Motif HL_01609.2 Version HL_01609.2 of this group appears in releases 3.93 to 3.94
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 1-7 | 2-6 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_6UGI_001 | 6UGI | 0.3254 | 2 | T-loop with 2 bulged bases not stacked | A | tRNA(Asp) acceptor stem/T stem-loop | G | 12 | U | 13 | U | 14 | C | 15 | G | 16 | A | 17 | C | 20 | cWW | tWH |
| 2 | HL_3VJR_001 | 3VJR | 0.3652 | 2 | T-loop with 2 bulged bases not stacked | B | tRNA CCA-acceptor | G | 13 | U | 14 | U | 15 | C | 16 | G | 17 | A | 18 | C | 21 | cWW | tWH |
| 3 | HL_8P9A_117 | 8P9A | 0.1622 | 1 | T-loop with 2 stacked bulged bases (H) | AR | LSU rRNA | U | 194 | U | 195 | G | 196 | G | 197 | A | 198 | A | 199 | A | 201 | cWW | tWH |
| 4 | HL_4V9F_010 | 4V9F | 0.1181 | 1 | T-loop with 2 stacked bulged bases | 0 | LSU rRNA | U | 312 | U | 313 | G | 314 | G | 315 | A | 316 | A | 317 | A | 319 | cWW | tWH |
| 5 | HL_6DN2_001 | 6DN2 | 0.0808 | 2 | T-loop with 2 bulged bases not stacked | X | RNA RIBOSWITCH | G | 17 | U | 18 | G | 19 | A | 20 | A | 21 | A | 22 | C | 25 | cWW | tWH |
| 6 | HL_3F2X_001 | 3F2X | 0.0000 | 2 | T-loop with 2 bulged bases not stacked | X | FMN riboswitch | G | 17 | U | 18 | G | 19 | A | 20 | A | 21 | A | 22 | C | 25 | cWW | tWH |
| 7 | HL_3F2X_004 | 3F2X | 0.1154 | 2 | T-loop with 2 bulged bases not stacked | X | FMN riboswitch | G | 68 | U | 69 | G | 70 | A | 71 | A | 72 | A | 73 | C | 76 | cWW | tWH |
| 8 | HL_6DN2_003 | 6DN2 | 0.1097 | 2 | T-loop with 2 bulged bases not stacked | Y | RNA (56-MER) | G | 68 | U | 69 | G | 70 | A | 71 | A | 72 | A | 73 | C | 76 | cWW | tWH |
| 9 | HL_4FRG_001 | 4FRG | 0.1179 | 2 | T-loop with 2 bulged bases not stacked | B | cobalamin riboswitch aptamer domain | G | 28 | U | 29 | G | 30 | A | 31 | A | 32 | A | 33 | C | 36 | cWW | tWH |
| 10 | HL_4FRN_005 | 4FRN | 0.1386 | 2 | T-loop with 2 bulged bases not stacked | B | Cobalamin riboswitch aptamer domain | G | 28 | U | 29 | G | 30 | U | 31 | A | 32 | A | 33 | C | 36 | cWW | tWH |
| 11 | HL_7A0S_010 | 7A0S | 0.1277 | 1 | T-loop with 1 bulged base | X | LSU rRNA | C | 316 | U | 317 | G | 318 | G | 319 | A | 320 | A | 321 | G | 323 | cWW | tWH |
| 12 | HL_5J7L_142 | 5J7L | 0.1271 | 1 | T-loop with 2 stacked bulged bases | DA | LSU rRNA | C | 305 | U | 306 | G | 307 | G | 308 | A | 309 | A | 310 | G | 312 | cWW | tWH |
| 13 | HL_5DH6_002 | 5DH6 | 0.1374 | 1 | T-loop with 2 stacked bulged bases | A | hammerhead ribozyme | C | 27 | U | 28 | G | 29 | G | 30 | G | 31 | A | 32 | G | 34 | cWW | tWH |
| 14 | HL_9DFE_009 | 9DFE | 0.2377 | 1 | T-loop with 1 bulged base (H) | 1A | LSU rRNA | U | 305 | U | 306 | G | 307 | G | 308 | G | 309 | A | 310 | G | 312 | cWW | tWH |
| 15 | HL_4WF9_010 | 4WF9 | 0.2030 | 1 | T-loop with 2 stacked bulged bases | X | LSU rRNA | C | 348 | U | 349 | G | 350 | G | 351 | A | 352 | A | 353 | G | 355 | cWW | tWH |
| 16 | HL_2A64_002 | 2A64 | 0.2998 | 1 | T-loop with 2 stacked bulged bases | A | ribonuclease P RNA | C | 69 | U | 70 | G | 71 | A | 72 | G | 73 | A | 74 | G | 76 | cWW | tWH |
| 17 | HL_8C3A_225 | 8C3A | 0.5745 | 2 | CM | SSU rRNA | G | 1581 | U | 1582 | C | 1583 | U | 1585 | C | 1586 | A | 1587 | C | 1589 | cWW | tWH |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GUGAAAUUC | 5 |
| CUGGAAAG | 3 |
| GUUCGAGUC | 1 |
| GUUCGAUCC | 1 |
| UUGGAACA | 1 |
| UUGGAAUA | 1 |
| GUGUAAUUC | 1 |
| CUGGGAUG | 1 |
| UUGGGAAG | 1 |
| CUGAGAUG | 1 |
| GUCAUCAGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UGAAAUU | 5 |
| UGGAAA | 3 |
| UUCGAGU | 1 |
| UUCGAUC | 1 |
| UGGAAC | 1 |
| UGGAAU | 1 |
| UGUAAUU | 1 |
| UGGGAU | 1 |
| UGGGAA | 1 |
| UGAGAU | 1 |
| UCAUCAG | 1 |
- Annotations
-
- T-loop with 2 bulged bases not stacked (8)
- T-loop with 2 stacked bulged bases (5)
- T-loop with 1 bulged base (1)
- (1)
- T-loop with 2 stacked bulged bases (H) (1)
- T-loop with 1 bulged base (H) (1)
- Basepair signature
- cWW-tWH-F-F-F
- Heat map statistics
- Min 0.08 | Avg 0.26 | Max 0.81
Coloring options: