Motif HL_27271.4 Version HL_27271.4 of this group appears in releases 1.16 to 1.18
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_2NR0_003 | 2NR0 | 0.5888 | 0 | E | leucyl tRNA | C | 45|||D | A | 45|||E | A | 45|||F | U | 45|||G | A | 45|||H | G | 46|||I | cWW | |
| 2 | HL_4PQV_002 | 4PQV | 0.3991 | 1 | Pseudoknot geometry | A | Flavivirus 3' UTR stem loop IV | C | 28 | G | 29 | C | 30 | C | 31 | G | 32 | G | 34 | cWW |
| 3 | HL_4IOA_064 | 4IOA | 0.2190 | 0 | Ribsomal LSU H95 (H) | X | LSU rRNA | U | 2680 | A | 2681 | C | 2682 | C | 2683 | A | 2684 | A | 2685 | cWW |
| 4 | HL_2QBG_067 | 2QBG | 0.2447 | 0 | B | 23S rRNA | U | 2701 | G | 2702 | C | 2703 | C | 2704 | A | 2705 | A | 2706 | cWW | |
| 5 | HL_4M30_002 | 4M30 | 0.2622 | 0 | D | RNA12 | C | 11 | G | 12 | C | 13 | A | 14 | A | 15 | G | 16 | cWW | |
| 6 | HL_4M30_001 | 4M30 | 0.2380 | 0 | C | RNA12 | C | 11 | G | 12 | C | 13 | A | 14 | A | 15 | G | 16 | cWW | |
| 7 | 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 |
| 8 | HL_1VX6_066 | 1VX6 | 0.1583 | 0 | A | 28S ribosomal RNA | U | 3453 | G | 3454 | A | 3455 | C | 3456 | A | 3457 | A | 3458 | cWW | |
| 9 | HL_4A1B_066 | 4A1B | 0.0000 | 0 | 1 | 26S RRNA | U | 3057 | G | 3058 | A | 3059 | A | 3060 | A | 3061 | A | 3062 | cWW | |
| 10 | HL_3U5H_067 | 3U5H | 0.1513 | 0 | 5 | 25S rRNA | U | 3068 | G | 3069 | A | 3070 | U | 3071 | C | 3072 | A | 3073 | cWW | |
| 11 | HL_4CUV_067 | 4CUV | 0.2597 | 0 | 1 | 25S RRNA | U | 3068 | G | 3069 | A | 3070 | U | 3071 | C | 3072 | A | 3073 | cWW | |
| 12 | HL_3OWZ_002 | 3OWZ | 0.3159 | 0 | A | Domain II of glycine riboswitch | G | 49 | G | 50 | A | 51 | A | 52 | A | 53 | C | 54 | cWW | |
| 13 | 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 |
| 14 | HL_4IOA_036 | 4IOA | 0.7481 | 1 | Pseudoknot geometry with 3' bulge (H) | X | LSU rRNA | G | 1508 | A | 1509 | A | 1510 | A | 1511 | A | 1512 | C | 1514 | cWW |
| 15 | HL_2QBG_039 | 2QBG | 0.8276 | 1 | B | 23S rRNA | G | 1492 | C | 1493 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CGCAAG | 2 |
| UGAUCA | 2 |
| CAAUAG | 1 |
| CGCCGAG | 1 |
| UACCAA | 1 |
| UGCCAA | 1 |
| CGAGAG | 1 |
| UGACAA | 1 |
| UGAAAA | 1 |
| GGAAAC | 1 |
| CGCCCG | 1 |
| GAAAAUC | 1 |
| GCAAAUC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GCAA | 2 |
| GAAA | 2 |
| GAUC | 2 |
| AAUA | 1 |
| GCCGA | 1 |
| ACCA | 1 |
| GCCA | 1 |
| GAGA | 1 |
| GACA | 1 |
| GCCC | 1 |
| AAAAU | 1 |
| CAAAU | 1 |
Release history
| Release | 1.16 | 1.17 | 1.18 |
|---|---|---|---|
| Date | 2014-07-26 | 2014-09-06 | 2014-10-09 |
| Status | Updated, 1 parent | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in HL_27271.4 | Only in the parent motif |
|---|---|---|---|
| HL_27271.3 Compare | HL_2NR0_003, HL_3OWZ_002, HL_4CUV_067, HL_2QBG_039, HL_4M30_002, HL_1U6B_002, HL_1S72_067, HL_4PQV_002, HL_4M30_001, HL_4A1B_066, HL_4IOA_036, HL_3U5H_067, HL_2QBG_067, HL_4IOA_064 | HL_1VX6_066 |
Children motifs
This motif has no children motifs.- Annotations
-
- (10)
- Ribsomal LSU H95 (H) (2)
- Pseudoknot geometry (2)
- Pseudoknot geometry with 3' bulge (H) (1)
- Basepair signature
- cWW-R-R-R
- Heat map statistics
- Min 0.11 | Avg 0.46 | Max 0.96
Coloring options: