Motif HL_12125.2 Version HL_12125.2 of this group appears in releases 4.1 to 4.6
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3R4F_005 | 3R4F | 0.4312 | 0 | Pseudoknot geometry | A | pRNA | U | 52 | G | 53 | G | 54 | U | 55 | U | 56 | G | 57 | ncWW |
| 2 | HL_1U6B_002 | 1U6B | 0.4265 | 0 | Pseudoknot geometry | B | 197-MER | C | 70 | G | 71 | C | 72 | C | 73 | C | 74 | G | 75 | cWW |
| 3 | HL_8GLP_105 | 8GLP | 0.2687 | 0 | S2 | SSU rRNA | U | 1114 | U | 1115 | C | 1116 | C | 1117 | C | 1118 | A | 1119 | cWW | |
| 4 | HL_8OI5_062 | 8OI5 | 0.1420 | 0 | Ribsomal LSU H95 (H) | 1 | LSU rRNA | U | 3040 | G | 3041 | A | 3042 | U | 3043 | C | 3044 | A | 3045 | cWW |
| 5 | HL_8P9A_177 | 8P9A | 0.1588 | 0 | Ribsomal LSU H95 (H) | AR | LSU rRNA | U | 3068 | G | 3069 | A | 3070 | U | 3071 | C | 3072 | A | 3073 | cWW |
| 6 | HL_4V9F_067 | 4V9F | 0.1694 | 0 | Ribsomal LSU H95 | 0 | LSU rRNA | C | 2737 | G | 2738 | A | 2739 | G | 2740 | A | 2741 | G | 2742 | cWW |
| 7 | HL_6UFM_005 | 6UFM | 0.1995 | 0 | Pseudoknot geometry | B | RNA (98-MER) | G | 50 | G | 51 | A | 52 | A | 53 | A | 54 | C | 55 | cWW |
| 8 | HL_9E6Q_063 | 9E6Q | 0.1464 | 0 | Ribsomal LSU H95 (H) | 1 | LSU rRNA | C | 2815 | G | 2816 | G | 2817 | C | 2818 | A | 2819 | G | 2820 | cWW |
| 9 | HL_9AXU_062 | 9AXU | 0.1311 | 0 | Ribsomal LSU H95 (H) | 2 | LSU rRNA | U | 3164 | G | 3165 | A | 3166 | C | 3167 | A | 3168 | A | 3169 | cWW |
| 10 | HL_8GLP_071 | 8GLP | 0.0000 | 0 | Ribsomal LSU H95 (H) | L5 | LSU rRNA | U | 4646 | G | 4647 | A | 4648 | G | 4649 | G | 4650 | A | 4651 | cWW |
| 11 | HL_8B0X_092 | 8B0X | 0.1262 | 0 | Ribsomal LSU H95 (H) | a | LSU rRNA | U | 2705 | G | 2706 | C | 2707 | C | 2708 | A | 2709 | A | 2710 | cWW |
| 12 | HL_7A0S_064 | 7A0S | 0.1439 | 0 | Ribsomal LSU H95 | X | LSU rRNA | U | 2680 | A | 2681 | C | 2682 | C | 2683 | A | 2684 | A | 2685 | cWW |
| 13 | HL_4WF9_061 | 4WF9 | 0.1916 | 0 | Ribsomal LSU H95 | X | LSU rRNA | U | 2728 | G | 2729 | C | 2730 | C | 2731 | A | 2732 | A | 2733 | cWW |
| 14 | HL_4PQV_002 | 4PQV | 0.3559 | 1 | Pseudoknot geometry | A | Flavivirus 3' UTR stem loop IV | C | 28 | G | 29 | C | 30 | C | 31 | G | 32 | G | 34 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGAUCA | 2 |
| UGCCAA | 2 |
| UGGUUG | 1 |
| CGCCCG | 1 |
| UUCCCA | 1 |
| CGAGAG | 1 |
| GGAAAC | 1 |
| CGGCAG | 1 |
| UGACAA | 1 |
| UGAGGA | 1 |
| UACCAA | 1 |
| CGCCGAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GAUC | 2 |
| GCCA | 2 |
| GGUU | 1 |
| GCCC | 1 |
| UCCC | 1 |
| GAGA | 1 |
| GAAA | 1 |
| GGCA | 1 |
| GACA | 1 |
| GAGG | 1 |
| ACCA | 1 |
| GCCGA | 1 |
- Annotations
-
- Ribsomal LSU H95 (H) (6)
- Pseudoknot geometry (4)
- Ribsomal LSU H95 (3)
- (1)
- Basepair signature
- cWW-F-F-F-F
- Heat map statistics
- Min 0.06 | Avg 0.27 | Max 0.60
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