Motif HL_17723.1 Version HL_17723.1 of this group appears in releases 0.3 to 0.8
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 1-7 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_1WZ2_006 | 1WZ2 | 0.7123 | 2 | Pseudoknot geometry | D | tRNA | A | 934 | C | 937 | A | 938 | A | 939 | G | 940 | A | 941 | U | 942 | cWW |
| 2 | HL_2ZJR_013 | 2ZJR | 0.6182 | 1 | X | LSU rRNA | G | 423 | A | 425 | C | 426 | C | 427 | A | 428 | C | 429 | C | 430 | cWW | |
| 3 | HL_3V2F_014 | 3V2F | 0.5616 | 1 | A | 23S Ribosomal RNA | G | 410 | A | 412 | C | 413 | C | 414 | A | 415 | C | 416 | C | 417 | cWW | |
| 4 | HL_2QBG_015 | 2QBG | 0.5866 | 1 | B | 23S rRNA | G | 410 | A | 412 | C | 413 | C | 414 | A | 415 | U | 416 | C | 417 | cWW | |
| 5 | HL_3IVK_009 | 3IVK | 0.4476 | 1 | C | class I ligase product | G | 75 | G | 77 | G | 78 | C | 79 | A | 80 | G | 81 | C | 82 | cWW | |
| 6 | HL_3V7E_004 | 3V7E | 0.1786 | 0 | Pseudoknot geometry (H) | D | SAM-I riboswitch | G | 223 | A | 224 | C | 225 | U | 226 | G | 227 | G | 228 | C | 229 | cWW |
| 7 | HL_3GX5_001 | 3GX5 | 0.0000 | 0 | A | RNA (94-MER) | G | 23 | A | 24 | C | 25 | U | 26 | G | 27 | G | 28 | C | 29 | cWW | |
| 8 | HL_4AOB_001 | 4AOB | 0.1098 | 0 | Pseudoknot geometry | A | SAM-I riboswitch | G | 23 | A | 24 | C | 25 | U | 26 | G | 27 | G | 28 | C | 29 | cWW |
| 9 | HL_3NPB_001 | 3NPB | 0.2676 | 0 | A | TL5 RNA | G | 23 | A | 24 | C | 25 | U | 26 | G | 27 | G | 28 | C | 29 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GACUGGC | 4 |
| GGACCACC | 2 |
| ACUCAAGAU | 1 |
| GGACCAUC | 1 |
| GUGGCAGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| ACUGG | 4 |
| GACCAC | 2 |
| CUCAAGA | 1 |
| GACCAU | 1 |
| UGGCAG | 1 |
Release history
| Release | 0.3 | 0.4 | 0.5 | 0.6 | 0.7 | 0.8 |
|---|---|---|---|---|---|---|
| Date | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-02-17 |
| Status | New id, 2 parents | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in HL_17723.1 | Only in the parent motif |
|---|---|---|---|
| HL_31541.1 Compare | HL_2QBG_015, HL_1WZ2_006, HL_2ZJR_013 | HL_3V2F_014, HL_3NPB_001, HL_4AOB_001, HL_3IVK_009, HL_3V7E_004, HL_3GX5_001 | HL_3PYO_014, HL_1WZ2_002 |
| HL_91122.1 Compare | HL_3NPB_001, HL_3IVK_009 | HL_1WZ2_006, HL_2QBG_015, HL_4AOB_001, HL_3V7E_004, HL_3GX5_001, HL_2ZJR_013, HL_3V2F_014 | HL_3O58_058, HL_2NZ4_015, HL_2JLT_002, HL_2NZ4_011, HL_2NR0_003, HL_1S72_058, HL_2ZJR_054, HL_2GIS_001, HL_2QBG_058, HL_3IVK_004, HL_3O58_067, HL_3OWZ_002, HL_3O58_061, HL_2NZ4_007, HL_2NZ4_003, HL_3G78_005, HL_3O58_009, HL_2ZJR_063, HL_1S72_061, HL_3PYO_056, HL_1S72_067, HL_2QBG_067 |
Children motifs
| Child motif | Common motif instances | Only in HL_17723.1 | Only in the child motif |
|---|---|---|---|
| HL_17723.2 Compare | HL_3V2F_014, HL_3NPB_001, HL_4AOB_001, HL_3IVK_009, HL_3V7E_004, HL_3GX5_001, HL_1WZ2_006, HL_2QBG_015, HL_2ZJR_013 | HL_4B5R_001 |
- Annotations
-
- (6)
- Pseudoknot geometry (2)
- Pseudoknot geometry (H) (1)
- Basepair signature
- cWW-R-R-R-R
- Heat map statistics
- Min 0.10 | Avg 0.46 | Max 0.85
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