Motif HL_40756.1 Version HL_40756.1 of this group appears in releases 3.89 to 3.90
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 1-5 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_8VTW_037 | 8VTW | 0.2947 | 2 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW |
| 2 | HL_5J7L_170 | 5J7L | 0.2118 | 2 | Pseudoknot geometry with 3' bulge | DA | LSU rRNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW |
| 3 | HL_5TBW_032 | 5TBW | 0.2462 | 2 | Pseudoknot geometry with 3' bulge | 1 | LSU rRNA | A | 1506 | C | 1508 | A | 1509 | G | 1510 | U | 1512 | cWW |
| 4 | HL_8C3A_032 | 8C3A | 0.2680 | 2 | Pseudoknot geometry with 3' bulge | 1 | LSU rRNA | A | 1502 | C | 1504 | A | 1505 | G | 1506 | U | 1508 | cWW |
| 5 | HL_7A0S_033 | 7A0S | 0.1664 | 2 | Pseudoknot geometry with 3' bulge | X | LSU rRNA | G | 1337 | U | 1339 | C | 1340 | G | 1341 | C | 1343 | cWW |
| 6 | HL_8VTW_033 | 8VTW | 0.1596 | 2 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1324 | U | 1326 | C | 1327 | G | 1328 | C | 1330 | cWW |
| 7 | HL_4WF9_033 | 4WF9 | 0.1382 | 2 | Pseudoknot geometry with 3' bulge | X | LSU rRNA | G | 1361 | U | 1363 | C | 1364 | G | 1365 | C | 1367 | cWW |
| 8 | HL_4V9F_035 | 4V9F | 0.0000 | 2 | Pseudoknot geometry with 3' bulge | 0 | LSU rRNA | G | 1430 | U | 1432 | G | 1433 | A | 1434 | C | 1436 | cWW |
| 9 | HL_5J7L_166 | 5J7L | 0.2328 | 2 | Pseudoknot geometry with 3' bulge | DA | LSU rRNA | G | 1324 | U | 1326 | A | 1327 | A | 1328 | C | 1330 | cWW |
| 10 | HL_7A0S_073 | 7A0S | 0.3758 | 1 | Pseudoknot geometry with 3' bulge | X | LSU rRNA | U | 1647 | C | 1648 | A | 1649 | A | 1650 | G | 1652 | ncWW |
| 11 | HL_8VTW_040 | 8VTW | 0.4359 | 1 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | C | 1631 | A | 1631|||A | A | 1632 | G | 1633 | G | 1635 | cWW |
| 12 | HL_5NDI_002 | 5NDI | 0.3919 | 1 | Pseudoknot geometry with 3' bulge | B | RNA (20-mer) | G | 8 | A | 9 | C | 10 | G | 11 | C | 13 | cWW |
| 13 | HL_5VJ9_003 | 5VJ9 | 0.3745 | 1 | Pseudoknot geometry with 3' bulge | C | RNA (16-mer) | G | 6 | A | 7 | C | 8 | G | 9 | C | 11 | cWW |
| 14 | HL_5NDH_001 | 5NDH | 0.4027 | 1 | Pseudoknot geometry with 3' bulge | A | RNA (16-mer) | G | 6 | A | 7 | C | 8 | G | 9 | C | 11 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GACGAC | 3 |
| GCAAAUC | 2 |
| AGCAGUU | 2 |
| GGUCGUC | 2 |
| GCUCGUC | 1 |
| GCUGAUC | 1 |
| GUUAAUC | 1 |
| UCAAUG | 1 |
| CAAGAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| ACGA | 3 |
| CAAAU | 2 |
| GCAGU | 2 |
| GUCGU | 2 |
| CUCGU | 1 |
| CUGAU | 1 |
| UUAAU | 1 |
| CAAU | 1 |
| AAGA | 1 |
- Annotations
-
- Pseudoknot geometry with 3' bulge (14)
- Basepair signature
- cWW-F-F-F
- Heat map statistics
- Min 0.06 | Avg 0.34 | Max 0.63
Coloring options: