Motif IL_11363.1 Version IL_11363.1 of this group appears in releases 0.2 to 0.3
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 5 | 1-5 | 2-3 | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | IL_3MOJ_004 | 3MOJ | 0.9806 | 0 | Single stack bend | A | LSU rRNA | U | 2522 | G | 2523 | * | C | 2540 | A | 2541 | A | 2542 | cWW | cWW |
2 | IL_2ZJR_101 | 2ZJR | 0.8821 | 2 | Decoding loop related (H) | X | LSU rRNA | G | 2846 | C | 2849 | * | G | 2818 | G | 2819 | C | 2820 | cWW | cWW |
3 | IL_3F1H_005 | 3F1H | 0.8908 | 0 | A | 23S RRNA | C | 183 | C | 184 | * | G | 212 | A | 213 | G | 214 | cWW | cWW | |
4 | IL_3F1H_088 | 3F1H | 0.8928 | 0 | A | 23S RRNA | A | 2453 | G | 2454 | * | C | 2498 | C | 2499 | U | 2500 | cWW | cWW | |
5 | IL_3F1H_023 | 3F1H | 0.8925 | 0 | A | 23S RRNA | C | 837 | C | 838 | * | G | 940 | A | 941 | G | 942 | cWW | cWW | |
6 | IL_2ZJR_044 | 2ZJR | 0.8471 | 1 | Intercalated cWW (H) | X | LSU rRNA | U | 1232 | C | 1234 | * | G | 1241 | A | 1242 | G | 1243 | cWW | cWW |
7 | IL_2QWY_008 | 2QWY | 0.7874 | 0 | Single stack bend | C | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW |
8 | IL_2QEK_002 | 2QEK | 0.7287 | 2 | B+A | HIV-1 subtype F DIS genomic RNA | G | 7 | G | 10 | * | C | 15 | A | 16 | C | 17 | cWW | cWW | |
9 | IL_2O3X_003 | 2O3X | 0.7151 | 2 | Decoding loop related | A+B | RNA (23-mer) | G | 16 | G | 19 | * | C | 30 | A | 31 | C | 32 | cWW | cWW |
10 | IL_2O3X_001 | 2O3X | 0.6595 | 1 | Stack and bulge | A+B | RNA (23-mer) | G | 5 | C | 7 | * | G | 42 | U | 43 | C | 44 | cWW | cWW |
11 | IL_2O3X_002 | 2O3X | 0.7125 | 2 | Decoding loop related | B+A | RNA (23-mer) | G | 39 | G | 42 | * | C | 7 | A | 8 | C | 9 | cWW | cWW |
12 | IL_2ZJR_021 | 2ZJR | 0.8450 | 0 | Single stack bend (H) | X | LSU rRNA | C | 850 | C | 851 | * | G | 951 | A | 952 | G | 953 | cWW | cWW |
13 | IL_2ZJR_084 | 2ZJR | 0.8577 | 0 | X | LSU rRNA | A | 2432 | G | 2433 | * | C | 2477 | C | 2478 | U | 2479 | cWW | cWW | |
14 | IL_2QWY_002 | 2QWY | 0.7317 | 0 | A | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW | |
15 | IL_1ZX7_005 | 1ZX7 | 0.5528 | 2 | Decoding loop related | E+F | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW |
16 | IL_1ZX7_007 | 1ZX7 | 0.6289 | 2 | G+H | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW | |
17 | IL_2QWY_005 | 2QWY | 0.7665 | 0 | B | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW | |
18 | IL_1ZX7_001 | 1ZX7 | 0.5298 | 2 | A+B | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW | |
19 | IL_1S72_079 | 1S72 | 0.4831 | 0 | Single stack bend (H) | 0 | LSU rRNA | C | 2454 | A | 2455 | * | U | 2436 | A | 2437 | G | 2438 | cWW | cWW |
20 | IL_1MWL_002 | 1MWL | 0.3981 | 2 | B+A | RNA (22-mer) | G | 37 | G | 40 | * | C | 6 | A | 7 | C | 8 | cWW | cWW | |
21 | IL_1O9M_002 | 1O9M | 0.4227 | 2 | B+A | EUBACTERIAL A-SITE | G | 1491 | G | 1494 | * | C | 1407 | A | 1408 | C | 1409 | cWW | cWW | |
22 | IL_1MWL_003 | 1MWL | 0.4009 | 2 | A+B | RNA (22-mer) | G | 15 | G | 18||A | * | C | 28 | A | 29 | C | 30 | cWW | cWW | |
23 | IL_1O9M_001 | 1O9M | 0.4089 | 1 | A+B | EUBACTERIAL A-SITE | G | 1405 | C | 1407 | * | G | 1494 | U | 1495 | C | 1496 | cWW | cWW | |
24 | IL_1FJG_057 | 1FJG | 0.3459 | 2 | A | SSU rRNA | G | 1491 | G | 1494 | * | C | 1407 | A | 1408 | C | 1409 | cWW | cWW | |
25 | IL_1S72_005 | 1S72 | 0.4346 | 0 | Single stack bend (H) | 0 | LSU rRNA | C | 153 | C | 154 | * | G | 182 | A | 183 | G | 184 | cWW | cWW |
26 | IL_1T0E_001 | 1T0E | 0.4939 | 2 | Decoding loop related | A+C | RNA (18-mer) + RNA (17-mer) | G | 7 | G | 10||A | * | C | 16 | A | 17 | C | 18 | cWW | cWW |
27 | IL_1FJG_046 | 1FJG | 0.0000 | 0 | A | SSU rRNA | G | 1127 | C | 1128 | * | G | 1143 | G | 1144 | C | 1145 | ncWW | cWW | |
28 | IL_1ZX7_003 | 1ZX7 | 0.5397 | 2 | Decoding loop related | C+D | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW |
29 | IL_2ZJR_055 | 2ZJR | 0.8517 | 0 | Single stack bend (H) | X | LSU rRNA | C | 1477 | U | 1478 | * | A | 1463 | A | 1464 | G | 1465 | cWW | cWW |
30 | IL_2ZJR_005 | 2ZJR | 0.8377 | 0 | Single stack bend (H) | X | LSU rRNA | C | 160 | U | 161 | * | A | 189 | A | 190 | G | 191 | cWW | cWW |
31 | IL_3G78_012 | 3G78 | 0.9118 | 0 | A | Group II catalytic intron D1-D4-1 | G | 320 | G | 321 | * | C | 296 | A | 297 | U | 298 | cWW | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
GAAG*CAC | 12 |
CC*GAG | 4 |
UG*CUA | 3 |
AG*CCU | 2 |
GUC*GUC | 2 |
CU*AAG | 2 |
UG*CAA | 1 |
GGAC*GGC | 1 |
UAC*GAG | 1 |
CA*UAG | 1 |
GC*GGC | 1 |
GG*CAU | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
AA*A | 12 |
*A | 9 |
*U | 3 |
*C | 2 |
U*U | 2 |
GA*G | 1 |
A*A | 1 |
*G | 1 |
Release history
Parent motifs
Children motifs
Child motif | Common motif instances | Only in IL_11363.1 | Only in the child motif |
---|---|---|---|
IL_11363.2 Compare | IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_001, IL_3G78_012, IL_3MOJ_004, IL_1S72_079, IL_1ZX7_003, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005 | IL_2ZJR_101, IL_2QEK_002 | IL_1FJG_012 |
IL_71234.1 Compare | IL_2ZJR_101, IL_2QEK_002 | IL_2ZJR_055, IL_3F1H_088, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1FJG_046, IL_1O9M_001, IL_1T0E_001, IL_1S72_005, IL_2ZJR_084, IL_2ZJR_044, IL_2ZJR_021, IL_1MWL_003, IL_1MWL_002, IL_1ZX7_007, IL_1ZX7_005, IL_2ZJR_005, IL_1ZX7_003, IL_3G78_012, IL_3MOJ_004, IL_1S72_079, IL_1ZX7_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005 | IL_3F1H_106, IL_1LNG_001 |
- Annotations
-
- (16)
- Single stack bend (H) (5)
- Decoding loop related (5)
- Single stack bend (2)
- Stack and bulge (1)
- Intercalated cWW (H) (1)
- Decoding loop related (H) (1)
- Basepair signature
- Heat map statistics
- Min 0.09 | Avg 0.56 | Max 1.09
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