Motif IL_50694.3 Version IL_50694.3 of this group appears in releases 3.87 to 3.88
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | break | 5 | 6 | 1-6 | 2-3 | 2-4 | 2-5 | 4-5 | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | IL_4W90_004 | 4W90 | 0.1957 | 0 | Major groove platform; stack outside cWW | C | cyclic di-AMP riboswitch | C | 96 | G | 97 | U | 98 | C | 99 | * | G | 58 | G | 59 | cWW | ntSH | cWW | ||
2 | IL_4QK9_003 | 4QK9 | 0.2247 | 0 | Major groove platform; stack outside cWW | A | C-di-AMP riboswitch | C | 93 | G | 94 | U | 95 | C | 96 | * | G | 43 | G | 44 | cWW | ntSH | |||
3 | IL_4QLM_004 | 4QLM | 0.1910 | 0 | Major groove platform; stack outside cWW | A | cyclic di-AMP riboswitch | C | 91 | G | 92 | U | 93 | C | 94 | * | G | 39 | G | 40 | cWW | tSH | cWW | ||
4 | IL_5TBW_076 | 5TBW | 0.2260 | 0 | Major groove platform; stack outside cWW | 1 | LSU rRNA | G | 1898 | G | 1899 | A | 1900 | A | 1901 | * | U | 2336 | C | 2337 | cWW | tSH | cWW | ||
5 | IL_8C3A_082 | 8C3A | 0.2261 | 0 | 1 | LSU rRNA | G | 1894 | G | 1895 | A | 1896 | A | 1897 | * | U | 2314 | C | 2315 | cWW | tSH | cWW | |||
6 | IL_7A0S_061 | 7A0S | 0.2265 | 0 | Major groove platform; stack outside cWW | X | LSU rRNA | G | 1683 | G | 1684 | A | 1685 | A | 1686 | * | U | 1976 | C | 1977 | cWW | tSH | cWW | ||
7 | IL_4V9F_061 | 4V9F | 0.2092 | 0 | Major groove platform; stack outside cWW | 0 | LSU rRNA | G | 1744 | G | 1745 | A | 1746 | A | 1747 | * | U | 2034 | C | 2035 | tSH | cWW | |||
8 | IL_4WF9_064 | 4WF9 | 0.2054 | 0 | Major groove platform; stack outside cWW | X | LSU rRNA | G | 1710 | G | 1711 | A | 1712 | A | 1713 | * | U | 2020 | C | 2021 | cWW | tSH | cWW | ||
9 | IL_5J7L_306 | 5J7L | 0.1864 | 0 | Major groove platform; stack outside cWW | DA | LSU rRNA | G | 1666 | G | 1667 | A | 1668 | A | 1669 | * | U | 1993 | C | 1994 | tSH | cWW | |||
10 | IL_8VTW_065 | 8VTW | 0.1510 | 0 | 1A | LSU rRNA | G | 1666 | G | 1667 | A | 1668 | A | 1669 | * | U | 1993 | C | 1994 | cWW | tSH | cWW | |||
11 | IL_1G1X_004 | 1G1X | 0.1478 | 0 | Major groove platform; stack outside cWW | J+I | 16S RIBOSOMAL RNA | U | 751 | G | 752 | A | 753 | C | 754 | * | G | 654 | A | 655 | cWW | tSH | cWW | ||
12 | IL_1KUQ_001 | 1KUQ | 0.1286 | 0 | Major groove platform; stack outside cWW | B | 16S RIBOSOMAL RNA FRAGMENT | U | 50 | G | 51 | A | 52 | C | 53 | * | G | 18 | A | 19 | cWW | ncSH | tSH | ||
13 | IL_5J7L_031 | 5J7L | 0.0783 | 0 | Major groove platform; stack outside cWW | AA | SSU rRNA | U | 751 | G | 752 | A | 753 | C | 754 | * | G | 654 | A | 655 | cWW | ncSH | tSH | ||
14 | IL_4LFB_027 | 4LFB | 0.0000 | 0 | Major groove platform; stack outside cWW | A | SSU rRNA | U | 751 | G | 752 | A | 753 | C | 754 | * | G | 654 | A | 655 | cWW | tSH | |||
15 | IL_1G1X_001 | 1G1X | 0.1032 | 0 | Major groove platform; stack outside cWW | E+D | 16S RIBOSOMAL RNA | U | 751 | G | 752 | A | 753 | C | 754 | * | G | 654 | A | 655 | cWW | tSH | cWW | ||
16 | IL_6CZR_139 | 6CZR | 0.1550 | 0 | Major groove platform; stack outside cWW | 1a | SSU rRNA | U | 735 | G | 736 | A | 737 | C | 738 | * | G | 638 | A | 639 | cWW | cWW | |||
17 | IL_6N5P_003 | 6N5P | 0.1575 | 0 | Major groove platform; stack outside cWW | A | cyclic di-AMP riboswitch | C | 94 | G | 95 | A | 96 | C | 97 | * | G | 44 | G | 45 | tSH | ||||
18 | IL_4V88_428 | 4V88 | 0.2006 | 0 | Major groove platform; stack outside cWW | A6 | SSU rRNA | C | 962 | A | 963 | U | 964 | U | 965 | * | A | 865 | G | 866 | cWW | cWW | |||
19 | IL_8VTW_049 | 8VTW | 0.1803 | 0 | 1A | LSU rRNA | G | 1310 | G | 1311 | U | 1312 | U | 1313 | * | A | 1603 | C | 1604 | cWW | cSH | cWW | |||
20 | IL_4WF9_049 | 4WF9 | 0.2278 | 0 | Major groove platform; stack outside cWW | X | LSU rRNA | G | 1347 | U | 1348 | U | 1349 | U | 1350 | * | A | 1647 | C | 1648 | cWW | ||||
21 | IL_4V9F_008 | 4V9F | 0.2295 | 0 | Major groove platform; stack outside cWW | 0 | LSU rRNA | C | 245 | G | 246 | A | 247 | A | 248 | * | U | 265 | G | 266 | cWW | tSH | cWW | ||
22 | IL_5J7L_290 | 5J7L | 0.2524 | 0 | Major groove platform; stack outside cWW | DA | LSU rRNA | G | 1310 | G | 1311 | U | 1312 | U | 1313 | * | A | 1603 | C | 1604 | cWW | cWW | |||
23 | IL_4V9F_050 | 4V9F | 0.2655 | 0 | Major groove platform; stack outside cWW | 0 | LSU rRNA | G | 1416 | G | 1417 | U | 1418 | U | 1419 | * | A | 1678 | C | 1679 | cWW | cWW | |||
24 | IL_7A0S_046 | 7A0S | 0.2812 | 0 | Major groove platform; stack outside cWW | X | LSU rRNA | G | 1323 | G | 1324 | U | 1325 | U | 1326 | * | A | 1619 | C | 1620 | cWW | cWW | |||
25 | IL_3D0U_004 | 3D0U | 0.4610 | 0 | Major groove platform; stack outside cWW | A | Lysine Riboswitch RNA | C | 35 | A | 36 | U | 37 | C | 38 | * | G | 51 | G | 52 | cWW | cSH | cWW | ||
26 | IL_3DIL_004 | 3DIL | 0.5154 | 0 | Major groove platform; stack outside cWW | A | RNA (174-MER) | C | 38 | A | 39 | U | 40 | C | 41 | * | G | 54 | G | 55 | cWW | cWW | |||
27 | IL_1NTA_003 | 1NTA | 0.3856 | 0 | Major groove platform; stack outside cWW | A+B | RNA (22-mer) + RNA (18-mer) | C | 15 | U | 16 | U | 17 | C | 18 | * | G | 110 | G | 111 | cWW | ncSH | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
GGAA*UC | 7 |
UGAC*GA | 6 |
GGUU*AC | 4 |
CGUC*GG | 3 |
CAUC*GG | 2 |
CGAC*GG | 1 |
CAUU*AG | 1 |
GUUU*AC | 1 |
CGAA*UG | 1 |
CUUC*GG | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
GA* | 15 |
GU* | 7 |
AU* | 3 |
UU* | 2 |
- Annotations
-
- Major groove platform; stack outside cWW (24)
- (3)
- Basepair signature
- cWW-tSH-cWW-L
- Heat map statistics
- Min 0.06 | Avg 0.28 | Max 0.78
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