Motif HL_29369.2 Version HL_29369.2 of this group appears in releases 0.2 to 0.2
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 1-9 | 2-5 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3D0U_002 | 3D0U | 0.8677 | 0 | Pseudoknot geometry | A | Lysine Riboswitch RNA | U | 90 | U | 91 | C | 92 | C | 93 | U | 94 | C | 95 | C | 96 | C | 97 | G | 98 | cWW | |
| 2 | HL_1F27_001 | 1F27 | 0.1352 | 1 | Pseudoknot geometry | A | RNA (19-mer) | U | 7 | C | 8 | G | 10 | A | 11 | G | 12 | G | 13 | A | 14 | C | 15 | A | 16 | cWW | |
| 3 | HL_3DIR_002 | 3DIR | 0.0000 | 0 | A | RNA (174-MER) | U | 93 | U | 94 | C | 95 | C | 96 | U | 97 | C | 98 | C | 99 | C | 100 | G | 101 | cWW | ntWH | |
| 4 | HL_3PYO_002 | 3PYO | 0.8339 | 0 | A | 23S ribosomal RNA | C | 87 | G | 88 | G | 89 | U | 90 | A | 91 | G | 92 | C | 93 | G | 94 | G | 95 | cWW | ||
| 5 | HL_2QBG_004 | 2QBG | 0.8561 | 0 | B | 23S rRNA | U | 87 | G | 88 | A | 89 | U | 90 | A | 91 | U | 92 | G | 93 | A | 94 | A | 95 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUCCUCCCG | 2 |
| UCAGAGGACA | 1 |
| CGGUAGCGG | 1 |
| UGAUAUGAA | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UCCUCCC | 2 |
| CAGAGGAC | 1 |
| GGUAGCG | 1 |
| GAUAUGA | 1 |
Release history
| Release | 0.2 |
|---|---|
| Date | 2011-12-08 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in HL_29369.2 | Only in the parent motif |
|---|---|---|---|
| HL_29369.1 Compare | HL_3D0U_002, HL_1F27_001, HL_3PYO_002, HL_3DIR_002 | HL_2QBG_004 | HL_3OWZ_003 |
| HL_38130.1 Compare | HL_2QBG_004 | HL_3DIR_002, HL_1F27_001, HL_3PYO_002, HL_3D0U_002 | HL_1XPE_002, HL_1XPE_001 |
Children motifs
| Child motif | Common motif instances | Only in HL_29369.2 | Only in the child motif |
|---|---|---|---|
| HL_78731.1 Compare | HL_2QBG_004, HL_3D0U_002, HL_3DIR_002 | HL_1F27_001, HL_3PYO_002 | HL_2HO7_003, HL_3V2F_002 |
| HL_16770.1 Compare | HL_1F27_001 | HL_3D0U_002, HL_2QBG_004, HL_3PYO_002, HL_3DIR_002 | HL_387D_001 |
- Annotations
-
- (3)
- Pseudoknot geometry (2)
- Basepair signature
- Heat map statistics
- Min 0.14 | Avg 0.65 | Max 1.03
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