Motif HL_49036.4 Version HL_49036.4 of this group appears in releases 1.14 to 1.14
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 1-6 | 2-5 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4NVV_020 | 4NVV | 0.5506 | 1 | A | 23S Ribosomal RNA | C | 666 | G | 667 | A | 668 | A | 669 | A | 671 | G | 672 | cWW | ntSW | |
| 2 | HL_3Q1Q_010 | 3Q1Q | 0.5636 | 0 | C | TRNA (PHE) | G | 37 | C | 38 | A | 39 | C | 40 | C | 41 | C | 42 | cWW | ntWH | |
| 3 | HL_4AL5_001 | 4AL5 | 0.2441 | 1 | GNRA | B | RNA (20-mer) | C | 10 | G | 11 | U | 12 | A | 13 | A | 15 | G | 16 | cWW | tSH |
| 4 | HL_1S72_016 | 1S72 | 0.2830 | 1 | GNRA (H) | 0 | LSU rRNA | U | 493 | C | 494 | A | 495 | G | 496 | A | 498 | G | 499 | cWW | ntSH |
| 5 | HL_4A1B_041 | 4A1B | 0.3069 | 1 | 1 | 26S RRNA | U | 1886 | U | 1887 | A | 1888 | G | 1889 | A | 1891 | G | 1892 | cWW | ntSH | |
| 6 | HL_3U5H_042 | 3U5H | 0.2647 | 1 | 5 | 25S rRNA | U | 1862 | G | 1863 | A | 1864 | A | 1865 | A | 1867 | G | 1868 | cWW | tSH | |
| 7 | HL_4BPP_030 | 4BPP | 0.0000 | 1 | A | 18S RRNA | U | 1330 | A | 1331 | A | 1332 | A | 1333 | A | 1335 | A | 1336 | cWW | ntSH | |
| 8 | HL_2QBG_043 | 2QBG | 0.2154 | 1 | B | 23S rRNA | A | 1630 | G | 1631 | A | 1632 | G | 1633 | A | 1635 | U | 1636 | cWW | tSH | |
| 9 | HL_1XJR_001 | 1XJR | 0.2875 | 1 | GNRA | A | s2m RNA | G | 21 | G | 22 | A | 23 | G | 24 | A | 26 | C | 27 | cWW | tSH |
| 10 | HL_3D0U_003 | 3D0U | 0.5081 | 1 | GNRA | A | Lysine Riboswitch RNA | G | 121 | G | 122 | A | 123 | A | 124 | A | 126 | C | 127 | cWW | tSH |
| 11 | HL_1S72_022 | 1S72 | 0.5589 | 0 | GNRA (H) | 0 | LSU rRNA | U | 733 | U | 734 | C | 735 | A | 736 | A | 737 | G | 738 | cWW | |
| 12 | HL_2QBG_022 | 2QBG | 0.6370 | 1 | B | 23S rRNA | U | 641 | U | 642 | A | 643 | A | 644 | U | 646 | G | 647 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| CGAACAG | 1 |
| GCACCC | 1 |
| CGUAUAG | 1 |
| UCAGAAG | 1 |
| UUAGCAG | 1 |
| UGAACAG | 1 |
| UAAAUAA | 1 |
| AGAGAAU | 1 |
| GGAGUAC | 1 |
| GGAAUAC | 1 |
| UUCAAG | 1 |
| UUAACUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GAACA | 2 |
| CACC | 1 |
| GUAUA | 1 |
| CAGAA | 1 |
| UAGCA | 1 |
| AAAUA | 1 |
| GAGAA | 1 |
| GAGUA | 1 |
| GAAUA | 1 |
| UCAA | 1 |
| UAACU | 1 |
Release history
| Release | 1.14 |
|---|---|
| Date | 2014-04-27 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in HL_49036.4 | Only in the parent motif |
|---|---|---|---|
| HL_49036.3 Compare | HL_1S72_022, HL_4AL5_001, HL_3D0U_003, HL_2QBG_043, HL_1XJR_001, HL_3U5H_042, HL_3Q1Q_010, HL_4A1B_041, HL_4BPP_030, HL_1S72_016 | HL_4NVV_020, HL_2QBG_022 | HL_4IOA_004, HL_4IOA_045 |
| HL_87844.2 Compare | HL_2QBG_022 | HL_4NVV_020, HL_1S72_022, HL_4AL5_001, HL_3D0U_003, HL_2QBG_043, HL_1XJR_001, HL_3U5H_042, HL_3Q1Q_010, HL_4A1B_041, HL_4BPP_030, HL_1S72_016 | HL_3V2F_006, HL_4A1B_001, HL_3DIR_003, HL_2QBG_008, HL_3V2F_021, HL_1S72_006, HL_4IOA_006, HL_3U5H_001 |
Children motifs
| Child motif | Common motif instances | Only in HL_49036.4 | Only in the child motif |
|---|---|---|---|
| HL_49036.5 Compare | HL_4NVV_020, HL_2QBG_022, HL_1S72_022, HL_4AL5_001, HL_3D0U_003, HL_2QBG_043, HL_1XJR_001, HL_3U5H_042, HL_3Q1Q_010, HL_4A1B_041, HL_4BPP_030, HL_1S72_016 | HL_4CUV_042 |
- Annotations
-
- (7)
- GNRA (3)
- GNRA (H) (2)
- Basepair signature
- cWW-tSH-R-R
- Heat map statistics
- Min 0.18 | Avg 0.48 | Max 0.87
Coloring options: