Motif HL_65794.5 Version HL_65794.5 of this group appears in releases 3.95 to 3.96
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_7YSE_002 | 7YSE | 0.7698 | 1 | Pseudoknot geometry | E | tRNA | U | 32 | G | 34 | C | 35 | C | 36 | A | 37 | A | 38 | cWW |
| 2 | HL_8K1E_001 | 8K1E | 0.6191 | 1 | A | RNA (58-MER) | G | 23 | A | 25 | C | 26 | G | 27 | G | 28 | C | 29 | cWW | |
| 3 | HL_4GXY_003 | 4GXY | 0.4779 | 1 | Pseudoknot geometry | A | Adenosylcobalamin riboswitch | G | 65 | C | 67 | C | 68 | C | 69 | G | 70 | C | 71 | cWW |
| 4 | HL_8KEB_002 | 8KEB | 0.5094 | 1 | A | RNA (72-MER) | G | 34 | A | 36 | A | 37 | U | 38 | A | 39 | C | 40 | cWW | |
| 5 | HL_8P9A_177 | 8P9A | 0.0637 | 0 | Ribsomal LSU H95 (H) | AR | LSU rRNA | U | 3068 | G | 3069 | A | 3070 | U | 3071 | C | 3072 | A | 3073 | cWW |
| 6 | HL_8CRE_065 | 8CRE | 0.0000 | 0 | Ribsomal LSU H95 (H) | 1 | LSU rRNA | U | 3040 | G | 3041 | A | 3042 | U | 3043 | C | 3044 | A | 3045 | cWW |
| 7 | HL_4V9F_067 | 4V9F | 0.1566 | 0 | Ribsomal LSU H95 | 0 | LSU rRNA | C | 2737 | G | 2738 | A | 2739 | G | 2740 | A | 2741 | G | 2742 | cWW |
| 8 | HL_6UFM_005 | 6UFM | 0.2255 | 0 | Pseudoknot geometry | B | RNA (98-MER) | G | 50 | G | 51 | A | 52 | A | 53 | A | 54 | C | 55 | cWW |
| 9 | HL_5J7L_198 | 5J7L | 0.2198 | 0 | Ribsomal LSU H95 | DA | LSU rRNA | U | 2701 | G | 2702 | C | 2703 | C | 2704 | A | 2705 | A | 2706 | cWW |
| 10 | HL_7A0S_064 | 7A0S | 0.1887 | 0 | Ribsomal LSU H95 | X | LSU rRNA | U | 2680 | A | 2681 | C | 2682 | C | 2683 | A | 2684 | A | 2685 | cWW |
| 11 | HL_4WF9_061 | 4WF9 | 0.2512 | 0 | Ribsomal LSU H95 | X | LSU rRNA | U | 2728 | G | 2729 | C | 2730 | C | 2731 | A | 2732 | A | 2733 | cWW |
| 12 | HL_4PQV_002 | 4PQV | 0.4248 | 1 | Pseudoknot geometry | A | Flavivirus 3' UTR stem loop IV | C | 28 | G | 29 | C | 30 | C | 31 | G | 32 | G | 34 | cWW |
| 13 | HL_1U6B_002 | 1U6B | 0.3830 | 0 | Pseudoknot geometry | B | 197-MER | C | 70 | G | 71 | C | 72 | C | 73 | C | 74 | G | 75 | cWW |
| 14 | HL_3R4F_005 | 3R4F | 0.4068 | 0 | Pseudoknot geometry | A | pRNA | U | 52 | G | 53 | G | 54 | U | 55 | U | 56 | G | 57 | ncWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGAUCA | 2 |
| UGCCAA | 2 |
| UUGCCAA | 1 |
| GCACGGC | 1 |
| GUCCCGC | 1 |
| GCAAUAC | 1 |
| CGAGAG | 1 |
| GGAAAC | 1 |
| UACCAA | 1 |
| CGCCGAG | 1 |
| CGCCCG | 1 |
| UGGUUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GAUC | 2 |
| GCCA | 2 |
| UGCCA | 1 |
| CACGG | 1 |
| UCCCG | 1 |
| CAAUA | 1 |
| GAGA | 1 |
| GAAA | 1 |
| ACCA | 1 |
| GCCGA | 1 |
| GCCC | 1 |
| GGUU | 1 |
- Annotations
-
- Pseudoknot geometry (6)
- Ribsomal LSU H95 (4)
- Ribsomal LSU H95 (H) (2)
- (2)
- Basepair signature
- cWW-F-F-F-F
- Heat map statistics
- Min 0.06 | Avg 0.44 | Max 0.93
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