Motif IL_00168.1 Version IL_00168.1 of this group appears in releases 3.2 to 3.2
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | break | 5 | 6 | 1-6 | 2-3 | 2-4 | 2-5 | 3-6 | 4-5 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_1U9S_005 | 1U9S | 0.5162 | 0 | Minor groove platform, major groove intercalation | A | RIBONUCLEASE P | C | 136 | A | 137 | G | 138 | C | 139 | * | G | 161 | G | 162 | cWW | ntHS | cWW | |||
| 2 | IL_4V9F_068 | 4V9F | 0.4427 | 0 | Major groove minor groove platform; mini C-loop | 0 | LSU rRNA | G | 1902 | U | 1903 | A | 1904 | U | 1905 | * | A | 1934 | C | 1935 | cWW | cWW | ||||
| 3 | IL_4LFB_015 | 4LFB | 0.3795 | 1 | C-loop | A | SSU rRNA | G | 371 | C | 372 | A | 374 | U | 375 | * | A | 389 | C | 390 | cWW | ntWH | cWS | cWW | ||
| 4 | IL_4V88_423 | 4V88 | 0.1600 | 0 | Major groove minor groove platform; mini C-loop | A6 | SSU rRNA | G | 802 | A | 803 | A | 804 | U | 805 | * | A | 746 | C | 747 | cWW | cSH | cWW | |||
| 5 | IL_5J7L_029 | 5J7L | 0.0725 | 0 | Major groove minor groove platform; mini C-loop | AA | SSU rRNA | A | 640 | U | 641 | A | 642 | C | 643 | * | G | 597 | U | 598 | cWW | cSH | ncSH | ncWS | cWW | |
| 6 | IL_4PDB_002 | 4PDB | 0.0727 | 0 | Major groove minor groove platform; mini C-loop | I | SELEX RNA aptamer | A | 24 | U | 25 | A | 26 | U | 27 | * | A | 14 | U | 15 | cWW | ncSH | ncWS | cWW | ||
| 7 | IL_1S03_007 | 1S03 | 0.0000 | 0 | Major groove minor groove platform; mini C-loop | B | 47-MER | A | 12 | A | 13 | A | 14 | C | 15 | * | G | 37 | U | 38 | cWW | cSH | ncSH | ntWH | ncWS | cWW |
| 8 | IL_1S03_003 | 1S03 | 0.0282 | 0 | Major groove minor groove platform; mini C-loop | A | 47-MER | A | 12 | A | 13 | A | 14 | C | 15 | * | G | 37 | U | 38 | cWW | cSH | ncSH | ntWH | ncWS | cWW |
| 9 | IL_4LFB_025 | 4LFB | 0.0808 | 0 | Major groove minor groove platform; mini C-loop | A | SSU rRNA | A | 640 | U | 641 | A | 642 | C | 643 | * | G | 597 | U | 598 | cWW | ncSH | ncSH | ncWS | cWW | |
| 10 | IL_1I6U_002 | 1I6U | 0.0955 | 0 | Major groove minor groove platform; mini C-loop | C | 16S RRNA FRAGMENT | A | 24 | U | 25 | A | 26 | C | 27 | * | G | 12 | U | 13 | cWW | cSH | ncSH | ncWS | cWW | |
| 11 | IL_5J7L_316 | 5J7L | 0.2468 | 0 | Major groove minor groove platform; mini C-loop | DA | LSU rRNA | G | 1846 | A | 1847 | A | 1848 | G | 1849 | * | C | 1893 | C | 1894 | cWW | ncSH | ncWB | ncWS | cWW | |
| 12 | IL_4V9F_103 | 4V9F | 0.2491 | 0 | Major groove minor groove platform; mini C-loop | 9 | 5S rRNA | G | 50 | A | 51 | A | 52 | G | 53 | * | C | 29 | C | 30 | cWW | cSH | ncWB | cWS | cWW | |
| 13 | IL_5FDV_113 | 5FDV | 0.2445 | 0 | Major groove minor groove platform; mini C-loop (H) | 1B | 5S rRNA | G | 51 | A | 52 | A | 53 | G | 54 | * | C | 30 | C | 31 | cWW | cSH | ncWB | cWS | cWW | |
| 14 | IL_5J7L_357 | 5J7L | 0.2723 | 0 | Major groove minor groove platform; mini C-loop | DB | 5S rRNA | G | 51 | A | 52 | A | 53 | G | 54 | * | C | 30 | C | 31 | cWW | ncSH | ncSH | ncWB | cWS | cWW |
| 15 | IL_4V8P_154 | 4V8P | 0.3258 | 0 | Major groove minor groove platform; mini C-loop (H) | C3 | 5S rRNA | G | 48 | A | 49 | A | 50 | G | 51 | * | C | 28 | C | 29 | cWW | ncWS | cWW | |||
| 16 | IL_4IOA_068 | 4IOA | 0.3234 | 0 | Major groove minor groove platform; mini C-loop (H) | X | LSU rRNA | G | 1838 | A | 1839 | A | 1840 | G | 1841 | * | C | 1876 | C | 1877 | cWW | ncSH | ntHS | ncWW | ||
| 17 | IL_4V8P_176 | 4V8P | 0.4108 | 0 | D1 | LSU rRNA | G | 507 | A | 508 | A | 509 | A | 510 | * | U | 469 | C | 470 | ncWW | ntSH | cWS | cWW | |||
| 18 | IL_4V8P_204 | 4V8P | 0.4712 | 4 | C-loop with bulged stacked A's (H) | D1 | LSU rRNA | G | 1025 | C | 1026 | A | 1029 | U | 1030 | * | A | 1072 | C | 1075 | cWW | tWH | cWS | cWW | ||
| 19 | IL_5J7L_272 | 5J7L | 0.4595 | 3 | C-loop | DA | LSU rRNA | G | 864 | C | 865 | C | 867 | U | 868 | * | A | 909 | C | 912 | cWW | cSH | tWH | cWS | cWW | |
| 20 | IL_4V9F_051 | 4V9F | 0.4690 | 2 | C-loop | 0 | LSU rRNA | G | 1425 | C | 1426 | C | 1428 | U | 1429 | * | A | 1437 | C | 1439 | cWW | cSH | tWH | cWS | cWW | |
| 21 | IL_4Y4O_227 | 4Y4O | 0.4626 | 2 | C-loop | 2A | LSU rRNA | G | 1319 | C | 1320 | A | 1322 | U | 1323 | * | A | 1331 | C | 1333 | cWW | tWH | cWS | cWW | ||
| 22 | IL_4IOA_049 | 4IOA | 0.5266 | 2 | C-loop | X | LSU rRNA | G | 1332 | G | 1333 | A | 1335 | G | 1336 | * | C | 1344 | C | 1346 | cWW | cWS | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GAAG*CC | 6 |
| AUAC*GU | 3 |
| AAAC*GU | 2 |
| CAGC*GG | 1 |
| GUAU*AC | 1 |
| GCAAU*AC | 1 |
| GAAU*AC | 1 |
| AUAU*AU | 1 |
| GAAA*UC | 1 |
| GCGAAU*AAAC | 1 |
| GCACU*AAAC | 1 |
| GCACU*AGC | 1 |
| GCAAU*AGC | 1 |
| GGAAG*CGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AA* | 10 |
| UA* | 5 |
| AG* | 1 |
| CAA* | 1 |
| CGAA*AA | 1 |
| CAC*AA | 1 |
| CAC*G | 1 |
| CAA*G | 1 |
| GAA*G | 1 |
Release history
| Release | 3.2 |
|---|---|
| Date | 2018-09-26 |
| Status | New id, no parents |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Major groove minor groove platform; mini C-loop (11)
- C-loop (5)
- Major groove minor groove platform; mini C-loop (H) (3)
- Minor groove platform, major groove intercalation (1)
- (1)
- C-loop with bulged stacked A's (H) (1)
- Basepair signature
- cWW-cSH-cWS-cWW
- Heat map statistics
- Min 0.03 | Avg 0.37 | Max 0.72
Coloring options: