Motif HL_28436.2 Version HL_28436.2 of this group appears in releases 0.5 to 1.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3OWZ_001 | 3OWZ | 0.7240 | 2 | A | Glycine riboswitch | G | 17 | U | 19 | U | 20 | A | 21 | U | 23 | C | 24 | cWW | |
| 2 | HL_1U6B_002 | 1U6B | 0.5668 | 0 | Pseudoknot geometry | B | 197-MER | C | 70 | G | 71 | C | 72 | C | 73 | C | 74 | G | 75 | cWW |
| 3 | HL_4GXY_003 | 4GXY | 0.3842 | 1 | Pseudoknot geometry | A | Cobalamin riboswitch | G | 65 | C | 67 | C | 68 | C | 69 | G | 70 | C | 71 | cWW |
| 4 | HL_3OWZ_002 | 3OWZ | 0.3159 | 0 | A | Glycine riboswitch | G | 49 | G | 50 | A | 51 | A | 52 | A | 53 | C | 54 | cWW | |
| 5 | HL_1S72_067 | 1S72 | 0.1984 | 0 | Ribsomal LSU H95 (H) | 0 | LSU rRNA | C | 2737 | G | 2738 | A | 2739 | G | 2740 | A | 2741 | G | 2742 | cWW |
| 6 | HL_3U5H_067 | 3U5H | 0.1513 | 0 | 5 | LSU rRNA | U | 3068 | G | 3069 | A | 3070 | U | 3071 | C | 3072 | A | 3073 | cWW | |
| 7 | HL_4A1B_066 | 4A1B | 0.0000 | 0 | 1 | LSU rRNA | U | 3057 | G | 3058 | A | 3059 | A | 3060 | A | 3061 | A | 3062 | cWW | |
| 8 | HL_2ZJR_063 | 2ZJR | 0.2284 | 0 | Ribsomal LSU H95 (H) | X | LSU rRNA | U | 2680 | A | 2681 | C | 2682 | C | 2683 | A | 2684 | A | 2685 | cWW |
| 9 | HL_2QBG_067 | 2QBG | 0.2447 | 0 | B | LSU rRNA | U | 2701 | G | 2702 | C | 2703 | C | 2704 | A | 2705 | A | 2706 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GUUUAAUC | 1 |
| CGCCCG | 1 |
| GUCCCGC | 1 |
| GGAAAC | 1 |
| CGAGAG | 1 |
| UGAUCA | 1 |
| UGAAAA | 1 |
| UACCAA | 1 |
| UGCCAA | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GAAA | 2 |
| UUUAAU | 1 |
| GCCC | 1 |
| UCCCG | 1 |
| GAGA | 1 |
| GAUC | 1 |
| ACCA | 1 |
| GCCA | 1 |
Release history
| Release | 0.5 | 0.6 | 0.7 | 0.8 | 1.0 |
|---|---|---|---|---|---|
| Date | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-02-17 | 2013-03-04 |
| Status | Updated, 2 parents | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in HL_28436.2 | Only in the parent motif |
|---|---|---|---|
| HL_28436.1 Compare | HL_3OWZ_002, HL_2ZJR_063, HL_1U6B_002, HL_1S72_067, HL_2QBG_067, HL_4A1B_066, HL_3U5H_067 | HL_4GXY_003, HL_3OWZ_001 | HL_2NR0_003, HL_2ZJR_037 |
| HL_16860.1 Compare | HL_3OWZ_001 | HL_3OWZ_002, HL_2ZJR_063, HL_4GXY_003, HL_1U6B_002, HL_1S72_067, HL_2QBG_067, HL_4A1B_066, HL_3U5H_067 |
Children motifs
| Child motif | Common motif instances | Only in HL_28436.2 | Only in the child motif |
|---|---|---|---|
| HL_28436.3 Compare | HL_3OWZ_001, HL_3OWZ_002, HL_4GXY_003, HL_1U6B_002, HL_1S72_067, HL_2QBG_067, HL_4A1B_066, HL_3U5H_067 | HL_2ZJR_063 | HL_4IOA_064 |
- Annotations
-
- (5)
- Ribsomal LSU H95 (H) (2)
- Pseudoknot geometry (2)
- Basepair signature
- cWW-R-R-R
- Heat map statistics
- Min 0.10 | Avg 0.39 | Max 0.81
Coloring options: