Motif HL_91226.6 Version HL_91226.6 of this group appears in releases 1.16 to 1.16
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 1-8 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_1S72_058 | 1S72 | 0.5453 | 0 | Pseudoknot geometry (H) | 0 | LSU rRNA | U | 2358 | G | 2359 | C | 2360 | A | 2361 | A | 2362 | G | 2363 | A | 2364 | G | 2365 | cWW |
| 2 | HL_1VX6_057 | 1VX6 | 0.5014 | 0 | A | 28S ribosomal RNA | U | 3032 | A | 3033 | A | 3034 | A | 3035 | A | 3036 | G | 3037 | G | 3038 | G | 3039 | cWW | |
| 3 | HL_4CUV_058 | 4CUV | 0.4831 | 0 | 1 | 25S RRNA | C | 2693 | A | 2694 | A | 2695 | A | 2696 | A | 2697 | G | 2698 | G | 2699 | G | 2700 | cWW | |
| 4 | HL_3U5H_058 | 3U5H | 0.4575 | 0 | 5 | 25S rRNA | C | 2693 | A | 2694 | A | 2695 | A | 2696 | A | 2697 | G | 2698 | G | 2699 | G | 2700 | cWW | |
| 5 | HL_4A1B_057 | 4A1B | 0.4547 | 0 | 1 | 26S RRNA | C | 2682 | A | 2683 | A | 2684 | A | 2685 | A | 2686 | G | 2687 | G | 2688 | G | 2689 | cWW | |
| 6 | HL_4IOA_055 | 4IOA | 0.4479 | 0 | Pseudoknot geometry (H) | X | LSU rRNA | C | 2303 | G | 2304 | C | 2305 | A | 2306 | A | 2307 | A | 2308 | G | 2309 | G | 2310 | cWW |
| 7 | HL_4NVV_054 | 4NVV | 0.4366 | 0 | A | 23S Ribosomal RNA | C | 2336 | G | 2337 | C | 2338 | A | 2339 | A | 2340 | G | 2341 | G | 2342 | G | 2343 | cWW | |
| 8 | HL_2QBG_058 | 2QBG | 0.5360 | 0 | B | 23S rRNA | U | 2324 | G | 2325 | C | 2326 | A | 2327 | A | 2328 | U | 2329 | G | 2330 | G | 2331 | cWW | |
| 9 | HL_2JLT_002 | 2JLT | 0.4866 | 0 | Pseudoknot geometry | B | TAR | C | 5 | C | 6 | U | 7 | G | 8 | G | 9 | G | 10 | A | 11 | G | 12 | cWW |
| 10 | HL_4GMA_003 | 4GMA | 0.3602 | 0 | Z | Adenosylcobalamin riboswitch | G | 74 | C | 75 | C | 76 | C | 77 | C | 78 | C | 79 | G | 80 | C | 81 | cWW | |
| 11 | HL_4FRN_002 | 4FRN | 0.3518 | 0 | A | Cobalamin riboswitch aptamer domain | U | 44 | U | 45 | A | 46 | C | 47 | U | 48 | U | 49 | G | 50 | A | 51 | cWW | |
| 12 | HL_4CUV_061 | 4CUV | 0.3538 | 1 | 1 | 25S RRNA | C | 2776 | G | 2778 | A | 2779 | A | 2780 | U | 2781 | U | 2782 | U | 2783 | G | 2784 | cWW | |
| 13 | HL_3U5H_061 | 3U5H | 0.3293 | 1 | 5 | 25S rRNA | C | 2776 | G | 2778 | A | 2779 | A | 2780 | U | 2781 | U | 2782 | U | 2783 | G | 2784 | cWW | |
| 14 | HL_4A1B_060 | 4A1B | 0.3170 | 1 | 1 | 26S RRNA | A | 2764 | A | 2766 | A | 2767 | G | 2768 | U | 2769 | U | 2770 | U | 2771 | U | 2772 | cWW | |
| 15 | HL_1S72_061 | 1S72 | 0.2717 | 1 | Pseudoknot geometry (H) | 0 | LSU rRNA | G | 2442 | U | 2444 | U | 2445 | G | 2446 | A | 2447 | U | 2448 | G | 2449 | C | 2450 | cWW |
| 16 | HL_2NZ4_011 | 2NZ4 | 0.2043 | 1 | R | GlmS ribozyme | G | 71 | U | 73 | C | 74 | A | 75 | U | 76 | C | 77 | A | 78 | C | 79 | cWW | |
| 17 | HL_2NZ4_015 | 2NZ4 | 0.0000 | 1 | S | GlmS ribozyme | G | 71 | U | 73 | C | 74 | A | 75 | U | 76 | C | 77 | A | 78 | C | 79 | cWW | |
| 18 | HL_1S72_014 | 1S72 | 0.3112 | 1 | Pseudoknot geometry (H) | 0 | LSU rRNA | G | 416 | C | 418 | A | 419 | U | 420 | C | 421 | G | 422 | A | 423 | C | 424 | cWW |
| 19 | HL_3U5H_009 | 3U5H | 0.2864 | 2 | 5 | 25S rRNA | G | 303 | A | 306 | A | 307 | A | 308 | U | 309 | U | 310 | C | 311 | C | 312 | cWW | |
| 20 | HL_4CUV_009 | 4CUV | 0.3050 | 2 | 1 | 25S RRNA | G | 303 | A | 306 | A | 307 | A | 308 | U | 309 | U | 310 | C | 311 | C | 312 | cWW | |
| 21 | HL_1VX6_009 | 1VX6 | 0.3486 | 2 | A | 28S ribosomal RNA | G | 311 | A | 314 | C | 315 | A | 316 | U | 317 | U | 318 | U | 319 | C | 320 | cWW | |
| 22 | HL_4ENB_001 | 4ENB | 0.4223 | 2 | Pseudoknot geometry (H) | A | Fluoride riboswitch | G | 5 | G | 8 | A | 9 | G | 10 | G | 11 | C | 12 | C | 13 | C | 14 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CAAAAGGG | 3 |
| CGGAAUUUG | 2 |
| GUUCAUCAC | 2 |
| GGUAAAUUCC | 2 |
| UGCAAGAG | 1 |
| UAAAAGGG | 1 |
| CGCAAAGG | 1 |
| CGCAAGGG | 1 |
| UGCAAUGG | 1 |
| CCUGGGAG | 1 |
| GCCCCCGC | 1 |
| UUACUUGA | 1 |
| ACAAGUUUU | 1 |
| GCUUGAUGC | 1 |
| GGCAUCGAC | 1 |
| GAUACAUUUC | 1 |
| GAUGAGGCCC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AAAAGG | 4 |
| GGAAUUU | 2 |
| UUCAUCA | 2 |
| GUAAAUUC | 2 |
| GCAAGA | 1 |
| GCAAAG | 1 |
| GCAAGG | 1 |
| GCAAUG | 1 |
| CUGGGA | 1 |
| CCCCCG | 1 |
| UACUUG | 1 |
| CAAGUUU | 1 |
| CUUGAUG | 1 |
| GCAUCGA | 1 |
| AUACAUUU | 1 |
| AUGAGGCC | 1 |
Release history
| Release | 1.16 |
|---|---|
| Date | 2014-07-26 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in HL_91226.6 | Only in the parent motif |
|---|---|---|---|
| HL_91226.5 Compare | HL_4CUV_061, HL_4ENB_001, HL_1S72_061, HL_4CUV_058, HL_1S72_058, HL_4IOA_055, HL_2NZ4_015, HL_3U5H_009, HL_2JLT_002, HL_4A1B_057, HL_2NZ4_011, HL_4FRN_002, HL_4A1B_060, HL_4NVV_054, HL_4GMA_003, HL_2QBG_058, HL_3U5H_058, HL_4CUV_009, HL_3U5H_061, HL_1S72_014 | HL_1VX6_057, HL_1VX6_009 |
Children motifs
| Child motif | Common motif instances | Only in HL_91226.6 | Only in the child motif |
|---|---|---|---|
| HL_91226.7 Compare | HL_4CUV_061, HL_4ENB_001, HL_3U5H_061, HL_1S72_061, HL_4CUV_058, HL_1S72_058, HL_4IOA_055, HL_1VX6_009, HL_2NZ4_015, HL_3U5H_009, HL_2JLT_002, HL_4A1B_057, HL_4CUV_009, HL_4FRN_002, HL_4A1B_060, HL_2NZ4_011, HL_4GMA_003, HL_2QBG_058, HL_3U5H_058, HL_1VX6_057, HL_1S72_014 | HL_4NVV_054 | HL_4QCN_054, HL_4QK8_003 |
- Annotations
-
- (16)
- Pseudoknot geometry (H) (5)
- Pseudoknot geometry (1)
- Basepair signature
- cWW-R-R-R-R-R
- Heat map statistics
- Min 0.10 | Avg 0.44 | Max 0.83
Coloring options: