Motif IL_47827.1 Version IL_47827.1 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 | break | 4 | 5 | 1-2 | 1-3 | 1-4 | 1-5 | 2-4 | 2-5 | 3-4 | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | ➜ | 5FDU | 0.6982 | 0 | 1A | LSU rRNA | U | 924 | A | 925 | G | 926 | * | C | 944 | A | 945 | cWW | ntWS | cWW | |||||
2 | ➜ | 3J9W | 0.6941 | 0 | BA | LSU rRNA | U | 924 | A | 925 | G | 926 | * | C | 945 | G | 946 | cWW | ntWW | cWW | |||||
3 | ➜ | 3JAM | 0.6782 | 0 | 2 | SSU rRNA | C | 1305 | U | 1306 | G | 1307 | * | C | 1316 | G | 1317 | cSW | cWW | cWW | |||||
4 | ➜ | 3J7A | 0.6245 | 0 | A | SSU rRNA | C | 1408 | U | 1409 | G | 1410 | * | C | 1419 | G | 1420 | ncSW | cWW | cWW | |||||
5 | ➜ | 3J7P | 0.6680 | 0 | S2 | SSU rRNA | C | 1521 | A | 1522 | C | 1523 | * | G | 1235 | G | 1236 | ncSS | cWW | ntWS | cWW | ||||
6 | ➜ | 4V88 | 0.5902 | 0 | Minor groove platform | A6 | SSU rRNA | C | 1459 | A | 1460 | C | 1461 | * | G | 1178 | G | 1179 | cWW | ntWS | cWW | ||||
7 | ➜ | 3JAM | 0.6151 | 0 | 2 | SSU rRNA | C | 1457 | A | 1458 | C | 1459 | * | G | 1177 | G | 1178 | cWW | cWW | ||||||
8 | ➜ | 3J7A | 0.5887 | 0 | A | SSU rRNA | C | 1705 | A | 1706 | C | 1707 | * | G | 1279 | G | 1280 | cWW | cWW | ||||||
9 | ➜ | 4V9F | 0.7104 | 0 | Single bulged A | 0 | LSU rRNA | U | 942 | A | 943 | G | 944 | * | C | 1023 | G | 1024 | cWW | cWW | |||||
10 | ➜ | 4R4V | 0.5314 | 0 | Minor groove platform | A | VS ribozyme RNA | U | 777 | U | 778 | A | 779 | * | U | 607 | G | 608 | cWW | cWW | |||||
11 | ➜ | 4R4V | 0.5314 | 0 | Minor groove platform | A | VS ribozyme RNA | U | 777||||7_556 | U | 778||||7_556 | A | 779||||7_556 | * | U | 607||||7_556 | G | 608||||7_556 | cWW | cWW | |||||
12 | ➜ | 5AJ0 | 0.4749 | 0 | A2 | LSU rRNA | G | 4857 | C | 4858 | G | 4859 | * | C | 4878 | C | 4879 | ncSH | cWW | cWW | |||||
13 | ➜ | 3J7P | 0.4203 | 0 | 5 | LSU rRNA | G | 1217 | G | 1218 | G | 1219 | * | C | 1081 | C | 1082 | ncSH | cWW | cWW | |||||
14 | ➜ | 4V4Q | 0.3863 | 0 | CA | SSU rRNA | A | 746 | A | 747 | G | 748 | * | C | 658 | U | 659 | cWW | ntHS | cWW | |||||
15 | ➜ | 5AJ0 | 0.2747 | 0 | A2 | LSU rRNA | U | 4033 | C | 4034 | G | 4035 | * | C | 3919 | A | 3920 | ncSH | cWW | cWW | |||||
16 | ➜ | 5A2Q | 0.2537 | 0 | 2 | SSU rRNA | G | 1108 | C | 1109 | G | 1110 | * | C | 1123 | C | 1124 | cWW | ntHS | cWW | |||||
17 | ➜ | 3J7P | 0.0000 | 0 | 5 | LSU rRNA | U | 1790 | U | 1791 | U | 1792 | * | A | 1737 | A | 1738 | cSH | cWW | ntHS | cWW | ||||
18 | ➜ | 4V88 | 0.1764 | 0 | A5 | LSU rRNA | U | 1050 | U | 1051 | U | 1052 | * | A | 997 | A | 998 | cWW | tHS | cWW | |||||
19 | ➜ | 5AJ0 | 0.1689 | 0 | A2 | LSU rRNA | U | 1772 | U | 1773 | U | 1774 | * | A | 1719 | A | 1720 | ncSH | cWW | tHS | cWW | ||||
20 | ➜ | 4V91 | 0.1819 | 0 | 1 | LSU rRNA | U | 1050 | U | 1051 | U | 1052 | * | A | 997 | A | 998 | cWW | tHS | cWW | |||||
21 | ➜ | 4V88 | 0.1798 | 0 | Minor groove platform | A6 | SSU rRNA | A | 518 | C | 519 | A | 520 | * | U | 532 | U | 533 | cWW | tHS | cWW | ||||
22 | ➜ | 5AJ3 | 0.2139 | 0 | A | SSU rRNA | G | 103 | A | 104 | G | 105 | * | C | 78 | C | 79 | ncSH | cWW | tHS | cWW | ||||
23 | ➜ | 1Y0Q | 0.2389 | 0 | Minor groove platform | A | Group I catalytic intron | A | 120 | C | 121 | G | 122 | * | C | 192 | U | 193 | cWW | ntHS | cWW | ||||
24 | ➜ | 3J9W | 0.2402 | 0 | BA | LSU rRNA | U | 960 | C | 961 | C | 962 | * | G | 909 | A | 910 | ncSH | cWW | ntHS | cWW | ||||
25 | ➜ | 4V9F | 0.1827 | 0 | Minor groove platform | 0 | LSU rRNA | U | 1009 | C | 1010 | C | 1011 | * | G | 956 | A | 957 | cSH | cWW | ntHS | cWW | |||
26 | ➜ | 5FDU | 0.1778 | 0 | 1A | LSU rRNA | U | 959 | C | 960 | C | 961 | * | G | 909 | A | 910 | cSH | cWW | ntHS | cWW | ||||
27 | ➜ | 4IOA | 0.2495 | 0 | Minor groove platform | X | LSU rRNA | U | 925 | C | 926 | C | 927 | * | G | 875 | A | 876 | cSH | cWW | ntHS | cWW | |||
28 | ➜ | 4V91 | 0.3200 | 1 | 1 | LSU rRNA | U | 2807 | C | 2809 | C | 2810 | * | G | 2412 | A | 2413 | ncSH | cWW | cWW | |||||
29 | ➜ | 4V19 | 0.3077 | 1 | A | LSU rRNA | U | 1259 | C | 1261 | C | 1262 | * | G | 1063 | A | 1064 | cSH | cWW | cWW | |||||
30 | ➜ | 5AJ0 | 0.3471 | 1 | A2 | LSU rRNA | U | 4346 | C | 4348 | C | 4349 | * | G | 3887 | A | 3888 | ncSH | cWW | cWW | |||||
31 | ➜ | 4V8P | 0.3326 | 1 | F1 | LSU rRNA | U | 2795 | C | 2797 | C | 2798 | * | G | 2407 | A | 2408 | cSH | cWW | ncWS | cWW | ||||
32 | ➜ | 4V88 | 0.3368 | 1 | A5 | LSU rRNA | U | 2807 | C | 2809 | C | 2810 | * | G | 2412 | A | 2413 | cSH | cWW | ntHS | cWW | ||||
33 | ➜ | 4IOA | 0.3184 | 1 | Minor groove platform | X | LSU rRNA | U | 2417 | C | 2419 | C | 2420 | * | G | 2053 | A | 2054 | cSH | cWW | ncWS | cWW | |||
34 | ➜ | 5AN9 | 0.3409 | 1 | N | LSU rRNA | U | 3140 | C | 3142 | C | 3143 | * | G | 2678 | A | 2679 | cSH | cWW | ntHS | cWW | ||||
35 | ➜ | 3J79 | 0.2988 | 1 | A | LSU rRNA | U | 3166 | C | 3168 | C | 3169 | * | G | 2705 | A | 2706 | cSH | cWW | ncWS | cWW | ||||
36 | ➜ | 5J7L | 0.2934 | 1 | Minor groove platform | DA | LSU rRNA | U | 2438 | C | 2440 | U | 2441 | * | A | 2070 | A | 2071 | cSH | cWW | cWW | ||||
37 | ➜ | 4V9F | 0.3030 | 1 | Minor groove platform | 0 | LSU rRNA | U | 2473 | C | 2475 | C | 2476 | * | G | 2111 | A | 2112 | cSH | cWW | ntHS | cWW | |||
38 | ➜ | 5FDU | 0.2894 | 1 | 1A | LSU rRNA | U | 2450 | C | 2452 | C | 2453 | * | G | 2092 | A | 2093 | cSH | cWW | cWW | |||||
39 | ➜ | 3J7Y | 0.3142 | 1 | A | LSU rRNA | U | 2925 | C | 2927 | C | 2928 | * | G | 2733 | A | 2734 | cSH | cWW | ncWS | cWW | ||||
40 | ➜ | 3J7P | 0.3586 | 1 | 5 | LSU rRNA | U | 4384 | C | 4386 | C | 4387 | * | G | 3916 | A | 3917 | cSH | cWW | ncWS | cWW | ||||
41 | ➜ | 3J9W | 0.3508 | 1 | BA | LSU rRNA | U | 2467 | C | 2469 | C | 2470 | * | G | 2099 | A | 2100 | ncSH | cWW | ntHS | cWW | ||||
42 | ➜ | 5AJ3 | 0.2991 | 0 | A | SSU rRNA | G | 710 | A | 711 | A | 712 | * | U | 559 | C | 560 | cSH | cWW | tHS | cWW | ||||
43 | ➜ | 1U6B | 0.2934 | 0 | Minor groove platform | B | 197-MER | G | 128 | A | 129 | G | 130 | * | C | 177 | C | 178 | cSH | cWW | tHS | cWW | |||
44 | ➜ | 3J9W | 0.3605 | 0 | AA | SSU rRNA | C | 1235 | A | 1236 | C | 1237 | * | G | 963 | G | 964 | ntWH | cWW | ntHS | cWW | ||||
45 | ➜ | 3J79 | 0.2438 | 0 | A | LSU rRNA | U | 1173 | C | 1174 | C | 1175 | * | G | 1119 | A | 1120 | cWW | ntHS | cWW | |||||
46 | ➜ | 1FJG | 0.2909 | 0 | A | SSU rRNA | C | 1226 | A | 1227 | C | 1228 | * | G | 953 | G | 954 | cWW | ntHS | cWW | |||||
47 | ➜ | 4BTS | 0.3433 | 0 | DA | SSU rRNA | C | 1430 | A | 1431 | C | 1432 | * | G | 1150 | G | 1151 | cWW | tHS | cWW | |||||
48 | ➜ | 4V4Q | 0.3796 | 0 | CA | SSU rRNA | C | 1226 | A | 1227 | C | 1228 | * | G | 953 | G | 954 | ncSH | ncWH | cWW | ntHS | cWW | |||
49 | ➜ | 5A2Q | 0.4413 | 0 | 2 | SSU rRNA | C | 1521 | A | 1522 | C | 1523 | * | G | 1235 | G | 1236 | cWW | ntHS | cWW | |||||
50 | ➜ | 3IWN | 0.5262 | 0 | Minor groove platform | A | C-di-GMP riboswitch | G | 89 | A | 90 | U | 91 | * | A | 2 | C | 3 | ncSH | cWW | cWW | ||||
51 | ➜ | 3J9W | 0.4588 | 0 | BA | LSU rRNA | U | 1448 | C | 1449 | C | 1450 | * | G | 1637 | A | 1638 | cSH | cWW | cWW | |||||
52 | ➜ | 3K0J | 0.4555 | 0 | Minor groove platform | E | RNA (87-MER) | C | 18 | C | 19 | U | 20 | * | A | 35 | G | 36 | ncSH | cWW | cWW | ||||
53 | ➜ | 2GDI | 0.4161 | 0 | Y | TPP riboswitch | C | 23 | C | 24 | U | 25 | * | A | 35 | G | 36 | cSH | cWW | cWW | |||||
54 | ➜ | 4V8P | 0.3949 | 0 | F1 | LSU rRNA | U | 3338 | C | 3339 | U | 3340 | * | A | 3281 | A | 3282 | ncSH | cWW | cWW | |||||
