Motif HL_12078.5 Version HL_12078.5 of this group appears in releases 3.87 to 3.87
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 1-7 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4FRN_008 | 4FRN | 0.6295 | 3 | B | Cobalamin riboswitch aptamer domain | G | 90 | G | 94 | G | 95 | A | 96 | G | 97 | A | 98 | C | 99 | cWW | |
| 2 | HL_7JRR_002 | 7JRR | 0.4260 | 2 | A | RNA (50-MER) | G | 39 | U | 42 | G | 43 | G | 44 | U | 45 | U | 46 | C | 47 | cWW | |
| 3 | HL_7JRR_001 | 7JRR | 0.4593 | 2 | A | RNA (50-MER) | G | 12 | C | 15 | C | 16 | A | 17 | U | 18 | C | 19 | C | 20 | cWW | |
| 4 | HL_8C3A_009 | 8C3A | 0.6232 | 3 | Pseudoknot geometry | 1 | LSU rRNA | G | 303 | A | 307 | A | 308 | U | 309 | U | 310 | C | 311 | C | 312 | cWW |
| 5 | HL_5TBW_009 | 5TBW | 0.6394 | 3 | Pseudoknot geometry | 1 | LSU rRNA | G | 303 | A | 307 | A | 308 | U | 309 | U | 310 | C | 311 | C | 312 | cWW |
| 6 | HL_4QLM_002 | 4QLM | 0.6122 | 3 | Pseudoknot geometry | A | cyclic di-AMP riboswitch | U | 72 | C | 76 | C | 77 | U | 78 | U | 79 | C | 80 | G | 81 | cWW |
| 7 | HL_4ENC_001 | 4ENC | 0.6716 | 3 | Pseudoknot geometry | A | Fluoride riboswitch | G | 5 | A | 9 | G | 10 | G | 11 | C | 12 | C | 13 | C | 14 | cWW |
| 8 | HL_1ZCI_002 | 1ZCI | 0.7389 | 4 | Pseudoknot geometry | B | RNA (23-mer) | G | 7 | G | 12 | C | 13 | A | 14 | C | 15 | A | 16 | C | 17 | cWW |
| 9 | HL_1ZCI_001 | 1ZCI | 0.7339 | 4 | Pseudoknot geometry | A | RNA (23-mer) | G | 7 | G | 12 | C | 13 | A | 14 | C | 15 | A | 16 | C | 17 | cWW |
| 10 | HL_4V9F_061 | 4V9F | 0.5280 | 2 | Pseudoknot geometry | 0 | LSU rRNA | G | 2442 | U | 2445 | G | 2446 | A | 2447 | U | 2448 | G | 2449 | C | 2450 | cWW |
| 11 | HL_3G9C_007 | 3G9C | 0.5156 | 2 | Pseudoknot geometry | Q | glmS ribozyme | G | 71 | C | 74 | A | 75 | U | 76 | C | 77 | A | 78 | C | 79 | cWW |
| 12 | HL_4V9F_014 | 4V9F | 0.4361 | 2 | Pseudoknot geometry | 0 | LSU rRNA | G | 416 | A | 419 | U | 420 | C | 421 | G | 422 | A | 423 | C | 424 | cWW |
| 13 | HL_3HHN_009 | 3HHN | 0.2351 | 1 | Pseudoknot geometry | E | Class I ligase ribozyme, self-ligation product | G | 75 | G | 77 | G | 78 | C | 79 | A | 80 | G | 81 | C | 82 | cWW |
| 14 | HL_3IVK_004 | 3IVK | 0.2571 | 1 | Pseudoknot geometry | M | class I ligase product | G | 75 | G | 77 | G | 78 | C | 79 | A | 80 | G | 81 | C | 82 | cWW |
| 15 | HL_5K7D_001 | 5K7D | 0.1680 | 1 | Pseudoknot geometry | A | RNA 47-MER | G | 5 | U | 7 | A | 8 | G | 9 | G | 10 | G | 11 | C | 12 | cWW |
| 16 | HL_6UFJ_003 | 6UFJ | 0.1676 | 1 | Pseudoknot geometry | C | Pistol ribozyme | G | 5 | U | 7 | U | 8 | G | 9 | A | 10 | G | 11 | C | 12 | cWW |
| 17 | HL_6UEY_003 | 6UEY | 0.1453 | 1 | Pseudoknot geometry | C | Pistol ribozyme | G | 5 | U | 7 | U | 8 | G | 9 | A | 10 | G | 11 | C | 12 | cWW |
| 18 | HL_6R47_001 | 6R47 | 0.1406 | 1 | Pseudoknot geometry | A | RNA (50-MER) | G | 6 | U | 8 | C | 9 | G | 10 | G | 11 | G | 12 | C | 13 | cWW |
| 19 | HL_5KTJ_001 | 5KTJ | 0.1535 | 1 | Pseudoknot geometry | A | Pistol (50-MER) | G | 5 | U | 7 | U | 8 | G | 9 | A | 10 | G | 11 | C | 12 | cWW |
| 20 | HL_2JLT_002 | 2JLT | 0.0000 | 1 | Pseudoknot geometry | B | TAR | C | 5 | U | 7 | G | 8 | G | 9 | G | 10 | A | 11 | G | 12 | cWW |
| 21 | HL_4V9F_058 | 4V9F | 0.4183 | 1 | Pseudoknot geometry | 0 | LSU rRNA | U | 2358 | C | 2360 | A | 2361 | A | 2362 | G | 2363 | A | 2364 | G | 2365 | cWW |
| 22 | HL_8C3A_058 | 8C3A | 0.3670 | 1 | Pseudoknot geometry | 1 | LSU rRNA | C | 2665 | A | 2667 | A | 2668 | A | 2669 | G | 2670 | G | 2671 | G | 2672 | cWW |
| 23 | HL_5TBW_057 | 5TBW | 0.3967 | 1 | Pseudoknot geometry | 1 | LSU rRNA | C | 2693 | A | 2695 | A | 2696 | A | 2697 | G | 2698 | G | 2699 | G | 2700 | cWW |
| 24 | HL_8VTW_055 | 8VTW | 0.3876 | 1 | Pseudoknot geometry | 1A | LSU rRNA | C | 2324 | C | 2326 | A | 2327 | A | 2328 | G | 2329 | G | 2330 | G | 2331 | cWW |
| 25 | HL_5J7L_189 | 5J7L | 0.4570 | 1 | Pseudoknot geometry | DA | LSU rRNA | U | 2324 | C | 2326 | A | 2327 | A | 2328 | U | 2329 | G | 2330 | G | 2331 | cWW |
| 26 | HL_4WF9_052 | 4WF9 | 0.4174 | 1 | Pseudoknot geometry | X | LSU rRNA | U | 2351 | U | 2353 | A | 2354 | A | 2355 | A | 2356 | G | 2357 | G | 2358 | ncWW |
| 27 | HL_7A0S_055 | 7A0S | 0.4117 | 1 | Pseudoknot geometry | X | LSU rRNA | C | 2303 | C | 2305 | A | 2306 | A | 2307 | A | 2308 | G | 2309 | G | 2310 | cWW |
| 28 | HL_4FRN_006 | 4FRN | 0.3301 | 1 | Pseudoknot geometry | B | Cobalamin riboswitch aptamer domain | U | 44 | A | 46 | C | 47 | U | 48 | U | 49 | G | 50 | A | 51 | cWW |
| 29 | HL_7KGA_003 | 7KGA | 0.4531 | 3 | Pseudoknot geometry | B | Flavivirus DB element | U | 22 | A | 25 | C | 27 | C | 28 | U | 29 | A | 30 | G | 31 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GUUUGAGC | 3 |
| GGUAAAUUCC | 2 |
| GAAGUGCACAC | 2 |
| GUGGCAGC | 2 |
| CAAAAGGG | 2 |
| GCAAGGAGAC | 1 |
| GGAUGGUUC | 1 |
| GAACCAUCC | 1 |
| UACUCCUUCG | 1 |
| GAUGAGGCCC | 1 |
| GCUUGAUGC | 1 |
| GUUCAUCAC | 1 |
| GGCAUCGAC | 1 |
| GUUAGGGC | 1 |
| GUUCGGGC | 1 |
| CCUGGGAG | 1 |
| UGCAAGAG | 1 |
| CGCAAGGG | 1 |
| UGCAAUGG | 1 |
| UGUAAAGG | 1 |
| CGCAAAGG | 1 |
| UUACUUGA | 1 |
| UCAAGCCUAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UUUGAG | 3 |
| GUAAAUUC | 2 |
| AAGUGCACA | 2 |
| UGGCAG | 2 |
| AAAAGG | 2 |
| CAAGGAGA | 1 |
| GAUGGUU | 1 |
| AACCAUC | 1 |
| ACUCCUUC | 1 |
| AUGAGGCC | 1 |
| CUUGAUG | 1 |
| UUCAUCA | 1 |
| GCAUCGA | 1 |
| UUAGGG | 1 |
| UUCGGG | 1 |
| CUGGGA | 1 |
| GCAAGA | 1 |
| GCAAGG | 1 |
| GCAAUG | 1 |
| GUAAAG | 1 |
| GCAAAG | 1 |
| UACUUG | 1 |
| CAAGCCUA | 1 |
Release history
| Release | 3.87 |
|---|---|
| Date | 2024-08-14 |
| Status | Updated, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Pseudoknot geometry (26)
- (3)
- Basepair signature
- cWW-F-F-F-F-F
- Heat map statistics
- Min 0.07 | Avg 0.46 | Max 0.92
Coloring options: