Motif IL_02809.4 Version IL_02809.4 of this group appears in releases 1.17 to 1.17
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | break | 5 | 6 | 7 | 8 | 1-8 | 2-7 | 3-6 | 4-5 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_1QBP_002 | 1QBP | 0.9045 | 0 | Tandem non-canonical cWW pairs | A+B | RNA (15-mer) | U | 7 | U | 8 | C | 9 | G | 10 | * | U | 22 | U | 23 | C | 24 | G | 25 | cWW | cWW | ncWW | cWW |
| 2 | IL_165D_001 | 165D | 0.8801 | 0 | B+A | DNA/RNA (5'-R(*GP*CP*UP*UP*CP*GP*GP*CP*)-D(*(BRU))-3') | U | 12 | U | 13 | C | 14 | G | 15 | * | U | 3 | U | 4 | C | 5 | G | 6 | cWW | cWW | cWW | cWW | |
| 3 | IL_422D_001 | 422D | 0.8885 | 0 | Tandem non-canonical cWW pairs | A+B | RNA (12-mer) | U | 7 | U | 8 | C | 9 | G | 10 | * | U | 19 | U | 20 | C | 21 | G | 22 | cWW | cWW | cWW | cWW |
| 4 | IL_4ERD_002 | 4ERD | 0.8704 | 0 | Tandem non-canonical cWW pairs | C+D | RNA (22-mer) | U | 127 | U | 128 | C | 141 | G | 142 | * | U | 127 | U | 128 | C | 141 | G | 142 | cWW | cWW | cWW | cWW |
| 5 | IL_1VWW_022 | 1VWW | 0.6650 | 0 | 5 | 28S ribosomal RNA | G | 443 | G | 444 | U | 445 | C | 446 | * | G | 1300 | U | 1302 | A | 1303 | C | 1304 | ncWW | cWW | |||
| 6 | IL_3GX5_004 | 3GX5 | 0.1335 | 2 | A | RNA (94-MER) | G | 82 | A | 83 | A | 84 | A | 85 | * | U | 64 | U | 67 | G | 68 | C | 69 | cWW | cWW | |||
| 7 | IL_4B5R_004 | 4B5R | 0.0000 | 2 | Pseudoknot (H) | A | SAM-I riboswitch | G | 82 | A | 83 | A | 84 | A | 85 | * | U | 64 | U | 67 | G | 68 | C | 69 | cWW | cWW | ||
| 8 | IL_4AOB_004 | 4AOB | 0.1603 | 2 | Pseudoknot | A | SAM-I riboswitch | G | 82 | A | 83 | A | 84 | A | 85 | * | U | 64 | U | 67 | G | 68 | C | 69 | cWW | cWW | ||
| 9 | IL_4KQY_006 | 4KQY | 0.2433 | 2 | Pseudoknot | A | SAM-I riboswitch | G | 106 | G | 107 | A | 108 | A | 109 | * | U | 85 | A | 88 | G | 89 | C | 90 | cWW | cWW | ||
| 10 | IL_3V7E_009 | 3V7E | 0.2948 | 2 | D | SAM-I riboswitch | G | 314 | A | 315 | A | 316 | A | 317 | * | U | 296 | U | 299 | G | 300 | C | 301 | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUCG*UUCG | 4 |
| GAAA*UCCUGC | 4 |
| GAC*GAAUC | 1 |
| GGAA*UCCAGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UC*UC | 4 |
| AA*CCUG | 4 |
| A*AAU | 1 |
| GA*CCAG | 1 |
Release history
| Release | 1.17 |
|---|---|
| Date | 2014-09-04 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in IL_02809.4 | Only in the parent motif |
|---|---|---|---|
| IL_02809.3 Compare | IL_4ERD_002, IL_4B5R_004, IL_3GX5_004, IL_3V7E_009, IL_4KQY_006, IL_422D_001, IL_165D_001, IL_1QBP_002, IL_4AOB_004 | IL_1VWW_022 |
Children motifs
| Child motif | Common motif instances | Only in IL_02809.4 | Only in the child motif |
|---|---|---|---|
| IL_02809.5 Compare | IL_4ERD_002, IL_4B5R_004, IL_165D_001, IL_3V7E_009, IL_4KQY_006, IL_422D_001, IL_3GX5_004, IL_1QBP_002, IL_4AOB_004 | IL_1VWW_022 | IL_4W21_022 |
- Annotations
-
- (4)
- Tandem non-canonical cWW pairs (3)
- Pseudoknot (2)
- Pseudoknot (H) (1)
- Basepair signature
- cWW-cWW-cWW-cWW
- Heat map statistics
- Min 0.09 | Avg 0.58 | Max 1.00
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