Motif HL_27930.1 Version HL_27930.1 of this group appears in releases 3.80 to 3.83
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 1-5 | 2-4 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_8C3A_197 | 8C3A | 0.8600 | 3 | CM | SSU rRNA | G | 241 | A | 242 | U | 243 | U | 246 | C | 248 | cWW | ||
| 2 | HL_4V88_191 | 4V88 | 0.8440 | 3 | T-loop with 1 bulged base | A6 | SSU rRNA | G | 243 | A | 244 | U | 245 | U | 248 | C | 250 | cWW | |
| 3 | HL_4V9F_039 | 4V9F | 0.8699 | 2 | Other HL | 0 | LSU rRNA | C | 1594 | G | 1595 | U | 1596 | U | 1599 | G | 1600 | cWW | |
| 4 | HL_7A0S_023 | 7A0S | 0.3746 | 2 | X | LSU rRNA | U | 792 | G | 793 | A | 795 | A | 796 | G | 798 | cWW | cSW | |
| 5 | HL_5J7L_140 | 5J7L | 0.0000 | 1 | DA | LSU rRNA | C | 225 | A | 226 | A | 227 | C | 229 | G | 230 | cWW | tSH | |
| 6 | HL_7ENI_002 | 7ENI | 0.2147 | 2 | B | sgRNA (74-MER) | C | 59 | A | 60 | A | 61 | A | 63 | G | 65 | cWW | cSW | |
| 7 | HL_7EL1_002 | 7EL1 | 0.2258 | 2 | B | RNA (73-MER) | C | 59 | A | 60 | A | 61 | A | 63 | G | 65 | cWW | cSW | |
| 8 | HL_7RQB_026 | 7RQB | 0.5506 | 3 | 1A | LSU rRNA | C | 884 | C | 885 | C | 886 | A | 890 | G | 892 | cWW | ntSH | |
| 9 | HL_5FMZ_001 | 5FMZ | 0.4249 | 1 | H | RNA (12-mer) | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | ||
| 10 | HL_7Z42_002 | 7Z42 | 0.4093 | 1 | V | RNA (13-mer) | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | cSW | |
| 11 | HL_4WRT_001 | 4WRT | 0.3941 | 1 | V | Influenza virus polymerase vRNA promoter 5' end | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | ncSW | |
| 12 | HL_4WSB_001 | 4WSB | 0.4020 | 1 | V | Influenza A polymerase vRNA promoter 5' end | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | ||
| 13 | HL_5M3H_001 | 5M3H | 0.3719 | 1 | V | RNA 5'-pAGUAGUAACAAGAGGG | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | ||
| 14 | HL_7Z4O_002 | 7Z4O | 0.3597 | 1 | VVV | RNA (12-mer) | U | 3 | A | 4 | G | 5 | A | 7 | A | 8 | cWW | ||
| 15 | HL_4V9F_069 | 4V9F | 0.9183 | 4 | 0 | LSU rRNA | G | 2836 | A | 2838 | C | 2839 | A | 2843 | C | 2844 | cWW | cSW | |
| 16 | HL_5TBW_070 | 5TBW | 0.8993 | 4 | 1 | LSU rRNA | G | 3303 | A | 3305 | U | 3306 | A | 3310 | C | 3311 | cWW | cSW | |
| 17 | HL_8C3A_071 | 8C3A | 0.9209 | 4 | 1 | LSU rRNA | G | 3268 | A | 3270 | U | 3271 | A | 3275 | C | 3276 | cWW | cSW | |
| 18 | HL_5J7L_201 | 5J7L | 0.8795 | 4 | DA | LSU rRNA | G | 2819 | A | 2821 | G | 2822 | A | 2826 | C | 2827 | cWW | cSW | |
| 19 | HL_7RQB_068 | 7RQB | 0.9170 | 4 | 1A | LSU rRNA | G | 2819 | A | 2821 | G | 2822 | A | 2826 | C | 2827 | cWW | cSW | |
| 20 | HL_7A0S_067 | 7A0S | 0.9435 | 4 | X | LSU rRNA | G | 2794 | A | 2796 | G | 2797 | A | 2801 | C | 2802 | cWW | cSW | |
| 21 | HL_4WF9_064 | 4WF9 | 0.9049 | 4 | X | LSU rRNA | A | 2839 | A | 2841 | G | 2842 | A | 2846 | U | 2847 | cWW | cSW | |
| 22 | HL_2DER_005 | 2DER | 0.9236 | 4 | D | tRNA | C | 31 | C | 32 | U | 33 | C | 38 | G | 39 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UAGUAA | 6 |
| GAUGAUUC | 2 |
| CAAAAUG | 2 |
| GAAGACCAC | 2 |
| CGUAAUG | 1 |
| UGAAAAG | 1 |
| CAACCG | 1 |
| CCCACCAG | 1 |
| GUACAAGAC | 1 |
| GUAUACGAC | 1 |
| GCAUACGAC | 1 |
| GAAGACGAC | 1 |
| AAAGAUGAU | 1 |
| CCUUUCACG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| AGUA | 6 |
| AUGAUU | 2 |
| AAAAU | 2 |
| AAGACCA | 2 |
| GUAAU | 1 |
| GAAAA | 1 |
| AACC | 1 |
| CCACCA | 1 |
| UACAAGA | 1 |
| UAUACGA | 1 |
| CAUACGA | 1 |
| AAGACGA | 1 |
| AAGAUGA | 1 |
| CUUUCAC | 1 |
- Annotations
-
- T-loop with 1 bulged base (1)
- Other HL (1)
- Basepair signature
- cWW-cSW-F
- Heat map statistics
- Min 0.06 | Avg 0.53 | Max 0.96
Coloring options: