Motif J5_62523.6 Version J5_62523.6 of this group appears in releases 3.95 to 3.97
| #S | Loop id | PDB | Disc | #Non-core | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | break | 10 | 11 | break | 12 | 13 | break | 14 | 15 | 16 | 17 | 18 | 19 | 20 | break | 21 | 22 | 23 | 1-3 | 1-23 | 5-23 | 9-10 | 11-12 | 13-14 | 15-18 | 15-19 | 20-21 | |||||||||||||||||||||||
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| 1 | J5_4WF9_005 | 4WF9 | 0.0000 | 2 | X | LSU rRNA | G | 1718 | C | 1719 | A | 1720 | A | 1721 | A | 1722 | A | 1723 | U | 1724 | G | 1725 | A | 1726 | * | U | 1750 | G | 1751 | * | C | 1778 | C | 1779 | * | G | 1783 | U | 1784 | A | 1786 | A | 1787 | U | 1788 | A | 1789 | G | 1791 | * | C | 2015 | A | 2016 | C | 2017 | cWW | ncsS | cWW | cWW | cWW | tWH | cWW | ||
| 2 | J5_7A0S_005 | 7A0S | 0.1429 | 2 | X | LSU rRNA | G | 1691 | C | 1692 | A | 1693 | A | 1694 | U | 1695 | C | 1696 | U | 1697 | C | 1698 | A | 1699 | * | U | 1723 | C | 1724 | * | G | 1742 | C | 1743 | * | G | 1747 | U | 1748 | A | 1750 | A | 1751 | U | 1752 | A | 1753 | G | 1755 | * | C | 1971 | G | 1972 | C | 1973 | cWW | ncWS | ncWW | cWW | cWW | ntWH | cWW | ||
| 3 | J5_9DFE_005 | 9DFE | 0.1626 | 2 | 1A | LSU rRNA | G | 1674 | C | 1675 | A | 1676 | A | 1677 | G | 1678 | U | 1679 | U | 1680 | G | 1681 | G | 1682 | * | U | 1706 | G | 1707 | * | C | 1751 | C | 1752 | * | G | 1756 | U | 1757 | A | 1759 | A | 1760 | C | 1761 | A | 1762 | G | 1764 | * | C | 1988 | G | 1989 | C | 1990 | ntSW | cWW | cWW | cWW | cWW | tWH | cWW | ||
| 4 | J5_4V9F_006 | 4V9F | 0.2475 | 2 | 0 | LSU rRNA | G | 1752 | C | 1753 | A | 1754 | A | 1755 | G | 1756 | U | 1757 | U | 1758 | A | 1759 | G | 1760 | * | U | 1784 | G | 1785 | * | U | 1807 | C | 1808 | * | G | 1812 | U | 1813 | A | 1815 | C | 1816 | U | 1817 | C | 1818 | G | 1820 | * | C | 2029 | A | 2030 | C | 2031 | cWW | ncsS | cWW | cWW | cWW | cwW | cWW | ||
| 5 | J5_5J7L_016 | 5J7L | 0.2343 | 2 | DA | LSU rRNA | G | 1674 | C | 1675 | A | 1676 | A | 1677 | A | 1678 | A | 1679 | U | 1680 | G | 1681 | G | 1682 | * | C | 1706 | G | 1707 | * | U | 1751 | C | 1752 | * | G | 1756 | A | 1757 | A | 1759 | C | 1760 | C | 1761 | A | 1762 | C | 1764 | * | G | 1988 | G | 1989 | C | 1990 | cWW | ncsS | cWW | cWW | cWW | cWW | |||
| 6 | J5_8P9A_013 | 8P9A | 0.2334 | 2 | AR | LSU rRNA | G | 1906 | C | 1907 | A | 1908 | A | 1909 | A | 1910 | A | 1911 | U | 1912 | A | 1913 | G | 1914 | * | U | 1938 | G | 1939 | * | U | 2109 | G | 2110 | * | C | 2114 | G | 2115 | A | 2117 | C | 2118 | A | 2119 | A | 2120 | G | 2122 | * | C | 2331 | A | 2332 | C | 2333 | cWW | ncsS | cWW | cWW | cWW | cWW | |||
| 7 | J5_8CRE_004 | 8CRE | 0.2343 | 2 | 1 | LSU rRNA | G | 1902 | C | 1903 | A | 1904 | A | 1905 | A | 1906 | A | 1907 | U | 1908 | A | 1909 | G | 1910 | * | U | 1934 | G | 1935 | * | U | 2087 | G | 2088 | * | C | 2092 | G | 2093 | A | 2095 | C | 2096 | A | 2097 | A | 2098 | G | 2100 | * | C | 2309 | A | 2310 | C | 2311 | cWW | ncsS | cWW | cWW | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GCAAAAUAG*UG*UG*CGGACAAGG*CAC | 2 |
| GCAAAAUGA*UG*CC*GUGAAUAGG*CAC | 1 |
| GCAAUCUCA*UC*GC*GUGAAUAGG*CGC | 1 |
| GCAAGUUGG*UG*CC*GUGAACAGG*CGC | 1 |
| GCAAGUUAG*UG*UC*GUGACUCGG*CAC | 1 |
| GCAAAAUGG*CG*UC*GAUACCAGC*GGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CAAAAUA***GGACAAG*A | 2 |
| CAAAAUG***UGAAUAG*A | 1 |
| CAAUCUC***UGAAUAG*G | 1 |
| CAAGUUG***UGAACAG*G | 1 |
| CAAGUUA***UGACUCG*A | 1 |
| CAAAAUG***AUACCAG*G | 1 |
- Annotations
-
- (7)
- Basepair signature
- cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW
- Heat map statistics
- Min 0.06 | Avg 0.20 | Max 0.45
Coloring options: