Motif J3_30040.1 Version J3_30040.1 of this group appears in releases 3.91 to 3.92
| #S | Loop id | PDB | Disc | #Non-core | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | break | 16 | 17 | 18 | 19 | 20 | 21 | break | 22 | 23 | 24 | 1-4 | 1-24 | 2-9 | 3-23 | 4-9 | 5-24 | 7-11 | 11-19 | 12-13 | 13-18 | 14-17 | 15-16 | 21-22 | ||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | J3_4WF9_012 | 4WF9 | 0.1753 | 3 | X | LSU rRNA | C | 491 | G | 492 | A | 493 | A | 495 | G | 496 | U | 497 | G | 498 | A | 499 | A | 500 | C | 501 | A | 503 | G | 504 | U | 505 | A | 506 | C | 507 | * | G | 514 | G | 515 | A | 516 | A | 517 | A | 518 | G | 519 | * | C | 32 | U | 33 | G | 35 | cWW | tSW | tHW | tWH | ntSS | cSH | tWH | cWW | cWW | ||||
| 2 | J3_9DFE_003 | 9DFE | 0.1461 | 3 | 1A | LSU rRNA | C | 445 | G | 446 | A | 447 | A | 449 | G | 450 | C | 451 | G | 452 | C | 453 | A | 454 | C | 455 | A | 457 | G | 458 | U | 459 | A | 460 | C | 461 | * | G | 468 | G | 469 | A | 470 | A | 471 | A | 472 | G | 473 | * | C | 32 | U | 33 | G | 35 | ncSs | cWW | tSW | tHW | tWH | tSS | tsS | tHH | cSH | tWH | tHS | cWW | cWW |
| 3 | J3_4V9F_013 | 4V9F | 0.0000 | 3 | 0 | LSU rRNA | C | 451 | G | 452 | A | 453 | A | 455 | G | 456 | U | 457 | G | 458 | A | 459 | A | 460 | C | 461 | A | 463 | G | 464 | U | 465 | A | 466 | G | 467 | * | C | 474 | G | 475 | A | 476 | A | 477 | C | 478 | G | 479 | * | C | 29 | U | 30 | G | 32 | ncSs | cWW | tSW | tHW | tWH | tSS | tsS | tHH | cSH | tWH | tHS | cWW | cWW |
| 4 | J3_5J7L_067 | 5J7L | 0.0993 | 3 | DA | LSU rRNA | C | 445 | G | 446 | A | 447 | A | 449 | G | 450 | U | 451 | G | 452 | A | 453 | A | 454 | C | 455 | A | 457 | G | 458 | U | 459 | A | 460 | C | 461 | * | G | 468 | G | 469 | A | 470 | A | 471 | A | 472 | G | 473 | * | C | 32 | C | 33 | G | 35 | ncSs | cWW | tSW | tHW | tWH | tSS | tSs | tHH | cSH | tWH | tHS | cWW | cWW |
| 5 | J3_8P9A_045 | 8P9A | 0.1025 | 3 | AR+AT | LSU rRNA + 5.8S rRNA | C | 340 | G | 341 | A | 342 | A | 344 | G | 345 | C | 346 | G | 347 | A | 348 | A | 349 | C | 350 | A | 352 | G | 353 | U | 354 | A | 355 | C | 356 | * | G | 363 | G | 364 | A | 365 | A | 366 | A | 367 | G | 368 | * | C | 21 | U | 22 | G | 24 | cSs | cWW | tSW | tHW | ntWH | tSS | tsS | tHH | cSH | tWH | tHS | cWW | cWW |
| 6 | J3_7A0S_016 | 7A0S | 0.3981 | 2 | X | LSU rRNA | C | 457 | G | 458 | A | 459 | A | 461 | G | 462 | C | 463 | G | 464 | C | 465 | A | 466 | U | 467 | A | 468 | G | 469 | U | 470 | A | 471 | C | 472 | * | G | 479 | G | 480 | A | 481 | A | 482 | A | 483 | G | 484 | * | C | 32 | C | 33 | G | 35 | cSs | cWW | tSW | tHW | ntWH | tSS | tsS | tHH | cSH | tWH | tHS | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CUUG*CGAUAGUGAACCAGUAC*GGAAAG | 1 |
| CUCG*CGAUAGCGCACCAGUAC*GGAAAG | 1 |
| CUCG*CGAUAGUGAACAAGUAG*CGAACG | 1 |
| CCUG*CGAUAGUGAACCAGUAC*GGAAAG | 1 |
| CGAUAGCGAACAAGUAC*GGAAAG*CUUG | 1 |
| CCUG*CGAUAGCGCAUAGUAC*GGAAAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UU*GAUAGUGAACCAGUA*GAAA | 1 |
| UC*GAUAGCGCACCAGUA*GAAA | 1 |
| UC*GAUAGUGAACAAGUA*GAAC | 1 |
| CU*GAUAGUGAACCAGUA*GAAA | 1 |
| GAUAGCGAACAAGUA*GAAA*UU | 1 |
| CU*GAUAGCGCAUAGUA*GAAA | 1 |
- Annotations
-
- (6)
- Basepair signature
- cWW-cSS-tSS-tSW-tHW-cWW-tWH-F-F-tHH-tSS-tWH-F-tHS-cWW-F-cSH
- Heat map statistics
- Min 0.08 | Avg 0.19 | Max 0.40
Coloring options: