N2 G 17 1 Y 1 D N3 G 41 D N3 G 17 1 Y 1 D C4 G 41 D C4 G 17 1 Y 1 A GLY 44 A GLY 40 1 Y 1 A GLU 45 A GLU 41 1 Y 1 A ALA 46 A ALA 42 1 Y 1 A LYS 47 A LYS 43 1 Y 1 A GLU 48 A GLU 44 1 Y 1 A ASP 49 A ASP 45 1 Y 1 A ALA 50 A ALA 46 1 Y 1 A ARG 51 A ARG 47 1 Y 1 A LYS 74 A LYS 70 1 Y 1 A LYS 75 A LYS 71 1 Y 1 A SER 76 A SER 72 1 Y 1 A ILE 77 A ILE 73 1 Y 1 A SER 78 A SER 74 1 Y 1 A ASN 79 A ASN 75 1 Y 1 A PHE 80 A PHE 76 1 Y 1 A LYS 81 A LYS 77 1 Y 1 A LEU 82 A LEU 78 1 Y 1 A ARG 83 A ARG 79 1 Y 1 A LYS 84 A LYS 80 1 Y 1 A GLY 85 A GLY 81 1 Y 1 A MET 86 A MET 82 1 Y 1 A ASP 116 A ASP 112 1 Y 1 A PHE 117 A PHE 113 1 Y 1 A ARG 118 A ARG 114 1 Y 1 A ARG 136 A ARG 132 1 Y 1 A GLU 137 A GLU 133 1 Y 1 A GLN 138 A GLN 134 1 Y 1 A LEU 139 A LEU 135 1 Y 1 A ILE 140 A ILE 136 1 Y 1 A PHE 141 A PHE 137 1 Y 1 A PRO 142 A PRO 138 1 Y 1 A GLU 143 A GLU 139 1 Y 1 A ILE 144 A ILE 140 1 Y 1 A THR 145 A THR 141 1 Y 1 A TYR 146 A TYR 142 1 Y 1 A ASP 147 A ASP 143 1 Y 1 A MET 148 A MET 144 1 Y 1 A VAL 149 A VAL 145 1 Y 1 A ASP 150 A ASP 146 1 Y 1 A ALA 151 A ALA 147 1 Y 1 A LEU 152 A LEU 148 1 Y 1 A ARG 153 A ARG 149 1 Y 1 B GLN 41 B GLN 37 1 Y 1 B GLY 42 B GLY 38 1 Y 1 B LEU 43 B LEU 39 1 Y 1 B GLY 44 B GLY 40 1 Y 1 B GLU 45 B GLU 41 1 Y 1 B ALA 46 B ALA 42 1 Y 1 B LYS 47 B LYS 43 1 Y 1 B GLU 48 B GLU 44 1 Y 1 B ASP 49 B ASP 45 1 Y 1 B ALA 50 B ALA 46 1 Y 1 B ARG 51 B ARG 47 1 Y 1 B LYS 75 B LYS 71 1 Y 1 B SER 76 B SER 72 1 Y 1 B ILE 77 B ILE 73 1 Y 1 B SER 78 B SER 74 1 Y 1 B ASN 79 B ASN 75 1 Y 1 B PHE 80 B PHE 76 1 Y 1 B LYS 81 B LYS 77 1 Y 1 B LEU 82 B LEU 78 1 Y 1 B ARG 83 B ARG 79 1 Y 1 B ASP 116 B ASP 112 1 Y 1 B ARG 136 B ARG 132 1 Y 1 B GLU 137 B GLU 133 1 Y 1 B GLN 138 B GLN 134 1 Y 1 B LEU 139 B LEU 135 1 Y 1 B ILE 140 B ILE 136 1 Y 1 B PHE 141 B PHE 137 1 Y 1 B PRO 142 B PRO 138 1 Y 1 B GLU 143 B GLU 139 1 Y 1 B ILE 144 B ILE 140 1 Y 1 B THR 145 B THR 141 1 Y 1 B TYR 146 B TYR 142 1 Y 1 B ASP 147 B ASP 143 1 Y 1 B MET 148 B MET 144 1 Y 1 B VAL 149 B VAL 145 1 Y 1 B ASP 150 B ASP 146 1 Y 1 B ALA 151 B ALA 147 1 Y 1 B LEU 152 B LEU 148 1 Y 1 B ARG 153 B ARG 149 1 Y 1 D C 35 D C 11 1 Y 1 D A 52 D A 28 1 Y 1 C C O1 P 5CY C 25 26 1.27 1 3.24 0.50 120.30 123.54 B B B NE CZ NH1 ARG ARG ARG 128 128 128 N 1 A ARG 96 55.50 -138.43 1 A ARG 113 -102.37 63.33 1 A SER 124 -82.51 33.07 1 B ARG 96 57.81 -141.80 117.570 35.2941 20.000 0.2745 0.2519 0.2530 2.4000 47.5210 1227 24293 5.0500 99.6600 0.3100 1 FREE R-VALUE 1.360 29.1800 0.9000 1.1100 ML FLAT BULK SOLVENT MODEL 2.4000 47.5210 14 3597 44.26 0 1370 2213 339 49.61 1.987 47.52 5NS3 278257 42321 0.995 0.07599 0.08279 1 15.77 6.6 99.0 1.275 1.987 2.058 1.44 26351 4055 0.561 1.386 1 6.5 97.0 refinement REFMAC data scaling Aimless data extraction PDB_EXTRACT 3.22 data reduction xia2 phasing PHENIX N Crystal structures of Cy5 cyanine fluorophores stacked onto the end of double-stranded RNA 1 N N 1 N N 2 N N 2 N N 3 N N 3 N N 3 N N 3 N N A VAL 5 A VAL 1 HELX_P A GLU 14 A GLU 10 1 AA1 10 A GLU 14 A GLU 10 HELX_P A GLY 24 A GLY 20 1 AA2 11 A ASN 27 A ASN 23 HELX_P A VAL 31 A VAL 27 5 AA3 5 A LEU 53 A LEU 49 HELX_P A GLY 65 A GLY 61 1 AA4 13 A ARG 95 A ARG 91 HELX_P A VAL 109 A VAL 105 1 AA5 15 A THR 165 A THR 161 HELX_P A LEU 176 A LEU 172 1 AA6 12 B ALA 6 B ALA 2 HELX_P B GLU 14 B GLU 10 1 AA7 9 B GLU 14 B GLU 10 HELX_P B GLY 24 B GLY 20 1 AA8 11 B ASN 27 B ASN 23 HELX_P B VAL 31 B VAL 27 5 AA9 5 B LEU 53 B LEU 49 HELX_P B GLY 65 B GLY 61 1 AB1 13 B ARG 95 B ARG 91 HELX_P B VAL 109 B VAL 105 1 AB2 15 B VAL 109 B VAL 105 HELX_P B ILE 114 B ILE 110 1 AB3 6 B THR 165 B THR 161 HELX_P B GLY 177 B GLY 173 1 AB4 13 hydrog WATSON-CRICK C C 26 C N3 C 2 1_555 C G 58 C N1 G 34 1_555 hydrog WATSON-CRICK C C 26 C N4 C 2 1_555 C G 58 C O6 G 34 1_555 hydrog WATSON-CRICK C C 26 C O2 C 2 1_555 C G 58 C N2 G 34 1_555 hydrog WATSON-CRICK C G 27 C N1 G 3 1_555 C C 57 C N3 C 33 1_555 hydrog WATSON-CRICK C G 27 C N2 G 3 1_555 C C 57 C O2 C 33 1_555 hydrog WATSON-CRICK C G 27 C O6 G 3 1_555 C C 57 C N4 C 33 1_555 hydrog WATSON-CRICK C C 28 C N3 C 4 1_555 C G 56 C N1 G 32 1_555 hydrog WATSON-CRICK C C 28 C N4 C 4 1_555 C G 56 C O6 G 32 1_555 hydrog WATSON-CRICK C C 28 C O2 C 4 1_555 C G 56 C N2 G 32 1_555 hydrog WATSON-CRICK C A 29 C N1 A 5 1_555 C U 55 C N3 U 31 1_555 hydrog WATSON-CRICK C A 29 C N6 A 5 1_555 C U 55 C O4 U 31 1_555 hydrog WATSON-CRICK C C 30 C N3 C 6 1_555 C G 54 C N1 G 30 1_555 hydrog WATSON-CRICK C C 30 C N4 C 6 1_555 C G 54 C O6 G 30 1_555 hydrog WATSON-CRICK C C 30 C O2 C 6 1_555 C G 54 C N2 G 30 1_555 hydrog WATSON-CRICK C C 31 C N3 C 7 1_555 C G 51 C N1 G 27 1_555 hydrog WATSON-CRICK C C 31 C N4 C 7 1_555 C G 51 C O6 G 27 1_555 hydrog WATSON-CRICK C C 31 C O2 C 7 1_555 C G 51 C N2 G 27 1_555 hydrog C-A MISPAIR C C 31 C O2 C 7 1_555 C A 52 C N6 A 28 1_555 hydrog WATSON-CRICK C U 32 C N3 U 8 1_555 C A 50 C N1 A 26 1_555 hydrog WATSON-CRICK C U 32 C O4 U 8 1_555 C A 50 C N6 A 26 1_555 hydrog WATSON-CRICK C G 33 C N1 G 9 1_555 C C 49 C N3 C 25 1_555 hydrog WATSON-CRICK C G 33 C N2 G 9 1_555 C C 49 C O2 C 25 1_555 hydrog WATSON-CRICK C G 33 C O6 G 9 1_555 C C 49 C N4 C 25 1_555 hydrog WATSON-CRICK C A 34 C N1 A 10 1_555 C U 48 C N3 U 24 1_555 hydrog WATSON-CRICK C A 34 C N6 A 10 1_555 C U 48 C O4 U 24 1_555 hydrog C-C MISPAIR C C 36 C N4 C 12 1_555 C C 49 C O2 C 25 1_555 hydrog C-U MISPAIR C C 37 C N4 C 13 1_555 C U 48 C O2 U 24 1_555 hydrog WATSON-CRICK C C 38 C N3 C 14 1_555 C G 44 C N1 G 20 1_555 hydrog WATSON-CRICK C C 38 C N4 C 14 1_555 C G 44 C O6 G 20 1_555 hydrog WATSON-CRICK C C 38 C O2 C 14 1_555 C G 44 C N2 G 20 1_555 hydrog A-A MISPAIR C A 39 C N3 A 15 1_555 C A 46 C N6 A 22 1_555 hydrog U-A PAIR C U 40 C O2 U 16 1_555 C A 45 C N6 A 21 1_555 hydrog G-C PAIR C G 44 C N2 G 20 1_555 C C 47 C N3 C 23 1_555 hydrog WATSON-CRICK D C 26 D N3 C 2 1_555 D G 58 D N1 G 34 1_555 hydrog WATSON-CRICK D C 26 D N4 C 2 1_555 D G 58 D O6 G 34 1_555 hydrog WATSON-CRICK D C 26 D O2 C 2 1_555 D G 58 D N2 G 34 1_555 hydrog WATSON-CRICK D G 27 D N1 G 3 1_555 D C 57 D N3 C 33 1_555 hydrog WATSON-CRICK D G 27 D N2 G 3 1_555 D C 57 D O2 C 33 1_555 hydrog WATSON-CRICK D G 27 D O6 G 3 1_555 D C 57 D N4 C 33 1_555 hydrog WATSON-CRICK D C 28 D N3 C 4 1_555 D G 56 D N1 G 32 1_555 hydrog WATSON-CRICK D C 28 D N4 C 4 1_555 D G 56 D O6 G 32 1_555 hydrog WATSON-CRICK D C 28 D O2 C 4 1_555 D G 56 D N2 G 32 1_555 hydrog WATSON-CRICK D A 29 D N1 A 5 1_555 D U 55 D N3 U 31 1_555 hydrog WATSON-CRICK D A 29 D N6 A 5 1_555 D U 55 D O4 U 31 1_555 hydrog WATSON-CRICK D C 30 D N3 C 6 1_555 D G 54 D N1 G 30 1_555 hydrog