55 | ➜ | 5J7L | 0.2441 | 0 | Minor groove platform | DA | LSU rRNA | U | 434 | C | 435 | C | 436 | * | G | 43 | A | 44 | cSH | cWW | cWW | ||||
56 | ➜ | 5FDU | 0.3425 | 0 | 1A | LSU rRNA | U | 461 | C | 462 | C | 463 | * | G | 42 | A | 43 | cSH | cWW | cWW | |||||
57 | ➜ | 4IOA | 0.3391 | 0 | Minor groove platform | X | LSU rRNA | U | 447 | C | 448 | C | 449 | * | G | 42 | A | 43 | cSH | cWW | cWW | ||||
58 | ➜ | 3RW6 | 0.4498 | 1 | Minor groove platform | H | constitutive transport element(CTE)of Mason-Pfizer monkey virus RNA | U | 53 | A | 55 | U | 56 | * | A | 7 | A | 8 | ncSH | cWW | cWW | ||||
59 | ➜ | 4V91 | 0.6379 | 1 | 1 | LSU rRNA | C | 2196 | A | 2198 | G | 2199 | * | C | 2245 | G | 2246 | cWW | ntHS | cWW | |||||
60 | ➜ | 3J79 | 0.6361 | 1 | A | LSU rRNA | C | 2489 | A | 2491 | G | 2492 | * | C | 2538 | G | 2539 | cWW | ntHS | cWW | |||||
61 | ➜ | 5AJ0 | 0.6036 | 1 | A2 | LSU rRNA | C | 3671 | A | 3673 | G | 3674 | * | C | 3720 | G | 3721 | cWW | ntHS | cWW | |||||
62 | ➜ | 3J9W | 0.6248 | 1 | BA | LSU rRNA | C | 1866 | G | 1868 | G | 1869 | * | C | 1931 | G | 1932 | cWW | tHS | cWW | |||||
63 | ➜ | 3J7P | 0.5155 | 1 | 5+8 | LSU rRNA + 5.8S rRNA | C | 339 | G | 341 | G | 342 | * | C | 32 | G | 33 | cWW | cWW | ||||||
64 | ➜ | 5FDU | 0.4312 | 1 | 1A | LSU rRNA | G | 1877 | A | 1879 | G | 1880 | * | C | 1915 | C | 1916 | cWW | cWW | ||||||
65 | ➜ | 4V4Q | 0.4009 | 0 | CA | SSU rRNA | U | 1440 | A | 1441 | G | 1442 | * | C | 1460 | G | 1461 | cWW | ntHS | cWW | |||||
66 | ➜ | 2QWY | 0.3043 | 0 | Minor groove platform | C | SAM-II riboswitch | U | 40 | A | 41 | G | 42 | * | C | 23 | A | 24 | cWW | tHS | cWW | ||||
67 | ➜ | 5A2Q | 0.2491 | 0 | 2 | SSU rRNA | C | 1363 | U | 1364 | G | 1365 | * | C | 1374 | G | 1375 | cSH | cWW | tHS | cWW | ||||
68 | ➜ | 4BTS | 0.2121 | 0 | DA | SSU rRNA | C | 1278 | U | 1279 | G | 1280 | * | C | 1289 | G | 1290 | cSH | cWW | tHS | cWW | ||||
69 | ➜ | 4V88 | 0.3510 | 0 | Minor groove platform | A6 | SSU rRNA | C | 1306 | U | 1307 | G | 1308 | * | C | 1317 | G | 1318 | cSH | cWW | tHS | cWW | |||
70 | ➜ | 3J7Y | 0.3510 | 0 | A | LSU rRNA | U | 2955 | A | 2956 | G | 2957 | * | C | 2967 | A | 2968 | cWW | tHS | cWW | |||||
71 | ➜ | 4V8P | 0.3534 | 0 | F1 | LSU rRNA | C | 470 | A | 471 | C | 472 | * | G | 506 | G | 507 | cWW | ntHS | cWW | |||||
72 | ➜ | 3J9M | 0.5375 | 0 | AA | SSU rRNA | C | 694 | A | 695 | U | 696 | * | A | 819 | G | 820 | cWW | ntHS | cWW | |||||
73 | ➜ | 4BTS | 0.4603 | 0 | DA | SSU rRNA | C | 49 | A | 50 | U | 51 | * | A | 420 | G | 421 | cWW | tHS | cWW | |||||
74 | ➜ | 3J9W | 0.4528 | 0 | AA | SSU rRNA | C | 56 | A | 57 | U | 58 | * | A | 364 | G | 365 | cWW | tHS | cWW | |||||
75 | ➜ | 4V88 | 0.4793 | 0 | Minor groove platform | A6 | SSU rRNA | C | 50 | A | 51 | U | 52 | * | A | 428 | G | 429 | cWW | tHS | cWW | ||||
76 | ➜ | 1FJG | 0.5144 | 0 | A | SSU rRNA | C | 54 | A | 55 | U | 56 | * | A | 356 | G | 357 | cWW | tHS | cWW | |||||
77 | ➜ | 4V4Q | 0.5389 | 0 | CA | SSU rRNA | C | 54 | A | 55 | U | 56 | * | A | 356 | G | 357 | cWW | tHS | cWW | |||||
78 | ➜ | 5A2Q | 0.4918 | 0 | 2 | SSU rRNA | C | 49 | A | 50 | U | 51 | * | A | 476 | G | 477 | cWW | tHS | cWW | |||||
79 | ➜ | 5AJ3 | 0.5537 | 0 | A | SSU rRNA | C | 48 | A | 49 | U | 50 | * | A | 175 | G | 176 | cWW | tHS | cWW | |||||
80 | ➜ | 3J7A | 0.5176 | 0 | A | SSU rRNA | C | 50 | A | 51 | U | 52 | * | A | 434 | G | 435 | cWW | tHS | cWW | |||||
81 | ➜ | 3JAM | 0.5046 | 0 | 2 | SSU rRNA | C | 50 | A | 51 | U | 52 | * | A | 427 | G | 428 | cWW | tHS | cWW | |||||
82 | ➜ | 1FJG | 0.5176 | 0 | A | SSU rRNA | C | 1260 | A | 1261 | C | 1262 | * | G | 1273 | G | 1274 | cWW | tHS | cWW | |||||
83 | ➜ | 4UYK | 0.4251 | 0 | Minor groove platform | R | SRP RNA | C | 122 | A | 123 | C | 124 | * | G | 77 | G | 78 | tHS | cWW | |||||
84 | ➜ | 3J9W | 0.5543 | 2 | AA | SSU rRNA | U | 1208 | U | 1211 | C | 1212 | * | G | 1067 | G | 1068 | cWW | tHS | cWW | |||||
85 | ➜ | 4V4Q | 0.5909 | 2 | CA | SSU rRNA | U | 1199 | U | 1202 | C | 1203 | * | G | 1057 | G | 1058 | cWW | tHS | cWW | |||||
86 | ➜ | 1FJG | 0.6352 | 2 | A | SSU rRNA | U | 1199 | G | 1202 | C | 1203 | * | G | 1057 | G | 1058 | cWW | tHS | cWW |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
UACC*GA | 13 |
CAC*GG | 12 |
CAU*AG | 10 |
UCC*GA | 9 |
CUG*CG | 5 |
UUU*AA | 4 |
UAG*CG | 3 |
CCAG*CG | 3 |
UAG*CA | 3 |
UUA*UG | 2 |
CCU*AG | 2 |
CCGG*CG | 2 |
GAG*CC | 2 |
GCG*CC | 2 |
UCAUC*GG | 2 |
GAAG*CC | 1 |
UAAU*AA | 1 |
UCAGC*GG | 1 |
UCU*AA | 1 |
UACU*AA | 1 |
AAG*CU | 1 |
GGG*CC | 1 |
UCG*CA | 1 |
ACA*UU | 1 |
GAA*UC | 1 |
ACG*CU | 1 |
GAU*AC | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
A* | 33 |
C* | 17 |
AC* | 14 |
U* | 11 |
CA* | 3 |
CAU* | 2 |
AA* | 2 |
CG* | 2 |
CAG* | 1 |
G* | 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
-
- Minor groove platform (20)
- Single bulged A (1)
- Basepair signature
- cWW-cSH-tHS-cWW
- Heat map statistics
- Min 0.04 | Avg 0.53 | Max 0.98
Coloring options: