Motif IL_53935.1 Version IL_53935.1 of this group appears in releases 0.1 to 0.1
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 5 | 1-5 | 2-3 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_2ZJR_023 | 2ZJR | 0.6126 | 0 | X | LSU rRNA | U | 860 | G | 861 | * | U | 942 | U | 943 | A | 944 | cWW | cWW | |
| 2 | IL_2QWY_002 | 2QWY | 0.0000 | 0 | A | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW | |
| 3 | IL_2QWY_008 | 2QWY | 0.0932 | 0 | Single stack bend | C | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW |
| 4 | IL_2QWY_005 | 2QWY | 0.1456 | 0 | B | SAM-II riboswitch | U | 21 | G | 22 | * | C | 43 | U | 44 | A | 45 | cWW | cWW | |
| 5 | IL_3MOJ_004 | 3MOJ | 0.6290 | 0 | Single stack bend | A | LSU rRNA | U | 2522 | G | 2523 | * | C | 2540 | A | 2541 | A | 2542 | cWW | cWW |
| 6 | IL_3F1H_023 | 3F1H | 0.6715 | 0 | A | 23S RRNA | C | 837 | C | 838 | * | G | 940 | A | 941 | G | 942 | cWW | cWW | |
| 7 | IL_2ZJR_021 | 2ZJR | 0.6463 | 0 | Single stack bend (H) | X | LSU rRNA | C | 850 | C | 851 | * | G | 951 | A | 952 | G | 953 | cWW | cWW |
| 8 | IL_2ZJR_005 | 2ZJR | 0.6153 | 0 | Single stack bend (H) | X | LSU rRNA | C | 160 | U | 161 | * | A | 189 | A | 190 | G | 191 | cWW | cWW |
| 9 | IL_1S72_005 | 1S72 | 0.6627 | 0 | Single stack bend (H) | 0 | LSU rRNA | C | 153 | C | 154 | * | G | 182 | A | 183 | G | 184 | cWW | cWW |
| 10 | IL_3F1H_005 | 3F1H | 0.5715 | 0 | A | 23S RRNA | C | 183 | C | 184 | * | G | 212 | A | 213 | G | 214 | cWW | cWW | |
| 11 | IL_1S72_079 | 1S72 | 0.6094 | 0 | Single stack bend (H) | 0 | LSU rRNA | C | 2454 | A | 2455 | * | U | 2436 | A | 2437 | G | 2438 | cWW | cWW |
| 12 | IL_2ZJR_055 | 2ZJR | 0.6967 | 0 | Single stack bend (H) | X | LSU rRNA | C | 1477 | U | 1478 | * | A | 1463 | A | 1464 | G | 1465 | cWW | cWW |
| 13 | IL_1O9M_001 | 1O9M | 0.4275 | 1 | A+B | EUBACTERIAL A-SITE | G | 1405 | C | 1407 | * | G | 1494 | U | 1495 | C | 1496 | cWW | cWW | |
| 14 | IL_2O3X_001 | 2O3X | 0.5282 | 1 | Stack and bulge | A+B | RNA (23-mer) | G | 5 | C | 7 | * | G | 42 | U | 43 | C | 44 | cWW | cWW |
| 15 | IL_2ZJR_044 | 2ZJR | 0.6589 | 1 | Intercalated cWW (H) | X | LSU rRNA | U | 1232 | C | 1234 | * | G | 1241 | A | 1242 | G | 1243 | cWW | cWW |
| 16 | IL_1ZX7_005 | 1ZX7 | 0.6834 | 2 | Decoding loop related | E+F | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW |
| 17 | IL_1ZX7_001 | 1ZX7 | 0.7361 | 2 | A+B | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW | |
| 18 | IL_2O3X_003 | 2O3X | 0.8090 | 2 | Decoding loop related | A+B | RNA (23-mer) | G | 16 | G | 19 | * | C | 30 | A | 31 | C | 32 | cWW | cWW |
| 19 | IL_1ZX7_007 | 1ZX7 | 0.7510 | 2 | G+H | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW | |
| 20 | IL_1ZX7_003 | 1ZX7 | 0.7125 | 2 | Decoding loop related | C+D | RNA (15-mer) + RNA (14-mer) | G | 7 | G | 10 | * | C | 26 | A | 27 | C | 28 | cWW | cWW |
| 21 | IL_1T0E_001 | 1T0E | 0.7039 | 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 |
| 22 | IL_1O9M_002 | 1O9M | 0.8585 | 2 | B+A | EUBACTERIAL A-SITE | G | 1491 | G | 1494 | * | C | 1407 | A | 1408 | C | 1409 | cWW | cWW | |
| 23 | IL_2O3X_002 | 2O3X | 0.8363 | 2 | Decoding loop related | B+A | RNA (23-mer) | G | 39 | G | 42 | * | C | 7 | A | 8 | C | 9 | cWW | cWW |
| 24 | IL_1MWL_002 | 1MWL | 0.8164 | 2 | B+A | RNA (22-mer) | G | 37 | G | 40 | * | C | 6 | A | 7 | C | 8 | cWW | cWW | |
| 25 | IL_1MWL_003 | 1MWL | 0.7788 | 2 | A+B | RNA (22-mer) | G | 15 | G | 18||A | * | C | 28 | A | 29 | C | 30 | cWW | cWW | |
| 26 | IL_1FJG_057 | 1FJG | 0.8526 | 2 | A | SSU rRNA | G | 1491 | G | 1494 | * | C | 1407 | A | 1408 | C | 1409 | cWW | cWW | |
| 27 | IL_2ZJR_063 | 2ZJR | 0.7580 | 5 | Intercalated tWH (H) | X | LSU rRNA | A | 1686 | G | 1691 | * | C | 1973 | U | 1974 | U | 1976 | cWW | cWW |
| 28 | IL_3F1H_064 | 3F1H | 0.7860 | 5 | A | 23S RRNA | A | 1669 | G | 1674 | * | C | 1990 | U | 1991 | U | 1993 | cWW | cWW | |
| 29 | IL_1S72_062 | 1S72 | 0.7938 | 5 | Intercalated tWH (H) | 0 | LSU rRNA | A | 1747 | G | 1752 | * | C | 2031 | U | 2032 | U | 2034 | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GAAG*CAC | 9 |
| CC*GAG | 4 |
| UG*CUA | 3 |
| CU*AAG | 2 |
| GUC*GUC | 2 |
| CAC*GAAG | 2 |
| UG*UUA | 1 |
| UG*CAA | 1 |
| CA*UAG | 1 |
| UAC*GAG | 1 |
| ACUUUG*CUGU | 1 |
| ACUCUG*CUGU | 1 |
| AUUCGG*CUGU | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AA*A | 9 |
| *A | 8 |
| *U | 4 |
| U*U | 2 |
| A*AA | 2 |
| A*A | 1 |
| CUUU*UG | 1 |
| CUCU*UG | 1 |
| UUCG*UG | 1 |
Release history
| Release | 0.1 |
|---|---|
| Date | 2011-12-08 |
| Status | New id, no parents |
Parent motifs
This motif has no parent motifs.
Children motifs
| Child motif | Common motif instances | Only in IL_53935.1 | Only in the child motif |
|---|---|---|---|
| IL_11363.1 Compare | IL_2ZJR_055, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1O9M_001, IL_1S72_005, 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_3MOJ_004, IL_1ZX7_001, IL_1S72_079, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005 | IL_2ZJR_023, IL_1S72_062, IL_2ZJR_063, IL_3F1H_064 | IL_3F1H_088, IL_2ZJR_101, IL_3G78_012, IL_2ZJR_084, IL_2QEK_002, IL_1FJG_046 |
| IL_62089.1 Compare | IL_2ZJR_023, IL_1S72_062, IL_2ZJR_063, IL_3F1H_064 | IL_2ZJR_055, IL_2QWY_008, IL_2QWY_005, IL_1O9M_002, IL_2QWY_002, IL_1O9M_001, IL_1S72_005, 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_3MOJ_004, IL_1ZX7_001, IL_1S72_079, IL_1T0E_001, IL_1FJG_057, IL_2O3X_001, IL_2O3X_002, IL_2O3X_003, IL_3F1H_023, IL_3F1H_005 | IL_3F1H_096, IL_1S72_087, IL_2ZJR_092 |
- Annotations
-
- (13)
- Single stack bend (H) (5)
- Decoding loop related (5)
- Intercalated tWH (H) (2)
- Single stack bend (2)
- Stack and bulge (1)
- Intercalated cWW (H) (1)
- Basepair signature
- Heat map statistics
- Min 0.09 | Avg 0.56 | Max 0.99
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