Motif IL_69966.2 Version IL_69966.2 of this group appears in releases 0.2 to 0.2
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 5 | 1-5 | 2-3 | 2-4 | 3-4 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_3G78_005 | 3G78 | 0.0000 | 2 | A | Group II catalytic intron D1-D4-1 | G | 128 | G | 129 | * | U | 234 | G | 236 | U | 238 | cWW | cWW | |||
| 2 | IL_3F1H_031 | 3F1H | 0.5736 | 0 | A | 23S RRNA | C | 898 | A | 899 | * | U | 877 | A | 878 | G | 879 | cWW | cWW | |||
| 3 | IL_1FJG_051 | 1FJG | 0.5780 | 0 | Not an internal loop (H) | A | SSU rRNA | C | 1259 | C | 1260 | * | G | 1274 | A | 1275 | G | 1276 | cWW | ntSH | ||
| 4 | IL_3F1H_070 | 3F1H | 0.5575 | 1 | A | 23S RRNA | C | 1893 | C | 1894 | * | G | 1846 | A | 1848 | G | 1849 | cWW | cWW | ncSW | ||
| 5 | IL_2ZJR_003 | 2ZJR | 0.6246 | 0 | Minor groove platform (H) | X | LSU rRNA | G | 42 | A | 43 | * | U | 447 | C | 448 | C | 449 | cWW | cWW | ncSH | |
| 6 | IL_1S72_033 | 1S72 | 0.6468 | 0 | Single bulged A (H) | 0 | LSU rRNA | C | 1023 | G | 1024 | * | U | 942 | A | 943 | G | 944 | cWW | cWW | ncSH | |
| 7 | IL_2ZJR_027 | 2ZJR | 0.6373 | 0 | Minor groove platform (H) | X | LSU rRNA | G | 875 | A | 876 | * | U | 925 | C | 926 | C | 927 | cWW | cWW | ncSH | |
| 8 | IL_1FJG_004 | 1FJG | 0.5916 | 0 | Minor groove platform (H) | A | SSU rRNA | A | 356 | G | 357 | * | C | 54 | A | 55 | U | 56 | cWW | cWW | tSH | |
| 9 | IL_1FJG_042 | 1FJG | 0.6965 | 2 | Minor groove platform (H) | A | SSU rRNA | G | 1057 | G | 1058 | * | U | 1199 | G | 1202 | C | 1203 | cWW | cWW | tSH | |
| 10 | IL_2QWY_006 | 2QWY | 0.7610 | 0 | B | SAM-II riboswitch | C | 23 | A | 24 | * | U | 40 | A | 41 | G | 42 | cWW | cWW | |||
| 11 | IL_1FJG_038 | 1FJG | 0.6593 | 0 | Minor groove platform (H) | A | SSU rRNA | G | 953 | G | 954 | * | C | 1226 | A | 1227 | C | 1228 | cWW | cWW | ntSH | |
| 12 | IL_1FJG_052 | 1FJG | 0.7249 | 0 | A | SSU rRNA | G | 1273 | G | 1274 | * | C | 1260 | A | 1261 | C | 1262 | cWW | tSH | |||
| 13 | IL_2QWY_009 | 2QWY | 0.7766 | 0 | Minor groove platform | C | SAM-II riboswitch | C | 23 | A | 24 | * | U | 40 | A | 41 | G | 42 | cWW | cWW | tSH | |
| 14 | IL_1S72_035 | 1S72 | 0.8788 | 0 | Minor groove platform (H) | 0 | LSU rRNA | G | 956 | A | 957 | * | U | 1009 | C | 1010 | C | 1011 | cWW | cWW | cSH | |
| 15 | IL_2GDI_003 | 2GDI | 0.9721 | 0 | Minor groove platform | X | TPP riboswitch | A | 35 | G | 36 | * | C | 23 | C | 24 | U | 25 | cWW | cWW | ncSH | |
| 16 | IL_2QWY_003 | 2QWY | 0.7440 | 0 | A | SAM-II riboswitch | C | 23 | A | 24 | * | U | 40 | A | 41 | G | 42 | cWW | cWW | tSH | ||
| 17 | IL_3F1H_027 | 3F1H | 0.8198 | 0 | A | 23S RRNA | G | 862 | A | 863 | * | U | 913 | C | 914 | C | 915 | cWW | cWW | cSH | ||
| 18 | IL_2ZJR_077 | 2ZJR | 0.9703 | 1 | Minor groove platform (H) | X | LSU rRNA | G | 2053 | A | 2054 | * | U | 2417 | C | 2419 | C | 2420 | cWW | cWW | cSH | |
| 19 | IL_1S72_075 | 1S72 | 0.9272 | 1 | Minor groove platform (H) | 0 | LSU rRNA | G | 2111 | A | 2112 | * | U | 2473 | C | 2475 | C | 2476 | cWW | cWW | cSH | |
| 20 | IL_3F1H_078 | 3F1H | 0.9035 | 1 | A | 23S RRNA | G | 2070 | A | 2071 | * | U | 2438 | C | 2440 | C | 2441 | cWW | cWW | ncSH | ||
| 21 | IL_2GDI_007 | 2GDI | 1.1274 | 0 | Y | TPP riboswitch | A | 35 | G | 36 | * | C | 23 | C | 24 | U | 25 | cWW | cWW | ncSH |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CA*UAG | 4 |
| GA*UCC | 4 |
| GA*UACC | 3 |
| GG*CAC | 2 |
| AG*CCU | 2 |
| GG*UUGAU | 1 |
| CC*GAG | 1 |
| CC*GAAG | 1 |
| CG*UAG | 1 |
| AG*CAU | 1 |
| GG*UCAGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| *A | 9 |
| *C | 6 |
| *AC | 3 |
| *UGA | 1 |
| *AA | 1 |
| *CAG | 1 |
Release history
| Release | 0.2 |
|---|---|
| Date | 2011-12-08 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in IL_69966.2 | Only in the parent motif |
|---|---|---|---|
| IL_69966.1 Compare | IL_3F1H_031, IL_1FJG_038, IL_1S72_075, IL_1FJG_051, IL_2ZJR_027, IL_1FJG_052, IL_1S72_033, IL_2ZJR_003, IL_3F1H_027, IL_1FJG_004, IL_3F1H_070, IL_2QWY_009, IL_1S72_035, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003 | IL_3G78_005 | |
| IL_32210.1 Compare | IL_3G78_005 | IL_3F1H_031, IL_3F1H_027, IL_1S72_033, IL_2ZJR_027, IL_1FJG_038, IL_2QWY_006, IL_2ZJR_003, IL_3F1H_078, IL_1FJG_004, IL_3F1H_070, IL_2QWY_009, IL_1S72_035, IL_1S72_075, IL_1FJG_052, IL_1FJG_051, IL_2GDI_007, IL_2QWY_003, IL_1FJG_042, IL_2ZJR_077, IL_2GDI_003 |
Children motifs
| Child motif | Common motif instances | Only in IL_69966.2 | Only in the child motif |
|---|---|---|---|
| IL_83385.1 Compare | IL_1FJG_038, IL_1S72_075, IL_3G78_005, IL_1S72_035, IL_3F1H_027, IL_2QWY_009, IL_2QWY_006, IL_1FJG_051, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003 | IL_3F1H_031, IL_1S72_033, IL_2ZJR_027, IL_2ZJR_003, IL_1FJG_004, IL_3F1H_070, IL_1FJG_052, IL_1FJG_042 | |
| IL_86058.1 Compare | IL_3F1H_031, IL_1S72_033, IL_2ZJR_027, IL_2ZJR_003, IL_1FJG_004, IL_3F1H_070, IL_1FJG_052, IL_1FJG_042 | IL_3F1H_027, IL_1S72_075, IL_2QWY_009, IL_1FJG_038, IL_1S72_035, IL_3G78_005, IL_2QWY_006, IL_1FJG_051, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003 | IL_2ZJR_067, IL_3F1H_068, IL_3F1H_056, IL_1S72_066 |
- Annotations
-
- (9)
- Minor groove platform (H) (8)
- Minor groove platform (2)
- Not an internal loop (H) (1)
- Single bulged A (H) (1)
- Basepair signature
- Heat map statistics
- Min 0.10 | Avg 0.51 | Max 1.13
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