Motif HL_11509.5 Version HL_11509.5 of this group appears in releases 1.16 to 1.16
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 1-9 | 4-5 | 4-6 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_2XD0_001 | 2XD0 | 0.4540 | 1 | V | TOXI | U | 4 | G | 5 | U | 7 | U | 8 | U | 9 | G | 10 | C | 11 | U | 12 | A | 13 | ncWW | ncSH | ||
| 2 | HL_1VWW_073 | 1VWW | 0.4523 | 1 | 8 | 5.8S ribosomal RNA | C | 47 | A | 48 | C | 50 | U | 51 | A | 52 | G | 53 | C | 54 | U | 55 | G | 56 | cWW | |||
| 3 | HL_4CUV_075 | 4CUV | 0.4493 | 1 | 4 | 5.8S RRNA | C | 47 | A | 48 | C | 50 | G | 51 | A | 52 | A | 53 | A | 54 | U | 55 | G | 56 | cWW | |||
| 4 | HL_4A1C_001 | 4A1C | 0.2626 | 1 | 2 | 5.8S RRNA | C | 50 | A | 51 | C | 53 | G | 54 | A | 55 | A | 56 | A | 57 | U | 58 | G | 59 | cWW | |||
| 5 | HL_4NVV_001 | 4NVV | 0.2153 | 1 | A | 23S Ribosomal RNA | U | 58 | G | 59 | C | 61 | U | 62 | A | 63 | C | 64 | C | 65 | U | 66 | G | 67 | cWW | cSH | ||
| 6 | HL_1S72_001 | 1S72 | 0.0000 | 1 | Pseudoknot with intercalation (H) | 0 | LSU rRNA | U | 55 | G | 56 | C | 58 | A | 59 | A | 60 | G | 61 | C | 62 | U | 63 | G | 64 | cWW | ncSH | |
| 7 | HL_4IOA_001 | 4IOA | 0.2264 | 1 | Pseudoknot with intercalation (H) | X | LSU rRNA | C | 58 | G | 59 | U | 61 | U | 62 | A | 63 | C | 64 | C | 65 | U | 66 | G | 67 | cWW | cSH | |
| 8 | HL_2QBG_003 | 2QBG | 0.3728 | 1 | B | 23S rRNA | U | 59 | G | 60 | U | 62 | A | 63 | A | 64 | U | 65 | C | 66 | U | 67 | G | 68 | cWW | ncSH |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CAGCGAAAUG | 2 |
| UGAUUUGCUA | 1 |
| CAGCUAGCUG | 1 |
| UGGCUACCUG | 1 |
| UGCCAAGCUG | 1 |
| CGAUUACCUG | 1 |
| UGCUAAUCUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AGCGAAAU | 2 |
| GAUUUGCU | 1 |
| AGCUAGCU | 1 |
| GGCUACCU | 1 |
| GCCAAGCU | 1 |
| GAUUACCU | 1 |
| GCUAAUCU | 1 |
Release history
| Release | 1.16 |
|---|---|
| Date | 2014-07-26 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in HL_11509.5 | Only in the parent motif |
|---|---|---|---|
| HL_11509.4 Compare | HL_4CUV_075, HL_2QBG_003, HL_4NVV_001, HL_4A1C_001, HL_2XD0_001, HL_4IOA_001, HL_1S72_001 | HL_1VWW_073 |
Children motifs
| Child motif | Common motif instances | Only in HL_11509.5 | Only in the child motif |
|---|---|---|---|
| HL_11509.6 Compare | HL_4CUV_075, HL_2QBG_003, HL_4A1C_001, HL_2XD0_001, HL_1VWW_073, HL_4IOA_001, HL_1S72_001 | HL_4NVV_001 | HL_4QCN_001 |
- Annotations
-
- (6)
- Pseudoknot with intercalation (H) (2)
- Basepair signature
- cWW-R-R-cSH-cSH-R
- Heat map statistics
- Min 0.22 | Avg 0.37 | Max 0.66
Coloring options: