Motif HL_96598.2 Version HL_96598.2 of this group appears in releases 3.87 to 3.87
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 1-2 | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4WF9_002 | 4WF9 | 0.8117 | 7 | Pseudoknot geometry | X | LSU rRNA | U | 87 | A | 95 | cWW |
| 2 | HL_4V9F_002 | 4V9F | 0.8534 | 7 | Pseudoknot geometry | 0 | LSU rRNA | C | 83 | G | 91 | cWW |
| 3 | HL_8VTW_002 | 8VTW | 0.7676 | 7 | Pseudoknot geometry | 1A | LSU rRNA | C | 87 | G | 95 | cWW |
| 4 | HL_8C3A_022 | 8C3A | 0.3871 | 4 | Externally structured | 1 | LSU rRNA | C | 954 | G | 959 | cWW |
| 5 | HL_4GXY_003 | 4GXY | 0.3121 | 5 | Pseudoknot geometry | A | Adenosylcobalamin riboswitch | G | 65 | C | 71 | cWW |
| 6 | HL_8C3A_061 | 8C3A | 0.4291 | 7 | Pseudoknot geometry | 1 | LSU rRNA | C | 2748 | G | 2756 | cWW |
| 7 | HL_5TBW_060 | 5TBW | 0.4035 | 7 | Pseudoknot geometry | 1 | LSU rRNA | C | 2776 | G | 2784 | cWW |
| 8 | HL_6N5P_003 | 6N5P | 0.3695 | 7 | Pseudoknot geometry | A | cyclic di-AMP riboswitch | U | 76 | G | 84 | cWW |
| 9 | HL_4WF9_014 | 4WF9 | 0.3044 | 6 | Pseudoknot geometry | X | LSU rRNA | G | 456 | C | 463 | cWW |
| 10 | HL_8VTW_013 | 8VTW | 0.2546 | 6 | Pseudoknot geometry | 1A | LSU rRNA | G | 410 | C | 417 | cWW |
| 11 | HL_5J7L_146 | 5J7L | 0.2586 | 6 | Pseudoknot geometry | DA | LSU rRNA | G | 410 | C | 417 | cWW |
| 12 | HL_7A0S_014 | 7A0S | 0.2668 | 6 | Pseudoknot geometry | X | LSU rRNA | G | 423 | C | 430 | cWW |
| 13 | HL_4V88_205 | 4V88 | 0.0000 | 13 | Pseudoknot geometry | A6 | SSU rRNA | A | 829 | U | 843 | cWW |
| 14 | HL_3IGI_005 | 3IGI | 0.1713 | 8 | Pseudoknot geometry | A | Group IIC intron | U | 178 | A | 187 | cWW |
| 15 | HL_1F27_001 | 1F27 | 0.9034 | 8 | Pseudoknot geometry | A | RNA (19-mer) | U | 7 | A | 16 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CGGAAUUUG | 2 |
| GGACCAUC | 2 |
| GGACCACC | 2 |
| UGUAAGUAA | 1 |
| CGCACGGAG | 1 |
| CGGUAGCGG | 1 |
| CCUCAG | 1 |
| GUCCCGC | 1 |
| UACCUUCUG | 1 |
| AUUUUGUUGGUUUCU | 1 |
| UGCAUAACAA | 1 |
| UCAGAGGACA | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GGAAUUU | 2 |
| GACCAU | 2 |
| GACCAC | 2 |
| GUAAGUA | 1 |
| GCACGGA | 1 |
| GGUAGCG | 1 |
| CUCA | 1 |
| UCCCG | 1 |
| ACCUUCU | 1 |
| UUUUGUUGGUUUC | 1 |
| GCAUAACA | 1 |
| CAGAGGAC | 1 |
Release history
| Release | 3.87 |
|---|---|
| Date | 2024-08-14 |
| Status | Updated, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Pseudoknot geometry (14)
- Externally structured (1)
- Basepair signature
- cWW
- Heat map statistics
- Min 0.09 | Avg 0.36 | Max 0.90
Coloring options: