Motif HL_02262.1 Version HL_02262.1 of this group appears in releases 4.10 to 4.12
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 1-7 | 2-6 | 4-5 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4V9F_063 | 4V9F | 0.5966 | 1 | GNRA variation | 0 | LSU rRNA | U | 2563 | C | 2565 | A | 2566 | G | 2567 | A | 2568 | A | 2569 | G | 2570 | cWW | ||
| 2 | HL_7A0S_060 | 7A0S | 0.6089 | 1 | GNRA variation | X | LSU rRNA | U | 2507 | A | 2509 | A | 2510 | G | 2511 | A | 2512 | A | 2513 | G | 2514 | cWW | ||
| 3 | HL_4WF9_057 | 4WF9 | 0.6010 | 1 | GNRA variation | X | LSU rRNA | U | 2555 | U | 2557 | A | 2558 | G | 2559 | U | 2560 | C | 2561 | G | 2562 | cWW | ||
| 4 | HL_9E6Q_059 | 9E6Q | 0.5889 | 1 | GNRA variation (H) | 1 | LSU rRNA | U | 2642 | C | 2644 | A | 2645 | G | 2646 | C | 2647 | A | 2648 | G | 2649 | cWW | ||
| 5 | HL_8B0X_088 | 8B0X | 0.5611 | 1 | GNRA variation (H) | a | LSU rRNA | U | 2532 | A | 2534 | A | 2535 | G | 2536 | U | 2537 | A | 2538 | G | 2539 | cWW | ||
| 6 | HL_9DFE_059 | 9DFE | 0.5545 | 1 | GNRA variation | 1A | LSU rRNA | U | 2528 | A | 2530 | A | 2531 | G | 2532 | A | 2533 | A | 2534 | G | 2535 | cWW | ||
| 7 | HL_9H3G_063 | 9H3G | 0.5766 | 1 | A | LSU rRNA | A | 2896 | C | 2898 | A | 2899 | G | 2900 | A | 2901 | A | 2902 | U | 2903 | cWW | |||
| 8 | HL_8GLP_067 | 8GLP | 0.5828 | 1 | L5 | LSU rRNA | A | 4474 | C | 4476 | A | 4477 | G | 4478 | A | 4479 | A | 4480 | U | 4481 | cWW | |||
| 9 | HL_9PN5_060 | 9PN5 | 0.6942 | 1 | A1 | LSU rRNA | A | 2897 | C | 2899 | A | 2900 | G | 2901 | A | 2902 | A | 2903 | U | 2904 | cWW | |||
| 10 | HL_8OI5_058 | 8OI5 | 0.6874 | 1 | 1 | LSU rRNA | A | 2869 | C | 2871 | A | 2872 | G | 2873 | A | 2874 | A | 2875 | U | 2876 | cWW | |||
| 11 | HL_9M86_002 | 9M86 | 0.4836 | 0 | D | RNA (31-MER) | U | 58 | G | 59 | C | 60 | A | 61 | C | 62 | A | 63 | A | 64 | cWW | tSH | ||
| 12 | HL_4LFB_002 | 4LFB | 0.5263 | 0 | A | SSU rRNA | G | 80 | U | 81 | U | 82 | U | 83 | U | 84 | A | 88 | C | 89 | cWW | |||
| 13 | HL_9AXU_059 | 9AXU | 0.2840 | 0 | LSU A loop | 2 | LSU rRNA | U | 3015 | U | 3016 | G | 3017 | U | 3018 | U | 3019 | C | 3020 | A | 3021 | cWW | ntSH | |
| 14 | HL_9E6Q_060 | 9E6Q | 0.2739 | 0 | LSU A loop | 1 | LSU rRNA | C | 2665 | OMU | 2666 | OMG | 2667 | C | 2668 | C | 2669 | C | 2670 | G | 2671 | cWW | ||
| 15 | HL_7A0S_061 | 7A0S | 0.2114 | 0 | LSU A loop | X | LSU rRNA | C | 2530 | U | 2531 | G | 2532 | U | 2533 | U | 2534 | C | 2535 | G | 2536 | cWW | ||
| 16 | HL_4WF9_058 | 4WF9 | 0.2034 | 0 | LSU A loop | X | LSU rRNA | C | 2578 | U | 2579 | G | 2580 | U | 2581 | U | 2582 | C | 2583 | G | 2584 | cWW | ||
| 17 | HL_8B0X_089 | 8B0X | 0.1867 | 0 | LSU A loop | a | LSU rRNA | C | 2555 | OMU | 2556 | G | 2557 | U | 2558 | U | 2559 | C | 2560 | G | 2561 | cWW | ||
| 18 | HL_9DFE_060 | 9DFE | 0.2056 | 0 | LSU A loop | 1A | LSU rRNA | C | 2551 | OMU | 2552 | G | 2553 | U | 2554 | U | 2555 | C | 2556 | G | 2557 | cWW | ||
| 19 | HL_4V9F_073 | 4V9F | 0.1878 | 0 | LSU A loop | 0 | LSU rRNA | U | 2586 | OMU | 2587 | OMG | 2588 | U | 2589 | U | 2590 | C | 2591 | G | 2592 | cWWa | ||
| 20 | HL_9H3G_064 | 9H3G | 0.0821 | 0 | A | LSU rRNA | U | 2919 | OMU | 2920 | OMG | 2921 | PSU | 2922 | U | 2923 | C | 2924 | A | 2925 | cWW | |||
| 21 | HL_9PN5_061 | 9PN5 | 0.0727 | 0 | A1 | LSU rRNA | U | 2920 | OMU | 2921 | OMG | 2922 | PSU | 2923 | U | 2924 | C | 2925 | A | 2926 | cWW | |||
| 22 | HL_8OI5_059 | 8OI5 | 0.0000 | 0 | LSU A loop | 1 | LSU rRNA | U | 2892 | U | 2893 | G | 2894 | U | 2895 | U | 2896 | C | 2897 | A | 2898 | cWW | ||
| 23 | HL_8GLP_068 | 8GLP | 0.3322 | 0 | LSU A loop | L5 | LSU rRNA | U | 4497 | OMU | 4498 | OMG | 4499 | PSU | 4500 | U | 4501 | C | 4502 | A | 4503 | cWW | ||
| 24 | HL_8OI5_001 | 8OI5 | 0.5960 | 1 | 1 | LSU rRNA | U | 37 | A | 38 | G | 40 | C | 41 | A | 42 | U | 43 | A | 44 | cWW | tSH | ||
| 25 | HL_8GLP_001 | 8GLP | 0.5870 | 1 | L5 | LSU rRNA | U | 37 | A | 38 | G | 40 | C | 41 | A | 42 | U | 43 | A | 44 | cWW | tSH | ||
| 26 | HL_9PN5_001 | 9PN5 | 0.5860 | 1 | A1 | LSU rRNA | U | 38 | A | 39 | G | 41 | C | 42 | A | 43 | U | 44 | A | 45 | cWW | tSH | ||
| 27 | HL_9H3G_005 | 9H3G | 0.5915 | 1 | A | LSU rRNA | U | 36 | A | 37 | G | 39 | C | 40 | A | 41 | PSU | 42 | A | 43 | cWW | tSH | ||
| 28 | HL_9AXU_001 | 9AXU | 0.5906 | 1 | 2 | LSU rRNA | U | 38 | A | 39 | G | 41 | C | 42 | A | 43 | U | 44 | A | 45 | cWW | tSH | ||
| 29 | HL_4V9F_006 | 4V9F | 0.5912 | 1 | 0 | LSU rRNA | G | 164 | A | 165 | A | 167 | C | 168 | A | 169 | U | 170 | C | 171 | cWW | tSH | ||
| 30 | HL_9E6Q_006 | 9E6Q | 0.6158 | 1 | 1 | LSU rRNA | G | 175 | A | 176 | A | 178 | C | 179 | A | 180 | U | 181 | C | 182 | cWW | tSH | ||
| 31 | HL_4WF9_006 | 4WF9 | 0.5988 | 1 | X | LSU rRNA | G | 197 | A | 198 | A | 200 | C | 201 | A | 202 | U | 203 | C | 204 | cWW | tSH | ||
| 32 | HL_8B0X_038 | 8B0X | 0.6000 | 1 | a | LSU rRNA | G | 194 | A | 195 | A | 197 | C | 198 | A | 199 | U | 200 | C | 201 | cWW | ntSH | ||
| 33 | HL_9DFE_005 | 9DFE | 0.5904 | 1 | 1A | LSU rRNA | G | 194 | A | 195 | A | 197 | C | 198 | A | 199 | U | 200 | C | 201 | cWW | ntSH | ||
| 34 | HL_7A0S_006 | 7A0S | 0.6022 | 1 | X | LSU rRNA | G | 171 | A | 172 | A | 174 | C | 175 | A | 176 | U | 177 | C | 178 | cWW | ntSH | ||
| 35 | HL_3DIL_003 | 3DIL | 0.6170 | 0 | GNRA | A | Lysine riboswitch | G | 124 | G | 125 | A | 126 | A | 127 | U | 128 | A | 129 | C | 130 | cWW | tSH | ncSW |
| 36 | HL_3AKZ_011 | 3AKZ | 0.8158 | 2 | E | tRNA | A | 31 | C | 32 | U | 35 | G | 36 | G | 37 | A | 38 | U | 39 | cWW | ncSW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GAAACAUC | 6 |
| AGCAGAAU | 4 |
| UAAGCAUA | 4 |
| UGAAGAAG | 2 |
| UUGUUCA | 2 |
| CUGUUCG | 2 |
| U(OMU)(OMG)(PSU)UCA | 2 |
| UGCAGAAG | 1 |
| UGUAGUCG | 1 |
| UGCAGCAG | 1 |
| UGAAGUAG | 1 |
| UGCACAA | 1 |
| GUUUUAC | 1 |
| C(OMU)(OMG)CCCG | 1 |
| CGUUCG | 1 |
| C(OMU)GUUCG | 1 |
| U(OMU)(OMG)UUCG | 1 |
| UUCA | 1 |
| UAAGCA(PSU)A | 1 |
| GGAAUAC | 1 |
| ACUCUGGAU | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AAACAU | 6 |
| GCAGAA | 5 |
| UGUUC | 4 |
| AAGCAU | 4 |
| (OMU)(OMG)(PSU)UC | 3 |
| GAAGAA | 2 |
| (OMU)GUUC | 2 |
| GUAGUC | 1 |
| GCAGCA | 1 |
| GAAGUA | 1 |
| GCACA | 1 |
| UUUUA | 1 |
| (OMU)(OMG)CCC | 1 |
| (OMU)(OMG)UUC | 1 |
| AAGCA(PSU) | 1 |
| GAAUA | 1 |
| CUCUGGA | 1 |
- Annotations
-
- (20)
- LSU A loop (9)
- GNRA variation (4)
- GNRA variation (H) (2)
- GNRA (1)
- Basepair signature
- cWW-F-F-F-F-F
- Heat map statistics
- Min 0.04 | Avg 0.56 | Max 1.00
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