Motif HL_08002.9 Version HL_08002.9 of this group appears in releases 3.83 to 3.86
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | 2-3 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_8UIW_002 | 8UIW | 0.2772 | 4 | N | yjdF RNA (R. gauvreauii) | G | 50 | U | 51 | A | 56 | G | 57 | U | 58 | C | 59 | cWW | tWH | |
| 2 | HL_4FRN_007 | 4FRN | 0.2095 | 3 | B | Cobalamin riboswitch aptamer domain | G | 56 | U | 57 | A | 61 | C | 62 | U | 63 | C | 64 | cWW | tWH | |
| 3 | HL_4FRG_003 | 4FRG | 0.1421 | 3 | B | cobalamin riboswitch aptamer domain | G | 58 | U | 59 | A | 63 | C | 64 | U | 65 | C | 66 | cWW | tWH | |
| 4 | HL_6DN2_004 | 6DN2 | 0.0736 | 2 | Y | RNA (56-MER) | G | 88 | U | 89 | A | 92 | G | 93 | U | 94 | C | 95 | cWW | tWH | |
| 5 | HL_3F2X_005 | 3F2X | 0.0637 | 2 | X | FMN riboswitch | G | 88 | U | 89 | A | 92 | G | 93 | U | 94 | C | 95 | cWW | tWH | |
| 6 | HL_5C45_004 | 5C45 | 0.0000 | 2 | Y | FMN Riboswitch | G | 88 | U | 89 | A | 92 | G | 93 | U | 94 | C | 95 | cWW | tWH | |
| 7 | HL_5C45_002 | 5C45 | 0.1458 | 2 | X | FMN Riboswitch | G | 36 | U | 37 | A | 40 | G | 41 | U | 42 | C | 43 | cWW | tWH | |
| 8 | HL_3F2X_002 | 3F2X | 0.1815 | 2 | X | FMN riboswitch | G | 36 | U | 37 | A | 40 | G | 41 | U | 42 | C | 43 | cWW | tWH | |
| 9 | HL_6DN2_002 | 6DN2 | 0.1906 | 2 | X | RNA RIBOSWITCH | G | 36 | U | 37 | A | 40 | G | 41 | U | 42 | C | 43 | cWW | tWH | |
| 10 | HL_4OJI_002 | 4OJI | 0.3573 | 4 | A | RNA (52-MER) | G | 23 | U | 24 | A | 29 | G | 30 | C | 31 | C | 32 | cWW | tWH | |
| 11 | HL_4RGE_003 | 4RGE | 0.3573 | 4 | C | env22 twister ribozyme | G | 29 | U | 30 | A | 35 | G | 36 | C | 37 | C | 38 | cWW | tWH | |
| 12 | HL_5J7L_144 | 5J7L | 0.3698 | 3 | DA | LSU rRNA | G | 327 | U | 328 | A | 332 | G | 333 | C | 334 | C | 335 | cWW | tWH | |
| 13 | HL_5TBW_007 | 5TBW | 0.4056 | 3 | 1 | LSU rRNA | G | 216 | U | 217 | A | 221 | A | 222 | U | 223 | C | 224 | cWW | tWH | |
| 14 | HL_8C3A_007 | 8C3A | 0.4189 | 3 | 1 | LSU rRNA | G | 215 | U | 216 | A | 220 | A | 221 | U | 222 | C | 223 | cWW | tWH | |
| 15 | HL_7RQB_012 | 7RQB | 0.4068 | 3 | 1A | LSU rRNA | G | 327 | U | 328 | A | 332 | G | 333 | C | 334 | C | 335 | cWW | tWH | |
| 16 | HL_4V9F_012 | 4V9F | 0.4223 | 3 | 0 | LSU rRNA | G | 334 | U | 335 | A | 339 | A | 340 | C | 341 | C | 342 | cWW | tWH | |
| 17 | HL_4WF9_012 | 4WF9 | 0.4282 | 3 | X | LSU rRNA | G | 370 | U | 371 | A | 375 | A | 376 | U | 377 | C | 378 | cWW | ntWH | |
| 18 | HL_4QJD_004 | 4QJD | 0.3807 | 4 | D | Twister RNA sequence | G | 43 | U | 44 | A | 49 | G | 50 | C | 51 | C | 52 | cWW | ntWW | |
| 19 | HL_7A0S_012 | 7A0S | 0.5792 | 3 | X | LSU rRNA | G | 338 | U | 339 | A | 343 | G | 344 | U | 345 | C | 346 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GUAGAGUC | 3 |
| GUAUAGUC | 3 |
| GUUAUACUC | 2 |
| GUCCCAAGCC | 2 |
| GUGAGAAUC | 2 |
| GUAGGUAGUC | 1 |
| GUCCUAAGCC | 1 |
| GUGACAGCC | 1 |
| GUGAAAGCC | 1 |
| GUGACAACC | 1 |
| GUAAUAAUC | 1 |
| GUGAGAGUC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UAGAGU | 3 |
| UAUAGU | 3 |
| UUAUACU | 2 |
| UCCCAAGC | 2 |
| UGAGAAU | 2 |
| UAGGUAGU | 1 |
| UCCUAAGC | 1 |
| UGACAGC | 1 |
| UGAAAGC | 1 |
| UGACAAC | 1 |
| UAAUAAU | 1 |
| UGAGAGU | 1 |
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