Motif HL_49081.1 Version HL_49081.1 of this group appears in releases 4.0 to 4.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 1-5 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_9AXU_029 | 9AXU | 0.2797 | 2 | Pseudoknot geometry with 3' bulge (H) | 2 | LSU rRNA | A | 1540 | C | 1542 | A | 1543 | G | 1544 | U | 1546 | cWW |
| 2 | HL_8OI5_028 | 8OI5 | 0.2873 | 2 | Pseudoknot geometry with 3' bulge (H) | 1 | LSU rRNA | A | 1502 | C | 1504 | A | 1505 | G | 1506 | U | 1508 | cWW |
| 3 | HL_8P9A_144 | 8P9A | 0.2638 | 2 | Pseudoknot geometry with 3' bulge | AR | LSU rRNA | A | 1506 | C | 1508 | A | 1509 | G | 1510 | U | 1512 | cWW |
| 4 | HL_8GLP_034 | 8GLP | 0.2354 | 2 | Pseudoknot geometry with 3' bulge (H) | L5 | LSU rRNA | A | 2420 | OMC | 2422 | A | 2423 | OMG | 2424 | U | 2426 | cWW |
| 5 | HL_9DFE_036 | 9DFE | 0.2698 | 2 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW |
| 6 | HL_8B0X_065 | 8B0X | 0.1987 | 2 | Pseudoknot geometry with 3' bulge (H) | a | LSU rRNA | G | 1494 | A | 1496 | A | 1497 | A | 1498 | C | 1500 | cWW |
| 7 | HL_8B0X_061 | 8B0X | 0.1812 | 2 | Pseudoknot geometry with 3' bulge (H) | a | LSU rRNA | G | 1326 | U | 1328 | A | 1329 | A | 1330 | C | 1332 | 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_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 |
| 10 | HL_9DFE_032 | 9DFE | 0.1766 | 2 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1324 | U | 1326 | C | 1327 | G | 1328 | C | 1330 | cWW |
| 11 | 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 |
| 12 | HL_9E6Q_032 | 9E6Q | 0.1691 | 2 | Pseudoknot geometry with 3' bulge (H) | 1 | LSU rRNA | U | 1453 | C | 1455 | A | 1456 | A | 1457 | A | 1459 | 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_002 | 5NDH | 0.3924 | 1 | Pseudoknot geometry with 3' bulge | B | RNA (16-mer) | G | 6 | A | 7 | C | 8 | G | 9 | C | 11 | cWW |
| 15 | 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 |
| 16 | HL_9DFE_039 | 9DFE | 0.4430 | 1 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | C | 1631 | A | 1631|||A | A | 1632 | G | 1633 | G | 1635 | cWW |
| 17 | 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 |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| AGCAGUU | 3 |
| GACGAC | 3 |
| GCAAAUC | 2 |
| GGUCGUC | 2 |
| AGAUU | 1 |
| GUUAAUC | 1 |
| GCUGAUC | 1 |
| GCUCGUC | 1 |
| UUCAAUA | 1 |
| CAAGAG | 1 |
| UCAAUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GCAGU | 3 |
| ACGA | 3 |
| CAAAU | 2 |
| GUCGU | 2 |
| G(OMC)A(OMG)U | 1 |
| UUAAU | 1 |
| CUGAU | 1 |
| CUCGU | 1 |
| UCAAU | 1 |
| AAGA | 1 |
| CAAU | 1 |
Release history
| Release | 4.0 |
|---|---|
| Date | 2025-08-13 |
| Status | New id, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Pseudoknot geometry with 3' bulge (11)
- Pseudoknot geometry with 3' bulge (H) (6)
- Basepair signature
- cWW-F-F-F
- Heat map statistics
- Min 0.07 | Avg 0.33 | Max 0.63
Coloring options: