Motif HL_52651.1 Version HL_52651.1 of this group appears in releases 4.0 to 4.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 1-8 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3IGI_005 | 3IGI | 0.8213 | 2 | Pseudoknot geometry | A | Group IIC intron | U | 178 | A | 181 | U | 182 | A | 183 | A | 184 | C | 185 | A | 186 | A | 187 | cWW |
| 2 | HL_6N5P_003 | 6N5P | 0.6254 | 1 | Pseudoknot geometry | A | cyclic di-AMP riboswitch | U | 76 | C | 78 | C | 79 | U | 80 | U | 81 | C | 82 | U | 83 | G | 84 | cWW |
| 3 | HL_9AXU_056 | 9AXU | 0.5514 | 1 | Pseudoknot geometry (H) | 2 | LSU rRNA | C | 2871 | A | 2873 | A | 2874 | A | 2875 | U | 2876 | U | 2877 | U | 2878 | G | 2879 | cWW |
| 4 | HL_8P9A_171 | 8P9A | 0.5451 | 1 | Pseudoknot geometry | AR | LSU rRNA | C | 2776 | G | 2778 | A | 2779 | A | 2780 | U | 2781 | U | 2782 | U | 2783 | G | 2784 | cWW |
| 5 | HL_8OI5_056 | 8OI5 | 0.5416 | 1 | Pseudoknot geometry (H) | 1 | LSU rRNA | C | 2748 | G | 2750 | A | 2751 | A | 2752 | U | 2753 | U | 2754 | U | 2755 | G | 2756 | cWW |
| 6 | HL_3D0U_002 | 3D0U | 0.5241 | 1 | Pseudoknot geometry | A | Lysine Riboswitch RNA | U | 90 | C | 92 | C | 93 | U | 94 | C | 95 | C | 96 | C | 97 | G | 98 | cWW |
| 7 | HL_3DIL_002 | 3DIL | 0.5614 | 1 | Pseudoknot geometry | A | RNA (174-MER) | U | 93 | C | 95 | C | 96 | U | 97 | C | 98 | C | 99 | C | 100 | G | 101 | cWW |
| 8 | HL_9E6Q_057 | 9E6Q | 0.6159 | 1 | Pseudoknot geometry (H) | 1 | LSU rRNA | C | 2521 | C | 2523 | C | 2524 | A | 2525 | G | 2526 | U | 2527 | G | 2528 | G | 2529 | cWW |
| 9 | HL_4V9F_061 | 4V9F | 0.5382 | 1 | Pseudoknot geometry | 0 | LSU rRNA | G | 2442 | U | 2444 | U | 2445 | G | 2446 | A | 2447 | U | 2448 | G | 2449 | C | 2450 | cWW |
| 10 | HL_9E6Q_014 | 9E6Q | 0.6201 | 1 | Pseudoknot geometry (H) | 1 | LSU rRNA | G | 441 | C | 443 | A | 444 | C | 445 | U | 446 | G | 447 | G | 448 | C | 449 | cWW |
| 11 | HL_4V9F_014 | 4V9F | 0.5183 | 1 | Pseudoknot geometry | 0 | LSU rRNA | G | 416 | C | 418 | A | 419 | U | 420 | C | 421 | G | 422 | A | 423 | C | 424 | cWW |
| 12 | HL_5K7D_001 | 5K7D | 0.3495 | 0 | Pseudoknot geometry | A | RNA 47-MER | G | 5 | U | 6 | U | 7 | A | 8 | G | 9 | G | 10 | G | 11 | C | 12 | cWW |
| 13 | HL_6UFJ_003 | 6UFJ | 0.3154 | 0 | Pseudoknot geometry | C | Pistol ribozyme | G | 5 | U | 6 | U | 7 | U | 8 | G | 9 | A | 10 | G | 11 | C | 12 | cWW |
| 14 | HL_4V9F_058 | 4V9F | 0.2111 | 0 | Pseudoknot geometry | 0 | LSU rRNA | U | 2358 | G | 2359 | C | 2360 | A | 2361 | A | 2362 | G | 2363 | A | 2364 | G | 2365 | cWW |
| 15 | HL_9E6Q_054 | 9E6Q | 0.1532 | 0 | Pseudoknot geometry (H) | 1 | LSU rRNA | U | 2436 | G | 2437 | U | 2438 | A | 2439 | A | 2440 | G | 2441 | G | 2442 | G | 2443 | cWW |
| 16 | HL_8P9A_168 | 8P9A | 0.0975 | 0 | Pseudoknot geometry | AR | LSU rRNA | C | 2693 | A | 2694 | A | 2695 | A | 2696 | A | 2697 | G | 2698 | G | 2699 | G | 2700 | cWW |
| 17 | HL_8GLP_062 | 8GLP | 0.0929 | 0 | Pseudoknot geometry (H) | L5 | LSU rRNA | C | 4270 | A | 4271 | G | 4272 | A | 4273 | A | 4274 | G | 4275 | G | 4276 | G | 4277 | cWW |
| 18 | HL_8OI5_053 | 8OI5 | 0.0000 | 0 | Pseudoknot geometry (H) | 1 | LSU rRNA | C | 2665 | A | 2666 | A | 2667 | A | 2668 | A | 2669 | G | 2670 | G | 2671 | G | 2672 | cWW |
| 19 | HL_9AXU_053 | 9AXU | 0.1213 | 0 | Pseudoknot geometry (H) | 2 | LSU rRNA | U | 2788 | A | 2789 | A | 2790 | A | 2791 | A | 2792 | G | 2793 | G | 2794 | G | 2795 | cWW |
| 20 | HL_9DFE_054 | 9DFE | 0.1426 | 0 | Pseudoknot geometry | 1A | LSU rRNA | C | 2324 | G | 2325 | C | 2326 | A | 2327 | A | 2328 | G | 2329 | G | 2330 | G | 2331 | cWW |
| 21 | HL_4WF9_052 | 4WF9 | 0.1713 | 0 | Pseudoknot geometry | X | LSU rRNA | U | 2351 | G | 2352 | U | 2353 | A | 2354 | A | 2355 | A | 2356 | G | 2357 | G | 2358 | ncWW |
| 22 | HL_7A0S_055 | 7A0S | 0.1815 | 0 | Pseudoknot geometry | X | LSU rRNA | C | 2303 | G | 2304 | C | 2305 | A | 2306 | A | 2307 | A | 2308 | G | 2309 | G | 2310 | cWW |
| 23 | HL_8B0X_083 | 8B0X | 0.2662 | 0 | Pseudoknot geometry (H) | a | LSU rRNA | U | 2328 | G | 2329 | C | 2330 | A | 2331 | A | 2332 | U | 2333 | G | 2334 | G | 2335 | cWW |
| 24 | HL_3SKI_002 | 3SKI | 0.4714 | 0 | Pseudoknot geometry | A | RNA (68-MER) | G | 53 | A | 54 | C | 55 | C | 56 | C | 57 | C | 58 | G | 59 | C | 60 | cWW |
| 25 | HL_3SKL_005 | 3SKL | 0.4828 | 0 | Pseudoknot geometry | B | RNA (66-MER) | G | 52 | A | 53 | C | 54 | C | 55 | C | 56 | C | 57 | G | 58 | C | 59 | cWW |
| 26 | HL_4V9F_002 | 4V9F | 0.7506 | 1 | Pseudoknot geometry | 0 | LSU rRNA | C | 83 | G | 84 | C | 85 | A | 86 | G | 88 | G | 89 | A | 90 | G | 91 | cWW |
| 27 | HL_9E6Q_002 | 9E6Q | 0.7784 | 1 | Pseudoknot geometry (H) | 1 | LSU rRNA | B8T | 79 | G | 80 | C | 81 | A | 82 | G | 84 | C | 85 | A | 86 | G | 87 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CGGAAUUUG | 2 |
| UUCCUCCCG | 2 |
| CAAAAGGG | 2 |
| GACCCCGC | 2 |
| UGCAUAACAA | 1 |
| UACCUUCUG | 1 |
| CGAAAUUUG | 1 |
| CACCAGUGG | 1 |
| GCUUGAUGC | 1 |
| GCCACUGGC | 1 |
| GGCAUCGAC | 1 |
| GUUAGGGC | 1 |
| GUUUGAGC | 1 |
| UGCAAGAG | 1 |
| UGUAAGGG | 1 |
| CAGAAGGG | 1 |
| UAAAAGGG | 1 |
| CGCAAGGG | 1 |
| UGUAAAGG | 1 |
| CGCAAAGG | 1 |
| UGCAAUGG | 1 |
| CGCACGGAG | 1 |
| (B8T)GCAGGCAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AAAAGG | 3 |
| GGAAUUU | 2 |
| UCCUCCC | 2 |
| ACCCCG | 2 |
| GCAUAACA | 1 |
| ACCUUCU | 1 |
| GAAAUUU | 1 |
| ACCAGUG | 1 |
| CUUGAUG | 1 |
| CCACUGG | 1 |
| GCAUCGA | 1 |
| UUAGGG | 1 |
| UUUGAG | 1 |
| GCAAGA | 1 |
| GUAAGG | 1 |
| AGAAGG | 1 |
| GCAAGG | 1 |
| GUAAAG | 1 |
| GCAAAG | 1 |
| GCAAUG | 1 |
| GCACGGA | 1 |
| GCAGGCA | 1 |
Release history
| Release | 4.0 |
|---|---|
| Date | 2025-08-13 |
| Status | New id, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Pseudoknot geometry (17)
- Pseudoknot geometry (H) (10)
- Basepair signature
- cWW-F-F-F-F-F-F
- Heat map statistics
- Min 0.05 | Avg 0.48 | Max 0.88
Coloring options: