Motif IL_95485.5 Version IL_95485.5 of this group appears in releases 3.48 to 3.53
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | break | 5 | 6 | 7 | 1-7 | 2-3 | 2-6 | 3-6 | 4-5 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_5TBW_056 | 5TBW | 0.3697 | 1 | Major groove platform with extra cWW | 1 | LSU rRNA | G | 1262 | G | 1264 | U | 1265 | G | 1266 | * | C | 1275 | U | 1276 | C | 1277 | cWW | ncSH | cWw | ncWW | |
| 2 | IL_1MMS_002 | 1MMS | 0.2436 | 1 | Major groove platform with extra cWW | C | 23S RIBOSOMAL RNA | G | 1087 | G | 1089 | U | 1090 | G | 1091 | * | C | 1100 | U | 1101 | C | 1102 | cWW | cSH | cWw | cWW | |
| 3 | IL_5D8H_003 | 5D8H | 0.2244 | 1 | Major groove platform with extra cWW | A | LSU rRNA | G | 1197 | G | 1199 | U | 1200 | G | 1201 | * | C | 1210 | U | 1211 | C | 1212 | cWW | cSH | cWw | cWW | |
| 4 | IL_7A0S_019 | 7A0S | 0.0867 | 0 | Major groove platform with extra cWW | X | LSU rRNA | G | 751 | G | 752 | U | 753 | G | 754 | * | C | 769 | U | 770 | C | 771 | cWW | cSH | cWw | cWW | |
| 5 | IL_4Y4O_199 | 4Y4O | 0.0000 | 0 | Major groove platform with extra cWW (H) | 2A | LSU rRNA | G | 738 | G | 739 | U | 740 | G | 741 | * | C | 756 | U | 757 | C | 758 | cWW | cSH | cWw | cWW | |
| 6 | IL_4V9F_028 | 4V9F | 0.1345 | 0 | Major groove platform with extra cWW | 0 | LSU rRNA | G | 830 | U | 831 | U | 832 | G | 833 | * | C | 849 | U | 850 | C | 851 | cWW | cSH | cWw | cWW | |
| 7 | IL_4V88_397 | 4V88 | 0.2054 | 1 | Major groove platform with extra cWW | A6 | SSU rRNA | U | 259 | U | 261 | U | 262 | C | 263 | * | G | 204 | U | 205 | A | 206 | cWW | cSH | cWw | cWW | |
| 8 | IL_5TBW_031 | 5TBW | 0.1802 | 0 | Major groove platform with extra cWW | 1 | LSU rRNA | G | 869 | G | 870 | U | 871 | U | 872 | * | A | 888 | U | 889 | C | 890 | cWW | cSH | cWw | cWW | |
| 9 | IL_4Y4O_269 | 4Y4O | 0.2738 | 1 | Major groove minor groove platform with extra cWW (H) | 2A | LSU rRNA | G | 2489 | G | 2490 | U | 2492 | U | 2493 | * | A | 2459 | U | 2460 | C | 2461 | cWW | ncSH | ncWB | cWw | cWW |
| 10 | IL_4V9F_003 | 4V9F | 0.4542 | 0 | Major groove platform with extra cWW | 0 | LSU rRNA | C | 440 | A | 441 | A | 442 | C | 443 | * | G | 39 | C | 40 | G | 41 | cWW | cSH | cWWa | ncWW | cWW |
| 11 | IL_3PDR_004 | 3PDR | 0.5098 | 0 | Major groove platform with extra cWW | X | M-box riboswitch (ykoK leader) | C | 33 | U | 34 | C | 35 | C | 36 | * | G | 149 | U | 150 | G | 151 | cWW | cSH | cwW | cWW | |
| 12 | IL_1XJR_001 | 1XJR | 0.7557 | 1 | Isolated basepair with bulged bases | A | s2m RNA | C | 9 | C | 10 | A | 12 | G | 13 | * | C | 39 | A | 40 | G | 41 | cWW | cWW | |||
| 13 | IL_5UNE_002 | 5UNE | 0.8740 | 2 | Isolated basepair with bulged bases | B+A | RNA (47-MER) | C | 33 | G | 34 | G | 35 | A | 38 | * | U | 10 | G | 11 | G | 12 | cWW | ntSH | cWW | ||
| 14 | IL_6CZR_172 | 6CZR | 0.8718 | 2 | Isolated basepair with bulged bases | 1a | SSU rRNA | C | 1423 | G | 1424 | G | 1425 | G | 1428 | * | C | 1437 | A | 1438 | G | 1439 | cWW | tSH | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GAGUG*CUC | 3 |
| GGUG*CUC | 2 |
| GUUG*CUC | 1 |
| UUUUC*GUA | 1 |
| GGUU*AUC | 1 |
| GGUUU*AUC | 1 |
| CAAC*GCG | 1 |
| CUCC*GUG | 1 |
| CCGAG*CAG | 1 |
| CGGAAA*UGG | 1 |
| CGGGAG*CAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AGU*U | 3 |
| GU*U | 3 |
| UU*U | 1 |
| UUU*U | 1 |
| GUU*U | 1 |
| AA*C | 1 |
| UC*U | 1 |
| CGA*A | 1 |
| GGAA*G | 1 |
| GGGA*A | 1 |
- Annotations
-
- Major groove platform with extra cWW (9)
- Isolated basepair with bulged bases (3)
- Major groove platform with extra cWW (H) (1)
- Major groove minor groove platform with extra cWW (H) (1)
- Basepair signature
- cWW-cSH-cWW-cWW
- Heat map statistics
- Min 0.09 | Avg 0.51 | Max 0.99
Coloring options: