Motif IL_61258.6 Version IL_61258.6 of this group appears in releases 3.46 to 3.47
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | break | 3 | 4 | 1-4 | 2-3 | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_4C7O_003 | 4C7O | 0.5701 | 1 | Single bulged C | E | SRP RNA | C | 31 | G | 33 | * | C | 12 | G | 13 | cWW | cWW |
| 2 | IL_3DIL_001 | 3DIL | 0.3347 | 1 | Single bulged C | A | RNA (174-MER) | G | 12 | G | 14 | * | C | 78 | C | 79 | cWW | cWW |
| 3 | IL_3D0U_001 | 3D0U | 0.2628 | 1 | Single bulged C | A | Lysine Riboswitch RNA | G | 9 | G | 11 | * | C | 75 | C | 76 | cWW | cWW |
| 4 | IL_4V88_384 | 4V88 | 0.2731 | 1 | Single bulged C | A6 | SSU rRNA | U | 600 | A | 601 | * | U | 24 | A | 26 | cWW | cWW |
| 5 | IL_5TBW_069 | 5TBW | 0.1141 | 1 | Single bulged C | 1 | LSU rRNA | C | 1669 | C | 1670 | * | G | 1778 | G | 1780 | cWW | cWW |
| 6 | IL_4RZD_001 | 4RZD | 0.0000 | 1 | Single bulged C | A | PreQ1-III riboswitch | C | 56 | C | 57 | * | G | 78 | G | 80 | cWW | cWW |
| 7 | IL_5TBW_002 | 5TBW | 0.1566 | 1 | Single bulged C | 1+4 | LSU rRNA + 5.8S rRNA | C | 7 | C | 8 | * | G | 150 | G | 152 | cWW | cWW |
| 8 | IL_1S03_006 | 1S03 | 0.1156 | 1 | Single bulged C | B | 47-MER | C | 39 | C | 40 | * | G | 9 | G | 11 | cWW | cWW |
| 9 | IL_1DQH_001 | 1DQH | 0.1596 | 1 | Single bulged C | A+B | RNA (9-mer) + RNA (10-mer) | C | 3 | A | 4 | * | U | 15 | G | 17 | cWW | cWW |
| 10 | IL_1S03_002 | 1S03 | 0.2105 | 1 | Single bulged C | A | 47-MER | C | 39 | C | 40 | * | G | 9 | G | 11 | cWW | cWW |
| 11 | IL_3SN2_001 | 3SN2 | 0.2292 | 1 | Single bulged C | B | transferrin receptor iron regulatory element B RNA | C | 24 | A | 25 | * | U | 7 | G | 9 | cWW | cWW |
| 12 | IL_1DQF_001 | 1DQF | 0.2381 | 1 | Single bulged C | A+B | RNA (9-mer) + RNA (10-mer) | C | 3 | A | 4 | * | U | 15 | G | 17 | cWW | cWW |
| 13 | IL_4WF9_035 | 4WF9 | 0.3622 | 1 | Single bulged C | X | LSU rRNA | U | 1203 | G | 1204 | * | C | 1038 | A | 1040 | cWW | cWW |
| 14 | IL_5J7L_276 | 5J7L | 0.3857 | 1 | Single bulged C | DA | LSU rRNA | U | 1159 | G | 1160 | * | C | 994 | A | 996 | cWW | cWW |
| 15 | IL_4Y4O_212 | 4Y4O | 0.3397 | 1 | Single bulged C | 2A | LSU rRNA | U | 1159 | G | 1160 | * | C | 994 | A | 996 | cWW | cWW |
| 16 | IL_4IOA_031 | 4IOA | 0.3178 | 1 | Single bulged C | X | LSU rRNA | U | 1170 | A | 1171 | * | U | 1005 | A | 1007 | cWW | cWW |
| 17 | IL_6CK5_003 | 6CK5 | 0.4437 | 1 | Single bulged C | A | Guanidine-I riboswitch | C | 21 | A | 22 | * | U | 39 | G | 41 | cWW | cWW |
| 18 | IL_4Y4O_283 | 4Y4O | 0.4757 | 1 | Single bulged C | 2A | LSU rRNA | G | 2838 | G | 2839 | * | U | 2878 | C | 2880 | cWW | cWW |
| 19 | IL_1KUQ_002 | 1KUQ | 0.3402 | 1 | Single bulged C | B | 16S RIBOSOMAL RNA FRAGMENT | G | 21 | G | 22 | * | C | 46 | C | 48 | cWW | cWW |
| 20 | IL_3IVK_001 | 3IVK | 0.4366 | 1 | Single bulged C | M | class I ligase product | A | 112 | C | 113 | * | G | 46 | U | 48 | cWW | ncWW |
| 21 | IL_6ZDP_001 | 6ZDP | 0.2392 | 1 | Single bulged C | B | Chains: B | A | 1290 | U | 1291 | * | A | 1346 | U | 1348 | cWW | cWW |
| 22 | IL_4IOA_057 | 4IOA | 0.2102 | 1 | Single bulged C | X | LSU rRNA | A | 1534 | C | 1535 | * | G | 1488 | U | 1490 | cWW | cWW |
| 23 | IL_7KGA_001 | 7KGA | 0.2517 | 1 | Single bulged C | A | Flavivirus DB element | A | 10 | U | 11 | * | A | 44 | U | 46 | cWW | cWW |
| 24 | IL_3HHN_003 | 3HHN | 0.2858 | 1 | Single bulged C | E | Class I ligase ribozyme, self-ligation product | A | 112 | C | 113 | * | G | 46 | U | 48 | cWW | cWW |
| 25 | IL_7KGA_004 | 7KGA | 0.2569 | 1 | Single bulged C | B | Flavivirus DB element | A | 10 | U | 11 | * | A | 44 | U | 46 | cWW | cWW |
| 26 | IL_5F5H_001 | 5F5H | 0.2923 | 1 | Single bulged C | C | RNA (21-mer) | A | 4 | C | 5 | * | G | 18 | U | 20 | cWW | cWW |
| 27 | IL_5F5H_002 | 5F5H | 0.3205 | 1 | Single bulged C | D | RNA (21-mer) | A | 4 | C | 5 | * | G | 18 | U | 20 | cWW | cWW |
| 28 | IL_3SNP_003 | 3SNP | 0.3492 | 1 | Single bulged C | D | ferritin H IRE RNA | A | 24 | C | 25 | * | G | 7 | U | 9 | cWW | cWW |
| 29 | IL_3W3S_001 | 3W3S | 0.3275 | 1 | Single bulged C | B | Selenocysteine transfer RNA | G | 23 | C | 24 | * | G | 11 | C | 12 | cWW | cWW |
| 30 | IL_3W3S_004 | 3W3S | 0.3275 | 1 | Single bulged C | B | Selenocysteine transfer RNA | G | 23||||43_455 | C | 24||||43_455 | * | G | 11||||43_455 | C | 12||||43_455 | cWW | cWW |
| 31 | IL_5J7L_311 | 5J7L | 0.4108 | 1 | Single bulged C | DA | LSU rRNA | C | 1727 | C | 1728 | * | G | 1731 | G | 1733 | cWW | ncWW |
| 32 | IL_3SN2_002 | 3SN2 | 0.5859 | 1 | Single bulged C | B | transferrin receptor iron regulatory element B RNA | G | 18 | C | 20 | * | G | 13 | C | 14 | cWW | cWW |
| 33 | IL_5KPY_001 | 5KPY | 0.5612 | 1 | Single bulged C | A | 5-hydroxytryptophan RNA aptamer | C | 43 | A | 44 | * | U | 25 | G | 27 | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CC*GCG | 6 |
| AC*GCU | 6 |
| CA*UCG | 5 |
| UG*CCA | 3 |
| AU*ACU | 3 |
| GCG*CC | 2 |
| UA*UCA | 2 |
| GC*GCC | 2 |
| CCG*CG | 1 |
| GG*UCC | 1 |
| GG*CCC | 1 |
| GCC*GC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| *C | 29 |
| C* | 4 |
- Annotations
-
- Single bulged C (33)
- Basepair signature
- cWW-cWW
- Heat map statistics
- Min 0.06 | Avg 0.41 | Max 0.93
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