Motif HL_58029.1 Version HL_58029.1 of this group appears in releases 3.88 to 3.88
#S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | 2-5 | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | HL_7Z4D_003 | 7Z4D | 0.4384 | 0 | A | sgRNA | U | 72 | G | 73 | A | 74 | A | 75 | A | 76 | A | 77 | cWW | ||
2 | HL_4V9F_022 | 4V9F | 0.4667 | 0 | GNRA | 0 | LSU rRNA | U | 733 | U | 734 | C | 735 | A | 736 | A | 737 | G | 738 | cWW | |
3 | HL_8DP3_003 | 8DP3 | 0.4318 | 0 | R | RNA (90-MER) | U | 62 | C | 63 | A | 64 | C | 65 | C | 66 | G | 67 | cWW | ||
4 | HL_4LFB_002 | 4LFB | 0.5005 | 1 | A | SSU rRNA | G | 80 | U | 81 | U | 83 | U | 84 | A | 88 | C | 89 | cWW | ||
5 | HL_4QLM_001 | 4QLM | 0.4094 | 0 | GNRA | A | cyclic di-AMP riboswitch | C | 54 | G | 55 | A | 56 | A | 57 | A | 58 | G | 59 | cWW | ntSH |
6 | HL_7A0S_005 | 7A0S | 0.3162 | 0 | GNRA | X | LSU rRNA | C | 146 | G | 147 | C | 148 | A | 149 | A | 150 | G | 151 | cWW | ntSH |
7 | HL_3IGI_004 | 3IGI | 0.2944 | 1 | A | Group IIC intron | G | 135 | G | 136 | A | 137 | C | 139 | A | 140 | C | 141 | cWW | ntSH | |
8 | HL_6ASO_001 | 6ASO | 0.3152 | 1 | I | U6 snRNA | U | 70 | G | 71 | C | 72 | U | 74 | A | 75 | A | 76 | ncWW | tSH | |
9 | HL_4V9F_036 | 4V9F | 0.3100 | 1 | GNRA variation | 0 | LSU rRNA | G | 1468 | C | 1469 | A | 1470 | A | 1471 | C | 1472 | C | 1474 | cWW | tSHa |
10 | HL_4WF9_021 | 4WF9 | 0.3165 | 1 | GNRA with one bulged base | X | LSU rRNA | U | 686 | G | 687 | A | 688 | A | 689 | A | 691 | G | 692 | cWW | ntSH |
11 | HL_8VTW_020 | 8VTW | 0.2829 | 1 | 1A | LSU rRNA | C | 641 | G | 642 | A | 643 | A | 644 | A | 646 | G | 647 | cWW | ntSH | |
12 | HL_5O7H_001 | 5O7H | 0.2103 | 1 | GNRA with one bulged base | A | crRNA | C | 32 | G | 33 | C | 34 | A | 35 | A | 37 | G | 38 | cWW | ntSH |
13 | HL_6VMY_001 | 6VMY | 0.2226 | 1 | A | Cobalamin riboswitch | U | 223 | G | 224 | A | 225 | A | 226 | A | 228 | A | 229 | cWW | ntSH | |
14 | HL_1XJR_001 | 1XJR | 0.2006 | 1 | GNRA with one bulged base | A | s2m RNA | G | 21 | G | 22 | A | 23 | G | 24 | A | 26 | C | 27 | cWW | tSH |
15 | HL_5TBW_042 | 5TBW | 0.3179 | 1 | GNRA with one bulged base | 1 | LSU rRNA | U | 1862 | G | 1863 | A | 1864 | A | 1865 | A | 1867 | G | 1868 | cWW | tSH |
16 | HL_8C3A_042 | 8C3A | 0.2926 | 1 | GNRA with one bulged base (H) | 1 | LSU rRNA | U | 1858 | U | 1859 | A | 1860 | A | 1861 | A | 1863 | G | 1864 | cWW | ntSH |
17 | HL_4V9F_016 | 4V9F | 0.2342 | 1 | GNRA with one bulged base | 0 | LSU rRNA | U | 493 | C | 494 | A | 495 | G | 496 | A | 498 | G | 499 | cWW | ntSH |
18 | HL_3DIL_003 | 3DIL | 0.1992 | 1 | A | RNA (174-MER) | G | 124 | G | 125 | A | 126 | A | 127 | A | 129 | C | 130 | cWW | tSH | |
19 | HL_5LM7_001 | 5LM7 | 0.1615 | 1 | GNRA with one bulged base | G | RNA (29-MER) | U | 21 | G | 22 | A | 23 | A | 24 | A | 26 | A | 27 | cWW | ntSH |
20 | HL_3D0U_003 | 3D0U | 0.1520 | 1 | GNRA with one bulged base | A | Lysine Riboswitch RNA | G | 121 | G | 122 | A | 123 | A | 124 | A | 126 | C | 127 | cWW | tSH |
21 | HL_4AL5_001 | 4AL5 | 0.1022 | 1 | GNRA with one bulged base | B | RNA (20-mer) | C | 10 | G | 11 | U | 12 | A | 13 | A | 15 | G | 16 | cWW | tSH |
22 | HL_2XLK_001 | 2XLK | 0.0000 | 1 | GNRA with one bulged base | C | RNA (16-mer) | C | 10 | G | 11 | U | 12 | A | 13 | A | 15 | G | 16 | cWW | tSH |
23 | HL_7WKP_001 | 7WKP | 0.0842 | 1 | B | 3' stem loop crRNA | C | 10 | G | 11 | C | 12 | A | 13 | A | 15 | G | 16 | cWW | tSH | |
24 | HL_5J7L_174 | 5J7L | 0.1653 | 1 | GNRA with one bulged base | DA | LSU rRNA | A | 1630 | G | 1631 | A | 1632 | G | 1633 | A | 1635 | U | 1636 | cWW | tSH |
25 | HL_4LFB_012 | 4LFB | 0.4170 | 1 | A | SSU rRNA | C | 458 | G | 459 | A | 460 | G | 462 | A | 463 | G | 474 | cWW | tSH | |
26 | HL_6CZR_083 | 6CZR | 0.4214 | 1 | 1a | SSU rRNA | C | 453 | G | 454 | A | 455 | G | 457 | A | 458 | G | 459 | cWW | ntSH |
3D structures
Complete motif including flanking bases
Sequence | Counts |
---|---|
GGAAUAC | 2 |
CGUAUAG | 2 |
CGACGAG | 2 |
UGAAAA | 1 |
UUCAAG | 1 |
UCACCG | 1 |
GUUUUAC | 1 |
CGAAAG | 1 |
CGCAAG | 1 |
GGAACAC | 1 |
UGCAUAA | 1 |
GCAACUC | 1 |
UGAAUAG | 1 |
CGAACAG | 1 |
CGCACAG | 1 |
UGAACAA | 1 |
GGAGUAC | 1 |
UGAACAG | 1 |
UUAACAG | 1 |
UCAGAAG | 1 |
UGAAGAA | 1 |
CGCAUAG | 1 |
AGAGAAU | 1 |
Non-Watson-Crick part of the motif
Sequence | Counts |
---|---|
GAACA | 4 |
GAAUA | 3 |
GAAA | 2 |
GCAUA | 2 |
GUAUA | 2 |
GACGA | 2 |
UCAA | 1 |
CACC | 1 |
UUUUA | 1 |
GCAA | 1 |
CAACU | 1 |
GCACA | 1 |
GAGUA | 1 |
UAACA | 1 |
CAGAA | 1 |
GAAGA | 1 |
GAGAA | 1 |
Release history
Release | 3.88 |
---|---|
Date | 2024-09-11 |
Status | New id, 2 parents |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- (11)
- GNRA with one bulged base (10)
- GNRA (3)
- GNRA variation (1)
- GNRA with one bulged base (H) (1)
- Basepair signature
- cWW-tSH-F-F
- Heat map statistics
- Min 0.08 | Avg 0.37 | Max 0.86
Coloring options: