Motif IL_06429.3 Version IL_06429.3 of this group appears in releases 1.0 to 1.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | break | 3 | 4 | 1-4 | 2-3 | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_1XOK_001 | 1XOK | 0.8159 | 2 | Major groove intercalation | A | alfalfa mosaic virus RNA 3' UTR | C | 846 | U | 847 | * | A | 864 | G | 867 | cWW | cWW |
| 2 | IL_1XOK_002 | 1XOK | 0.7398 | 2 | Major groove intercalation | A+B | alfalfa mosaic virus RNA 3' UTR | C | 868 | C | 869 | * | G | 877 | G | 880 | cWW | cWW |
| 3 | IL_387D_001 | 387D | 0.6775 | 2 | Multiple bulged bases | A | RNA Pseudoknot | U | 1 | C | 2 | * | G | 15 | A | 18 | cWW | cWW |
| 4 | IL_1U9S_008 | 1U9S | 0.5344 | 1 | Stack outside cWW | A | RNase P class A | G | 195 | C | 196 | * | G | 217 | C | 219 | cWW | cWW |
| 5 | IL_3U5H_031 | 3U5H | 0.5003 | 1 | 5 | LSU rRNA | G | 833 | U | 834 | * | G | 859 | C | 861 | cWW | cWW | |
| 6 | IL_3V2F_008 | 3V2F | 0.5267 | 1 | A | LSU rRNA | G | 271|||I | C | 271|||J | * | G | 271|||M | C | 271|||O | cWW | cWW | |
| 7 | IL_3SNP_002 | 3SNP | 0.5107 | 1 | C | IRE | A | 13 | C | 14 | * | G | 18 | U | 20 | cWW | cWW | |
| 8 | IL_2QBG_022 | 2QBG | 0.4818 | 1 | B | LSU rRNA | G | 697 | C | 698 | * | G | 763 | C | 765 | cWW | cWW | |
| 9 | IL_3SN2_002 | 3SN2 | 0.5124 | 1 | Single bulged C | B | IRE II | G | 13 | C | 14 | * | G | 18 | C | 20 | cWW | cWW |
| 10 | IL_4A1B_113 | 4A1B | 0.1350 | 2 | 1 | LSU rRNA | C | 2869 | U | 2870 | * | A | 2928 | G | 2931 | cWW | cWW | |
| 11 | IL_3U5H_115 | 3U5H | 0.1014 | 2 | 5 | LSU rRNA | C | 2881 | U | 2882 | * | A | 2940 | G | 2943 | cWW | cWW | |
| 12 | IL_1S72_086 | 1S72 | 0.0000 | 2 | 0 | LSU rRNA | C | 2547 | C | 2548 | * | G | 2606 | G | 2609 | cWW | cWW | |
| 13 | IL_3V2F_095 | 3V2F | 0.3645 | 2 | A | LSU rRNA | C | 2512 | G | 2513 | * | C | 2571 | G | 2574 | cWW | cWW | |
| 14 | IL_2ZJR_091 | 2ZJR | 0.4039 | 2 | X | LSU rRNA | C | 2491 | G | 2492 | * | C | 2550 | G | 2553 | cWW | cWW | |
| 15 | IL_2QBG_097 | 2QBG | 0.5363 | 2 | B | LSU rRNA | C | 2512 | A | 2513 | * | U | 2571 | G | 2574 | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CU*AACG | 2 |
| CG*CACG | 2 |
| CU*AAUG | 1 |
| CC*GAUG | 1 |
| UC*GGAA | 1 |
| GC*GGC | 1 |
| GU*GGC | 1 |
| GC*GUC | 1 |
| AC*GUU | 1 |
| GC*GAC | 1 |
| GC*GCC | 1 |
| CC*GUCG | 1 |
| CA*UACG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| *AC | 5 |
| *AU | 2 |
| *G | 2 |
| *U | 2 |
| *GA | 1 |
| *A | 1 |
| *C | 1 |
| *UC | 1 |
Release history
| Release | 1.0 |
|---|---|
| Date | 2013-03-04 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in IL_06429.3 | Only in the parent motif |
|---|---|---|---|
| IL_06429.2 Compare | IL_387D_001, IL_3V2F_095, IL_2QBG_097, IL_3SN2_002, IL_2QBG_022, IL_1U9S_008, IL_1XOK_001, IL_4A1B_113, IL_2ZJR_091, IL_1XOK_002, IL_3U5H_115, IL_1S72_086, IL_3SNP_002, IL_3U5H_031, IL_3V2F_008 | IL_4FAW_014 |
Children motifs
- Annotations
-
- (10)
- Major groove intercalation (2)
- Stack outside cWW (1)
- Multiple bulged bases (1)
- Single bulged C (1)
- Basepair signature
- cWW-cWW
- Heat map statistics
- Min 0.08 | Avg 0.53 | Max 0.96
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