Motif HL_12908.1 Version HL_12908.1 of this group appears in releases 1.17 to 1.17
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 1-9 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_2QBG_004 | 2QBG | 0.6200 | 0 | B | LSU rRNA | U | 87 | G | 88 | A | 89 | U | 90 | A | 91 | U | 92 | G | 93 | A | 94 | A | 95 | cWW | |
| 2 | HL_4QCN_002 | 4QCN | 0.4691 | 0 | A | LSU rRNA | C | 86 | G | 87 | G | 88 | U | 89 | A | 90 | G | 91 | C | 92 | G | 93 | G | 94 | cWW | |
| 3 | HL_4QLM_002 | 4QLM | 0.0000 | 1 | Pseudoknot geometry | A | cyclic di-AMP riboswitch | U | 72 | C | 74 | U | 75 | C | 76 | C | 77 | U | 78 | U | 79 | C | 80 | G | 81 | cWW |
| 4 | HL_4A1B_009 | 4A1B | 0.3580 | 1 | 1 | LSU rRNA | G | 302 | U | 304 | A | 305 | A | 306 | A | 307 | C | 308 | U | 309 | U | 310 | C | 311 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGAUAUGAA | 1 |
| CGGUAGCGG | 1 |
| UACUCCUUCG | 1 |
| GAUAAACUUC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GAUAUGA | 1 |
| GGUAGCG | 1 |
| ACUCCUUC | 1 |
| AUAAACUU | 1 |
Release history
| Release | 1.17 |
|---|---|
| Date | 2014-09-06 |
| Status | New id, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in HL_12908.1 | Only in the parent motif |
|---|---|---|---|
| HL_78731.2 Compare | HL_2QBG_004 | HL_4A1B_009, HL_4QCN_002, HL_4QLM_002 | HL_2HO7_003, HL_3DIR_002, HL_4NVV_002, HL_3D0U_002 |
| HL_82243.1 Compare | HL_4A1B_009 | HL_4QCN_002, HL_2QBG_004, HL_4QLM_002 |
Children motifs
| Child motif | Common motif instances | Only in HL_12908.1 | Only in the child motif |
|---|---|---|---|
| HL_12908.2 Compare | HL_4A1B_009, HL_4QCN_002, HL_2QBG_004, HL_4QLM_002 | HL_4R0D_007, HL_4W21_009 |
- Annotations
-
- (3)
- Pseudoknot geometry (1)
- Basepair signature
- cWW-R-R-R-R-R-R
- Heat map statistics
- Min 0.36 | Avg 0.41 | Max 0.68
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