WATSON-CRICK D C 30 D N4 C 6 1_555 D G 54 D O6 G 30 1_555 hydrog WATSON-CRICK D C 30 D O2 C 6 1_555 D G 54 D N2 G 30 1_555 hydrog WATSON-CRICK D C 31 D N3 C 7 1_555 D G 51 D N1 G 27 1_555 hydrog WATSON-CRICK D C 31 D N4 C 7 1_555 D G 51 D O6 G 27 1_555 hydrog WATSON-CRICK D C 31 D O2 C 7 1_555 D G 51 D N2 G 27 1_555 hydrog C-A MISPAIR D C 31 D O2 C 7 1_555 D A 53 D N6 A 29 1_555 hydrog WATSON-CRICK D U 32 D N3 U 8 1_555 D A 50 D N1 A 26 1_555 hydrog WATSON-CRICK D U 32 D O4 U 8 1_555 D A 50 D N6 A 26 1_555 hydrog WATSON-CRICK D G 33 D N1 G 9 1_555 D C 49 D N3 C 25 1_555 hydrog WATSON-CRICK D G 33 D N2 G 9 1_555 D C 49 D O2 C 25 1_555 hydrog WATSON-CRICK D G 33 D O6 G 9 1_555 D C 49 D N4 C 25 1_555 hydrog WATSON-CRICK D A 34 D N1 A 10 1_555 D U 48 D N3 U 24 1_555 hydrog WATSON-CRICK D A 34 D N6 A 10 1_555 D U 48 D O4 U 24 1_555 hydrog C-U MISPAIR D C 37 D N4 C 13 1_555 D U 48 D O2 U 24 1_555 hydrog WATSON-CRICK D C 38 D N3 C 14 1_555 D G 44 D N1 G 20 1_555 hydrog WATSON-CRICK D C 38 D N4 C 14 1_555 D G 44 D O6 G 20 1_555 hydrog WATSON-CRICK D C 38 D O2 C 14 1_555 D G 44 D N2 G 20 1_555 hydrog A-A MISPAIR D A 39 D N3 A 15 1_555 D A 46 D N6 A 22 1_555 hydrog U-A PAIR D U 40 D O2 U 16 1_555 D A 45 D N6 A 21 1_555 hydrog G-C PAIR D G 44 D N2 G 20 1_555 D C 47 D N3 C 23 1_555 hydrog G-A MISPAIR D G 51 D N3 G 27 1_555 D A 53 D N6 A 29 1_555 RNA Cy5, fluorophore, RNA RL5_THETH UNP 1 5 P41201 VALKRKYYEEVRPELIRRFGYQNVWEVPRLEKVVINQGLGEAKEDARILEKAAQELALITGQKPAVTRAKKSISNFKLRK GMPIGLRVTLRRDRMWIFLEKLLNVALPRIRDFRGLNPNSFDGRGNYNLGLREQLIFPEITYDMVDALRGMDIAVVTTAE TDEEARALLELLGFPFR 5NS3 PDB 2 1 5NS3 5 181 5NS3 5 181 P41201 A 1 1 177 5 181 5NS3 5 181 P41201 B 1 1 177 25 58 5NS3 25 58 5NS3 C 2 1 34 25 58 5NS3 25 58 5NS3 D 2 1 34 5 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A ALA 69 A ALA 65 A THR 71 A THR 67 A GLY 89 A GLY 85 A LEU 94 A LEU 90 A LEU 34 A LEU 30 A GLY 42 A GLY 38 A MET 155 A MET 151 A THR 161 A THR 157 A TYR 131 A TYR 127 A GLY 134 A GLY 130 B ALA 69 B ALA 65 B ARG 72 B ARG 68 B PRO 87 B PRO 83 B LEU 94 B LEU 90 B LEU 34 B LEU 30 B ASN 40 B ASN 36 B ASP 156 B ASP 152 B THR 161 B THR 157 B TYR 131 B TYR 127 B GLY 134 B GLY 130 18 P 21 21 2