Motif IL_42675.1 Version IL_42675.1 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 | 5 | break | 6 | 7 | 1-3 | 1-7 | 2-3 | 2-4 | 2-5 | 2-6 | 2-7 | 3-7 | 4-6 | 4-7 | 5-6 | 5-7 | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | ➜ | 5AN9 | 0.5049 | 2 | N | LSU rRNA | U | 3383 | C | 3384 | A | 3385 | C | 3386 | U | 3387 | * | A | 3427 | A | 3430 | cWW | ntHH | ncWS | cWS | cWW | ||||||||
2 | ➜ | 3J7P | 0.3828 | 1 | 5 | LSU rRNA | U | 2415 | G | 2416 | A | 2417 | A | 2418 | C | 2419 | * | G | 2427 | A | 2429 | ncSH | cWW | ntSH | cWS | cWW | ||||||||
3 | ➜ | 4IOA | 0.4092 | 1 | C-loop | X | LSU rRNA | G | 1332 | G | 1333 | A | 1334 | A | 1335 | G | 1336 | * | C | 1344 | C | 1346 | ncSH | cWW | cWS | cWW | ||||||||
4 | ➜ | 3J9W | 0.4190 | 1 | BA | LSU rRNA | G | 1358 | G | 1359 | A | 1360 | A | 1361 | G | 1362 | * | C | 1370 | C | 1372 | ncSH | cWW | ncSH | cWS | cWW | ||||||||
5 | ➜ | 4V9F | 0.2632 | 1 | C-loop | 0 | LSU rRNA | G | 1425 | C | 1426 | A | 1427 | C | 1428 | U | 1429 | * | A | 1437 | C | 1439 | cWW | cSH | tWH | cWS | cWW | |||||||
6 | ➜ | 5J7L | 0.2263 | 2 | C-loop | DA | LSU rRNA | G | 864 | C | 865 | A | 866 | C | 867 | U | 868 | * | A | 909 | C | 912 | cWW | cSH | tWH | cWS | cWW | |||||||
7 | ➜ | 4V19 | 0.3486 | 1 | A | LSU rRNA | C | 1481 | C | 1482 | A | 1483 | A | 1484 | C | 1485 | * | G | 1495 | G | 1497 | cWW | ncSH | ntSW | tWH | ntHS | cWS | cWW | ||||||
8 | ➜ | 4V9F | 0.3177 | 1 | C-loop | 0 | LSU rRNA | C | 2717 | C | 2718 | A | 2719 | C | 2720 | U | 2721 | * | A | 2761 | G | 2763 | cWW | cSH | tWH | ntHS | ncWS | cWW | ||||||
9 | ➜ | 3J9W | 0.2268 | 1 | BA | LSU rRNA | C | 2709 | C | 2710 | G | 2711 | C | 2712 | U | 2713 | * | A | 2754 | G | 2756 | cWW | ncSH | tWH | cWW | |||||||||
10 | ➜ | 5B2Q | 0.1985 | 1 | B | Guide RNA | C | 76 | C | 77 | U | 78 | C | 79 | U | 80 | * | A | 88 | G | 90 | cWW | cSH | tWH | ntHS | ncWS | cWW | |||||||
11 | ➜ | 5FDU | 0.1771 | 1 | 1A | LSU rRNA | C | 2692 | C | 2693 | U | 2694 | C | 2695 | U | 2696 | * | A | 2738 | G | 2740 | cWW | cSH | tWH | ntHS | ncWS | cWW | |||||||
12 | ➜ | 5J7L | 0.1354 | 1 | C-loop | DA | LSU rRNA | U | 2680 | C | 2681 | A | 2682 | C | 2683 | U | 2684 | * | A | 2725 | A | 2727 | ncSH | cWW | cSH | tWH | cWS | cWW | ||||||
13 | ➜ | 4IOA | 0.2034 | 1 | C-loop | X | LSU rRNA | C | 2659 | C | 2660 | G | 2661 | C | 2662 | U | 2663 | * | A | 2705 | G | 2707 | cWW | cSH | tWH | ntHS | ncWS | cWW | ||||||
14 | ➜ | 4JRC | 0.2028 | 1 | C-loop | B | Distal Stem I region of the glyQS T box leader RNA | C | 29 | C | 30 | U | 31 | C | 32 | U | 33 | * | A | 73 | G | 75 | cWW | cSH | tWH | ntHS | ncWS | cWW | ||||||
15 | ➜ | 4MGN | 0.2049 | 1 | C-loop | A | glyQS T box riboswitch | C | 29 | C | 30 | U | 31 | C | 32 | U | 33 | * | A | 73 | G | 75 | ncSH | cWW | cSH | ntWH | ntHS | ncWS | cWW | |||||
16 | ➜ | 5A2Q | 0.1328 | 2 | 2 | SSU rRNA | U | 1681 | C | 1682 | C | 1683 | C | 1684 | U | 1685 | * | A | 1214 | A | 1217 | ncSH | cWW | ncSH | ncSH | tWH | ncWS | cWW | ||||||
17 | ➜ | 3JAM | 0.0000 | 2 | 2 | SSU rRNA | U | 1615 | C | 1616 | C | 1617 | C | 1618 | U | 1619 | * | A | 1156 | A | 1159 | ncSH | cWW | cSH | tWH | cWS | cWW | |||||||
18 | ➜ | 4V88 | 0.1017 | 2 | C-loop | A6 | SSU rRNA | U | 1617 | C | 1618 | C | 1619 | C | 1620 | U | 1621 | * | A | 1157 | A | 1160 | ncSH | cWW | cSH | cSH | tWH | cWS | cWW | |||||
19 | ➜ | 4BTS | 0.1187 | 1 | DA | SSU rRNA | U | 1589 | C | 1590 | C | 1591 | C | 1592 | U | 1593 | * | A | 1130 | A | 1132 | ncSH | cWW | cSH | tWH | cWS | cWW | |||||||
20 | ➜ | 1KOG | 0.1272 | 1 | P | Threonyl-tRNA synthetase mRNA | C | 96 | C | 97 | A | 98 | C | 99 | U | 100 | * | A | 74 | G | 76 | cSH | cWW | cSH | tWH | ncWS | cWW | |||||||
21 | ➜ | 1KOG | 0.1272 | 1 | P | Threonyl-tRNA synthetase mRNA | C | 96||||2_656 | C | 97||||2_656 | A | 98||||2_656 | C | 99||||2_656 | U | 100||||2_656 | * | A | 74||||2_656 | G | 76||||2_656 | cSH | cWW | cSH | tWH | ncWS | cWW | |||||||
22 | ➜ | 3J7P | 0.1762 | 2 | S2 | SSU rRNA | U | 1681 | C | 1682 | C | 1683 | C | 1684 | U | 1685 | * | A | 1214 | A | 1217 | cSH | cWW | cSH | tWH | ncWS | cWS | cWW | ||||||
23 | ➜ | 3J79 | 0.3583 | 3 | A | LSU rRNA | G | 1121 | A | 1122 | A | 1124 | A | 1125 | U | 1126 | * | A | 1169 | C | 1172 | ntSW | cWW | ncSH | ntWH | ncWW | cWS | cWW | ||||||
24 | ➜ | 4V91 | 0.3085 | 3 | 1 | LSU rRNA | G | 999 | C | 1000 | A | 1002 | A | 1003 | U | 1004 | * | A | 1046 | C | 1049 | cWW | ncSH | tWH | ncWW | cWS | cWW | |||||||
25 | ➜ | 4V88 | 0.3130 | 3 | A5 | LSU rRNA | G | 999 | C | 1000 | A | 1002 | A | 1003 | U | 1004 | * | A | 1046 | C | 1049 | cWW | tWH | cWS | cWW | |||||||||
26 | ➜ | 5AJ0 | 0.3466 | 3 | A2 | LSU rRNA | G | 1721 | C | 1722 | A | 1724 | A | 1725 | U | 1726 | * | A | 1768 | C | 1771 | cWW | ncSH | tWH | cWS | cWW | ||||||||
27 | ➜ | 4V8P | 0.3223 | 3 | F1 | LSU rRNA | G | 1025 | C | 1026 | A | 1028 | A | 1029 | U | 1030 | * | A | 1072 | C | 1075 | ntSW | cWW | tWH | cWS | cWW | ncWS | |||||||
28 | ➜ | 3J7P | 0.3801 | 3 | 5 | LSU rRNA | G | 1739 | C | 1740 | A | 1742 | A | 1743 | U | 1744 | * | A | 1786 | C | 1789 | ntSW | cWW | ncSH | tWH | cWS | cWW | |||||||
29 | ➜ | 4IOA | 0.2518 | 2 | C-loop | X | LSU rRNA | G | 877 | C | 878 | A | 879 | C | 880 | U | 881 | * | A | 921 | C | 924 | tSW | cWW | cSH | tWH | cWS | cWW | ||||||
30 | ➜ | 5FDU | 0.2595 | 2 | 1A | LSU rRNA | G | 911 | C | 912 | A | 913 | C | 914 | U | 915 | * | A | 955 | C | 958 | tSW | cWW | ncSH | tWH | cWS | cWW | |||||||
31 | ➜ | 4V4Q | 0.3536 | 0 | CA | SSU rRNA | A | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | U | 390 | ncSH | cWW | ncSH | ntWH | cWS | cWW | |||||||
32 | ➜ | 3J9W | 0.3765 | 0 | AA | SSU rRNA | G | 379 | C | 380 | A | 381 | A | 382 | U | 383 | * | A | 397 | C | 398 | cWW | cSH | tWH | ncWW | cWS | cWW | |||||||
33 | ➜ | 1FJG | 0.3388 | 0 | A | SSU rRNA | G | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | C | 390 | cWW | cSH | tWH | cWS | cWW | ||||||||
34 | ➜ | 3J9M | 0.3217 | 0 | AA | SSU rRNA | G | 834 | C | 835 | A | 836 | A | 837 | U | 838 | * | A | 852 | C | 853 | cWW | ncSH | tWH | cWS | cWW | ||||||||
35 | ➜ | 5AJ3 | 0.3172 | 0 | A | SSU rRNA | G | 190 | C | 191 | C | 192 | A | 193 | U | 194 | * | A | 208 | C | 209 | cWW | tWH | cWS | cWW | |||||||||
36 | ➜ | 3J7P | 0.3783 | 0 | S2 | SSU rRNA | C | 491 | C | 492 | A | 493 | C | 494 | U | 495 | * | A | 508 | G | 509 | cSH | cWW | ntWH | ncWS | cWW | ||||||||
37 | ➜ | 4V8P | 0.5505 | 0 | G3 | 5S rRNA | U | 52 | U | 53 | A | 54 | A | 55 | G | 56 | * | C | 26 | A | 27 | ncSH | cWW | ncWW | ncHS | ncWS | ||||||||
38 | ➜ | 1FJG | 0.8662 | 0 | A | SSU rRNA | C | 1128 | C | 1129 | A | 1130 | G | 1131 | C | 1132 | * | G | 1142 | G | 1143 | ncSH | cWW | ncWS | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
GCGAAU*AAAC | 5 |
UCCCU*ACCA | 4 |
CCUCU*ACG | 3 |
GCAAU*AC | 3 |
GCACU*AAAC | 3 |
CCGCU*AUG | 2 |
GGAAG*CGC | 2 |
CCACU*AUG | 2 |
ACAAU*AU | 1 |
GCCAU*AC | 1 |
CCAGC*GG | 1 |
UUAAG*CA | 1 |
CCACU*AG | 1 |
GAUAAU*AAAC | 1 |
UCACU*AAA | 1 |
GCACU*AGC | 1 |
UGAAC*GAA | 1 |
CCAAC*GCG | 1 |
CCACU*ACG | 1 |
UCACU*ACCA | 1 |
CCUCU*AUG | 1 |
UCCCU*ACA | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
CGAA*AA | 5 |
CAA* | 4 |
CCC*CC | 4 |
CUC*C | 3 |
CAC*AA | 3 |
CGC*U | 2 |
CAC*U | 2 |
GAA*G | 2 |
AUAA*AA | 1 |
CCA* | 1 |
CAG* | 1 |
UAA* | 1 |
CAC* | 1 |
CAC*A | 1 |
CAC*G | 1 |
GAA*A | 1 |
CAA*C | 1 |
CAC*C | 1 |
CAC*CC | 1 |
CUC*U | 1 |
CCC*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
-
- C-loop (10)
- Basepair signature
- cWW-tWH-cSH-L-cWS-cWW
- Heat map statistics
- Min 0.08 | Avg 0.39 | Max 0.98
Coloring options: