Motif HL_20199.1 Version HL_20199.1 of this group appears in releases 1.17 to 1.18
| #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 | 2-5 | 2-8 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_2HO7_003 | 2HO7 | 0.6021 | 0 | B | glmS ribozyme RNA | C | 78 | U | 79 | U | 80 | C | 81 | C | 82 | U | 83 | G | 84 | C | 85 | G | 86 | cWW | |||
| 2 | HL_3DIR_002 | 3DIR | 0.6026 | 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 | ||
| 3 | HL_3D0U_002 | 3D0U | 0.6036 | 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 | ||
| 4 | HL_1VW3_008 | 1VW3 | 0.0000 | 0 | A | 21S ribosomal RNA | A | 347 | U | 348 | A | 349 | A | 350 | C | 351 | A | 352 | A | 353 | A | 354 | U | 355 | cWW | |||
| 5 | HL_1VW3_057 | 1VW3 | 0.3790 | 1 | A | 21S ribosomal RNA | A | 3021 | G | 3022 | U | 3024 | U | 3025 | A | 3026 | U | 3027 | A | 3028 | U | 3029 | U | 3030 | cWW | ncWW | ||
| 6 | HL_3SUX_001 | 3SUX | 0.5347 | 1 | X | THF riboswitch | A | 38 | C | 39 | G | 41 | G | 42 | G | 43 | A | 44 | G | 45 | U | 46 | U | 47 | ncWW | ncWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUCCUCCCG | 2 |
| CUUCCUGCG | 1 |
| AUAACAAAU | 1 |
| AGUUUAUAUU | 1 |
| ACGGGGAGUU | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UCCUCCC | 2 |
| UUCCUGC | 1 |
| UAACAAA | 1 |
| GUUUAUAU | 1 |
| CGGGGAGU | 1 |
Release history
Parent motifs
| Parent motif | Common motif instances | Only in HL_20199.1 | Only in the parent motif |
|---|---|---|---|
| HL_78731.2 Compare | HL_2HO7_003, HL_3DIR_002, HL_3D0U_002 | HL_1VW3_008, HL_3SUX_001, HL_1VW3_057 | HL_2QBG_004, HL_4NVV_002 |
| HL_89236.1 Compare | HL_1VW3_008, HL_1VW3_057 | HL_2HO7_003, HL_3D0U_002, HL_3SUX_001, HL_3DIR_002 | HL_1VW3_050, HL_4IOA_058, HL_2QBG_061, HL_4NVV_057 |
| HL_43357.1 Compare | HL_3SUX_001 | HL_1VW3_008, HL_3D0U_002, HL_2HO7_003, HL_1VW3_057, HL_3DIR_002 | HL_2JLT_001, HL_1VW3_047, HL_3T4B_003 |
Children motifs
This motif has no children motifs.- Annotations
-
- (5)
- Pseudoknot geometry (1)
- Basepair signature
- cWW-R-R-R-R-R-R
- Heat map statistics
- Min 0.14 | Avg 0.51 | Max 0.95
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