Motif IL_10838.1 Version IL_10838.1 of this group appears in releases 2.0 to 2.0
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | break | 5 | 6 | 7 | 1-7 | 2-3 | 2-4 | 2-5 | 2-6 | 3-6 | 4-5 | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | ➜ | 5AJ0 | 0.3983 | 0 | A2 | LSU rRNA | G | 1735 | U | 1736 | C | 1737 | U | 1738 | * | A | 1757 | A | 1758 | C | 1759 | cWW | ncSW | ncWW | cWW | ||||
2 | ➜ | 4V91 | 0.3537 | 1 | 1 | LSU rRNA | G | 1262 | G | 1264 | U | 1265 | G | 1266 | * | C | 1275 | U | 1276 | C | 1277 | cWW | cSH | cWW | cWW | ||||
3 | ➜ | 3J9W | 0.3601 | 1 | BA | LSU rRNA | G | 1133 | G | 1135 | U | 1136 | G | 1137 | * | C | 1146 | U | 1147 | C | 1148 | cWW | ncSH | cWW | cWW | ||||
4 | ➜ | 3J7P | 0.3151 | 1 | 5 | LSU rRNA | G | 2001 | G | 2003 | U | 2004 | G | 2005 | * | C | 2014 | U | 2015 | C | 2016 | cWW | cSH | cSH | cWW | cWW | |||
5 | ➜ | 4V88 | 0.2807 | 1 | A5 | LSU rRNA | G | 1262 | G | 1264 | U | 1265 | G | 1266 | * | C | 1275 | U | 1276 | C | 1277 | cWW | cSH | cWW | cWW | ||||
6 | ➜ | 5D8H | 0.2758 | 1 | Major groove platform with extra cWW | A | LSU rRNA | G | 1197 | G | 1199 | U | 1200 | G | 1201 | * | C | 1210 | U | 1211 | C | 1212 | cWW | cSH | cWW | cWW | |||
7 | ➜ | 1MMS | 0.3100 | 1 | D | 23S RIBOSOMAL RNA | G | 1087 | G | 1089 | U | 1090 | G | 1091 | * | C | 1100 | U | 1101 | C | 1102 | cWW | cSH | cWW | cWW | ||||
8 | ➜ | 5AN9 | 0.3763 | 1 | N | LSU rRNA | G | 1497 | G | 1499 | U | 1500 | G | 1501 | * | C | 1510 | U | 1511 | C | 1512 | cWW | cSH | cWW | cWW | ||||
9 | ➜ | 4V19 | 0.3057 | 0 | A | LSU rRNA | C | 284 | A | 285 | U | 286 | C | 287 | * | G | 302 | U | 303 | G | 304 | cWW | cSH | ntSH | cWW | cWW | |||
10 | ➜ | 3J7Y | 0.2401 | 0 | A | LSU rRNA | C | 1948 | G | 1949 | U | 1950 | C | 1951 | * | G | 1966 | U | 1967 | G | 1968 | cWW | cSH | ntSH | cWW | cWW | |||
11 | ➜ | 4BTS | 0.2393 | 1 | DA | SSU rRNA | U | 256 | G | 257 | U | 259 | C | 260 | * | G | 199 | U | 200 | A | 201 | cWW | ncSH | cWW | cWW | ||||
12 | ➜ | 3JAM | 0.2142 | 1 | 2 | SSU rRNA | U | 258 | U | 260 | U | 261 | C | 262 | * | G | 203 | U | 204 | A | 205 | cWW | cSH | cWW | cWW | ||||
13 | ➜ | 4V88 | 0.2399 | 1 | Major groove platform with extra cWW | A6 | SSU rRNA | U | 259 | U | 261 | U | 262 | C | 263 | * | G | 204 | U | 205 | A | 206 | cWW | cSH | cWW | cWW | |||
14 | ➜ | 5AJ0 | 0.1966 | 0 | A2 | LSU rRNA | G | 1568 | G | 1569 | U | 1570 | C | 1571 | * | G | 1587 | U | 1588 | C | 1589 | cWW | cSH | cWW | cWW | ||||
15 | ➜ | 3J7P | 0.2175 | 0 | 5 | LSU rRNA | G | 1586 | G | 1587 | U | 1588 | C | 1589 | * | G | 1605 | U | 1606 | C | 1607 | cWW | cSH | ntSH | cWW | cWW | |||
16 | ➜ | 4V88 | 0.1551 | 0 | A5 | LSU rRNA | G | 869 | G | 870 | U | 871 | U | 872 | * | A | 888 | U | 889 | C | 890 | cWW | cSH | cWW | cWW | ||||
17 | ➜ | 4V91 | 0.1414 | 0 | 1 | LSU rRNA | G | 869 | G | 870 | U | 871 | U | 872 | * | A | 888 | U | 889 | C | 890 | cWW | cSH | ntSH | cWW | cWW | |||
18 | ➜ | 4V8P | 0.1358 | 0 | F1 | LSU rRNA | G | 894 | A | 895 | U | 896 | A | 897 | * | U | 913 | U | 914 | C | 915 | cWW | cSH | tSH | cWW | cWW | |||
19 | ➜ | 3J79 | 0.0000 | 0 | A | LSU rRNA | G | 988 | A | 989 | U | 990 | A | 991 | * | U | 1007 | U | 1008 | C | 1009 | cWW | cSH | tSH | cWW | cWW | |||
20 | ➜ | 5FDU | 0.1342 | 0 | 1A | LSU rRNA | G | 785 | G | 786 | U | 787 | G | 788 | * | C | 803 | U | 804 | C | 805 | cWW | cSH | cWW | cWW | ||||
21 | ➜ | 4IOA | 0.1538 | 0 | X | LSU rRNA | G | 751 | G | 752 | U | 753 | G | 754 | * | C | 769 | U | 770 | C | 771 | cWW | cSH | cWW | cWW | ||||
22 | ➜ | 4V9F | 0.1698 | 0 | Major groove platform with extra cWW | 0 | LSU rRNA | G | 830 | U | 831 | U | 832 | G | 833 | * | C | 849 | U | 850 | C | 851 | cWW | cSH | cWW | cWW | |||
23 | ➜ | 5FDU | 0.2612 | 1 | 1A | LSU rRNA | G | 2501 | G | 2502 | U | 2504 | U | 2505 | * | A | 2471 | U | 2472 | C | 2473 | cWW | cSH | cWW | cWW | ||||
24 | ➜ | 4V19 | 0.2933 | 1 | A | LSU rRNA | G | 1310 | G | 1311 | U | 1313 | U | 1314 | * | A | 1280 | U | 1281 | C | 1282 | cWW | cSH | cWW | cWW | ||||
25 | ➜ | 5AJ0 | 0.3694 | 1 | A2 | LSU rRNA | U | 4397 | U | 4398 | U | 4400 | U | 4401 | * | G | 4367 | U | 4368 | G | 4369 | cWW | cWW | cWW | |||||
26 | ➜ | 4V88 | 0.3902 | 1 | A5 | LSU rRNA | U | 2858 | U | 2859 | U | 2861 | U | 2862 | * | G | 2828 | U | 2829 | G | 2830 | cWW | ncWH | cWW | cWW | ||||
27 | ➜ | 3J79 | 0.3404 | 1 | A | LSU rRNA | U | 3217 | U | 3218 | U | 3220 | U | 3221 | * | G | 3187 | U | 3188 | G | 3189 | cWW | ncSH | ncWW | cWW | cWW | |||
28 | ➜ | 4V8P | 0.3754 | 1 | F1 | LSU rRNA | U | 2846 | U | 2847 | U | 2849 | U | 2850 | * | G | 2816 | U | 2817 | G | 2818 | cWW | ncSH | cWW | cWW | ||||
29 | ➜ | 4V91 | 0.3944 | 1 | 1 | LSU rRNA | U | 2858 | U | 2859 | U | 2861 | U | 2862 | * | G | 2828 | U | 2829 | G | 2830 | cWW | ncSH | cWW | cWW | ||||
30 | ➜ | 3J7P | 0.3938 | 1 | 5 | LSU rRNA | U | 4435 | U | 4436 | U | 4438 | U | 4439 | * | G | 4405 | U | 4406 | G | 4407 | cWW | cWW | cWW | |||||
31 | ➜ | 4V9F | 0.3968 | 0 | Major groove platform with extra cWW | 0 | LSU rRNA | C | 440 | A | 441 | A | 442 | C | 443 | * | G | 39 | C | 40 | G | 41 | cWW | cSH | cWW | cWW | |||
32 | ➜ | 3PDR | 0.4397 | 0 | A | M-box riboswitch (ykoK leader) | C | 33 | U | 34 | C | 35 | C | 36 | * | G | 149 | U | 150 | G | 151 | cWW | cSH | cWW | ntHS | cWW | |||
33 | ➜ | 3J9W | 0.4799 | 1 | BA | LSU rRNA | G | 2518 | G | 2519 | U | 2521 | U | 2522 | * | A | 2488 | U | 2489 | C | 2490 | cWW | cSH | ncWH | cWW | ||||
34 | ➜ | 3P49 | 0.6763 | 1 | A | Glycine riboswitch | C | 34 | G | 35 | A | 37 | G | 38 | * | C | 51 | A | 52 | G | 53 | cWW | ncWW | ntHS | cWW | ||||
35 | ➜ | 3P49 | 0.6933 | 1 | A | Glycine riboswitch | C | 109 | G | 110 | A | 112 | G | 113 | * | C | 142 | A | 143 | G | 144 | cWW | ntHS | cWW | |||||
36 | ➜ | 1XJR | 0.7080 | 1 | Isolated basepair with bulged bases | A | s2m RNA | C | 9 | C | 10 | A | 12 | G | 13 | * | C | 39 | A | 40 | G | 41 | cWW | cWW | |||||
37 | ➜ | 3J9W | 0.7096 | 0 | BA | LSU rRNA | C | 480 | U | 481 | C | 482 | C | 483 | * | G | 43 | A | 44 | G | 45 | cWW | ncWW | ntWS | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
GAGUG*CUC | 7 |
UUUUU*GUG | 6 |
GGUUU*AUC | 3 |
GGUG*CUC | 2 |
CGAAG*CAG | 2 |
GGUU*AUC | 2 |
GAUA*UUC | 2 |
GGUC*GUC | 2 |
UUUUC*GUA | 2 |
CUCC*GAG | 1 |
CAUC*GUG | 1 |
CCGAG*CAG | 1 |
CUCC*GUG | 1 |
CGUC*GUG | 1 |
GUCU*AAC | 1 |
GUUG*CUC | 1 |
UGAUC*GUA | 1 |
CAAC*GCG | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
UUU*U | 8 |
AGU*U | 7 |
GU*U | 7 |
GUU*U | 3 |
AU*U | 3 |
GAA*A | 2 |
UC*A | 2 |
CGA*A | 1 |
UC*U | 1 |
UU*U | 1 |
GAU*U | 1 |
AA*C | 1 |
Release history
Release | 2.0 |
---|---|
Date | 2017-04-24 |
Status | New id, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Major groove platform with extra cWW (4)
- Isolated basepair with bulged bases (1)
- Basepair signature
- cWW-cSH-cWW-cWW
- Heat map statistics
- Min 0.07 | Avg 0.44 | Max 0.95
Coloring options: