Motif IL_92788.1 Version IL_92788.1 of this group appears in releases 3.77 to 3.79
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | break | 6 | 7 | 8 | 1-8 | 2-4 | 2-6 | 2-7 | 3-8 | 4-7 | 5-6 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_4V88_451 | 4V88 | 0.8915 | 2 | Minor groove platform with extra cWW | A6 | SSU rRNA | U | 1430 | C | 1431 | G | 1433 | U | 1434 | A | 1436 | * | U | 1276 | G | 1277 | G | 1278 | cWW | tHS | ncWWa | cWW | |||
| 2 | IL_5UNE_002 | 5UNE | 0.5265 | 1 | Isolated basepair with bulged bases | B+A | RNA (47-MER) | C | 33 | G | 34 | G | 35 | A | 37 | A | 38 | * | U | 10 | G | 11 | G | 12 | cWW | ntSH | cWW | ||||
| 3 | IL_6CZR_172 | 6CZR | 0.4514 | 1 | Isolated basepair with bulged bases | 1a | SSU rRNA | C | 1423 | G | 1424 | G | 1425 | A | 1427 | G | 1428 | * | C | 1437 | A | 1438 | G | 1439 | cWW | tSH | cWW | ||||
| 4 | IL_4LFB_064 | 4LFB | 0.4587 | 1 | A | SSU rRNA | C | 1440 | G | 1441 | G | 1442 | A | 1446 | G | 1447 | * | C | 1459 | A | 1460 | G | 1461 | cWW | tSH | cWW | |||||
| 5 | IL_1XJR_001 | 1XJR | 0.0000 | 0 | Isolated basepair with bulged bases | A | s2m RNA | C | 9 | C | 10 | G | 11 | A | 12 | G | 13 | * | C | 39 | A | 40 | G | 41 | cWW | cWW | |||||
| 6 | IL_4GXY_009 | 4GXY | 0.5504 | 0 | Major groove minor groove platform with extra cWW | A | Adenosylcobalamin riboswitch | G | 122 | G | 123 | A | 124 | A | 125 | G | 126 | * | C | 105 | A | 106 | C | 107 | cWW | ntSH | ntHS | cWW | |||
| 7 | IL_4WF9_012 | 4WF9 | 0.5281 | 0 | Major groove minor groove platform with extra cWW | X | LSU rRNA | G | 409 | G | 410 | A | 411 | U | 412 | C | 413 | * | G | 304 | A | 305 | C | 306 | cWW | ncWB | ncWS | ncWW | |||
| 8 | IL_7RQB_094 | 7RQB | 0.7009 | 0 | Major groove minor groove platform with extra cWW | 1A | LSU rRNA | G | 2489 | G | 2490 | U | 2491 | U | 2492 | U | 2493 | * | A | 2459 | U | 2460 | C | 2461 | cWW | cSH | cWw | cWW | |||
| 9 | IL_4WF9_092 | 4WF9 | 0.7297 | 0 | Major groove minor groove platform with extra cWW | X | LSU rRNA | G | 2516 | G | 2517 | U | 2518 | U | 2519 | U | 2520 | * | A | 2486 | U | 2487 | C | 2488 | cWW | cSH | cWw | cWW | |||
| 10 | IL_7A0S_086 | 7A0S | 0.7513 | 0 | Major groove minor groove platform with extra cWW | X | LSU rRNA | G | 2468 | G | 2469 | U | 2470 | U | 2471 | U | 2472 | * | A | 2438 | U | 2439 | C | 2440 | cWW | cSH | ncWB | cWw | cWW | ||
| 11 | IL_4V9F_084 | 4V9F | 0.7791 | 0 | Major groove minor groove platform with extra cWW | 0 | LSU rRNA | G | 2524 | G | 2525 | C | 2526 | U | 2527 | U | 2528 | * | G | 2494 | U | 2495 | C | 2496 | cWW | cSH | cWw | cWW | |||
| 12 | IL_5J7L_337 | 5J7L | 0.6887 | 0 | Major groove minor groove platform with extra cWW | DA | LSU rRNA | U | 2489 | G | 2490 | U | 2491 | U | 2492 | U | 2493 | * | A | 2459 | U | 2460 | A | 2461 | cWW | cSH | cWw | cWW | |||
| 13 | IL_5TBW_105 | 5TBW | 0.8012 | 0 | Major groove minor groove platform with extra cWW | 1 | LSU rRNA | U | 2858 | U | 2859 | U | 2860 | U | 2861 | U | 2862 | * | G | 2828 | U | 2829 | G | 2830 | cWW | ncWH | cWw | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GGUUU*AUC | 3 |
| CGGGAG*CAG | 2 |
| UCUGUGA*UGG | 1 |
| CGGAAA*UGG | 1 |
| CCGAG*CAG | 1 |
| GGAAG*CAC | 1 |
| GGAUC*GAC | 1 |
| GGCUU*GUC | 1 |
| UGUUU*AUA | 1 |
| UUUUU*GUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GUU*U | 4 |
| GGGA*A | 2 |
| CUGUG*G | 1 |
| GGAA*G | 1 |
| CGA*A | 1 |
| GAA*A | 1 |
| GAU*A | 1 |
| GCU*U | 1 |
| UUU*U | 1 |
- Annotations
-
- Major groove minor groove platform with extra cWW (8)
- Isolated basepair with bulged bases (3)
- (1)
- Minor groove platform with extra cWW (1)
- Basepair signature
- cWW-L-R-L-L-cWW
- Heat map statistics
- Min 0.09 | Avg 0.59 | Max 0.99
Coloring options: