Motif IL_54420.1 Version IL_54420.1 of this group appears in releases 0.9 to 1.4
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | break | 4 | 5 | 6 | 7 | 8 | 1-8 | 2-5 | 2-7 | 3-4 | 3-6 | 3-7 | 5-7 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_2XZM_067 | 2XZM | 0.8361 | 2 | A | 18S RRNA | U | 1248 | G | 1249 | G | 1250 | * | U | 1401 | C | 1402 | G | 1404 | U | 1405 | A | 1407 | cWW | ncWB | cWW | |||||
| 2 | IL_3U5F_068 | 3U5F | 0.8400 | 2 | 6 | 18S rRNA | U | 1276 | G | 1277 | G | 1278 | * | U | 1430 | C | 1431 | G | 1433 | U | 1434 | A | 1436 | cWW | ncWWa | cWW | tSH | ||||
| 3 | IL_2XZM_073 | 2XZM | 0.6209 | 2 | A | 18S RRNA | A | 1317 | A | 1320 | G | 1321 | * | C | 1346 | U | 1347 | U | 1348 | C | 1349 | U | 1350 | cWW | ncWW | cWW | ncSW | ncSH | |||
| 4 | IL_1FJG_063 | 1FJG | 0.5132 | 1 | A | SSU rRNA | C | 1459 | A | 1460 | G | 1461 | * | C | 1440 | G | 1441 | G | 1442 | A | 1446 | G | 1447 | cWW | tHS | cWW | |||||
| 5 | IL_4GXY_009 | 4GXY | 0.0000 | 0 | Major groove minor groove platform with extra cWW | A | Adenosylcobalamin riboswitch | C | 105 | A | 106 | C | 107 | * | G | 122 | G | 123 | A | 124 | A | 125 | G | 126 | cWW | ntHS | cWW | ntSH | |||
| 6 | IL_4GMA_007 | 4GMA | 0.2607 | 0 | Z | Adenosylcobalamin riboswitch | C | 113 | A | 114 | C | 115 | * | G | 128 | G | 129 | A | 130 | A | 131 | G | 132 | cWW | cWW | ntSH |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGG*UCUGUGA | 2 |
| CAC*GGAAG | 2 |
| ACUAG*CUUCU | 1 |
| CAG*CGGGAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| G*CUGUG | 2 |
| A*GAA | 2 |
| CUA*UUC | 1 |
| A*GGGA | 1 |
Release history
| Release | 0.9 | 0.10 | 0.11 | 0.12 | 1.0 | 1.1 | 1.2 | 1.3 | 1.4 |
|---|---|---|---|---|---|---|---|---|---|
| Date | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-03-04 | 2013-04-08 | 2013-05-04 | 2013-06-01 | 2013-07-01 |
| Status | > 2 parents | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in IL_54420.1 | Only in the parent motif |
|---|---|---|---|
| IL_07911.1 Compare | IL_3U5F_068 | IL_2XZM_067, IL_1FJG_063, IL_2XZM_073, IL_4GMA_007, IL_4GXY_009 | IL_3U5F_028, IL_3V2F_031, IL_2AW7_006, IL_3BNL_003 |
| IL_95150.2 Compare | IL_1FJG_063 | IL_2XZM_067, IL_2XZM_073, IL_3U5F_068, IL_4GMA_007, IL_4GXY_009 | IL_3OWZ_006, IL_3OWZ_002 |
| IL_32080.1 Compare | IL_2XZM_067 | IL_2XZM_073, IL_1FJG_063, IL_3U5F_068, IL_4GMA_007, IL_4GXY_009 | |
| IL_40387.2 Compare | IL_2XZM_073 | IL_2XZM_067, IL_1FJG_063, IL_3U5F_068, IL_4GMA_007, IL_4GXY_009 | IL_2QBG_093, IL_2XXA_009, IL_2OEU_001, IL_2ZJR_087 |
Children motifs
| Child motif | Common motif instances | Only in IL_54420.1 | Only in the child motif |
|---|---|---|---|
| IL_25380.1 Compare | IL_4GMA_007, IL_4GXY_009 | IL_2XZM_067, IL_1FJG_063, IL_2XZM_073, IL_3U5F_068 | IL_2QBG_093, IL_2XXA_009, IL_4IOA_088, IL_4BPP_071 |
| IL_90133.3 Compare | IL_3U5F_068 | IL_2XZM_067, IL_1FJG_063, IL_2XZM_073, IL_4GMA_007, IL_4GXY_009 | IL_4BPP_066, IL_3U5F_028, IL_2AW7_006, IL_3V2F_031, IL_1S72_053 |
| IL_95150.4 Compare | IL_1FJG_063 | IL_2XZM_067, IL_2XZM_073, IL_3U5F_068, IL_4GMA_007, IL_4GXY_009 | IL_3OWZ_006, IL_3OWZ_002 |
- Annotations
-
- Major groove minor groove platform with extra cWW (1)
- Basepair signature
- cWW-R-R-tHS-cWW
- Heat map statistics
- Min 0.21 | Avg 0.59 | Max 0.95
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