Motif HL_18781.9 Version HL_18781.9 of this group appears in releases 1.18 to 1.18
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 1-7 | 1-8 | 2-7 | 2-8 | 3-6 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4W21_028 | 4W21 | 0.5265 | 0 | 5 | 28S ribosomal RNA | U | 2006 | G | 2007 | U | 2008 | A | 2009 | A | 2010 | C | 2011 | A | 2012 | A | 2013 | cWW | ntSH | ||||
| 2 | HL_2QBG_023 | 2QBG | 0.4340 | 0 | B | 23S rRNA | G | 712 | G | 713 | U | 714 | A | 715 | A | 716 | C | 717 | A | 718 | C | 719 | cWW | |||||
| 3 | HL_1QA6_002 | 1QA6 | 0.1557 | 0 | C | 58 NUCLEOTIDE RIBOSOMAL RNA DOMAIN | C | 142 | G | 143 | U | 144 | A | 145 | A | 146 | U | 147 | A | 148 | G | 149 | cWW | tSH | ||||
| 4 | HL_3U5H_028 | 3U5H | 0.0000 | 0 | 5 | 25S rRNA | U | 1267 | G | 1268 | U | 1269 | A | 1270 | A | 1271 | C | 1272 | A | 1273 | A | 1274 | cWW | tSH | ntSHa | |||
| 5 | HL_1S72_031 | 1S72 | 0.1161 | 0 | GNRA wlth tandem sheared (H) | 0 | LSU rRNA | C | 1196 | G | 1197 | U | 1198 | A | 1199 | A | 1200 | C | 1201 | A | 1202 | G | 1203 | cWW | tSH | ntSHa | ||
| 6 | HL_2QBG_031 | 2QBG | 0.1847 | 0 | B | 23S rRNA | C | 1092 | G | 1093 | U | 1094 | A | 1095 | A | 1096 | U | 1097 | A | 1098 | G | 1099 | cWW | tSH | ||||
| 7 | HL_4A1B_012 | 4A1B | 0.2091 | 0 | 1 | 26S RRNA | C | 486 | G | 487 | U | 488 | A | 489 | A | 490 | A | 491 | A | 492 | G | 493 | cWW | ntSH | ||||
| 8 | HL_1E8O_001 | 1E8O | 0.4036 | 0 | GNRA wlth tandem sheared | E | 7SL RNA | G | 110 | G | 111 | U | 112 | G | 113 | G | 114 | C | 115 | G | 116 | C | 117 | cWW | ntSH | ntSHa | ||
| 9 | HL_1NBS_002 | 1NBS | 0.4492 | 0 | A | RNase P class B | C | 118 | U | 119 | U | 120 | U | 121 | A | 122 | G | 123 | A | 124 | G | 125 | cWW | ntSH | ||||
| 10 | HL_4QCN_021 | 4QCN | 0.4035 | 0 | A | 23S Ribosomal RNA | G | 759 | G | 760 | U | 761 | G | 762 | A | 763 | G | 764 | A | 765 | C | 766 | cWW | ntSH | ||||
| 11 | HL_1U9S_003 | 1U9S | 0.4397 | 1 | A | RIBONUCLEASE P | G | 181 | G | 182 | U | 183 | A | 184 | A | 185 | G | 186 | A | 187 | C | 189 | cWW | |||||
| 12 | HL_3Q1Q_005 | 3Q1Q | 0.4564 | 1 | B | RNase P RNA | G | 165 | G | 166 | U | 167 | A | 168 | A | 169 | G | 170 | A | 171 | C | 173 | cWW | |||||
| 13 | HL_4BPP_008 | 4BPP | 0.4331 | 1 | A | 18S RRNA | U | 321 | G | 322 | U | 323 | A | 324 | U | 325 | U | 326 | G | 327 | A | 329 | cWW | |||||
| 14 | HL_3J7A_006 | 3J7A | 0.4346 | 1 | GNRA related (H) | A | SSU rRNA | G | 336 | G | 337 | U | 338 | A | 339 | U | 340 | U | 341 | G | 342 | C | 344 | cWW | ||||
| 15 | HL_3U5F_008 | 3U5F | 0.4570 | 1 | 6 | 18S rRNA | G | 330 | A | 331 | U | 332 | A | 333 | G | 334 | U | 335 | G | 336 | C | 338 | cWW | |||||
| 16 | HL_1FJG_006 | 1FJG | 0.4621 | 1 | GNRA related (H) | A | SSU rRNA | G | 259 | G | 260 | U | 261 | A | 262 | A | 263 | U | 264 | G | 265 | C | 267 | cWW | ||||
| 17 | HL_4CUX_008 | 4CUX | 0.4750 | 1 | 2 | 18S RRNA | G | 330 | A | 331 | U | 332 | A | 333 | G | 334 | U | 335 | G | 336 | C | 338 | cWW | |||||
| 18 | HL_2AW7_006 | 2AW7 | 0.4363 | 1 | A | 16S ribosomal RNA | G | 259 | G | 260 | U | 261 | A | 262 | A | 263 | C | 264 | G | 265 | C | 267 | cWW | |||||
| 19 | HL_4KQY_003 | 4KQY | 0.5384 | 1 | GNRA wlth tandem sheared | A | SAM-I riboswitch | C | 94 | U | 95 | C | 96 | G | 97 | A | 98 | A | 99 | C | 100 | G | 102 | cWW | ||||
| 20 | HL_1VW3_048 | 1VW3 | 0.5338 | 0 | A | 21S ribosomal RNA | C | 2622 | A | 2623 | A | 2624 | A | 2625 | C | 2626 | G | 2627 | A | 2628 | G | 2629 | cWW | |||||
| 21 | HL_4QCN_055 | 4QCN | 0.4635 | 0 | A | 23S Ribosomal RNA | C | 2367 | C | 2368 | U | 2369 | G | 2370 | C | 2371 | A | 2372 | A | 2373 | G | 2374 | cWW | ncWW | ||||
| 22 | HL_4IOA_056 | 4IOA | 0.3395 | 0 | GNRA with extra cWW (H) | X | LSU rRNA | C | 2334 | U | 2335 | G | 2336 | A | 2337 | C | 2338 | A | 2339 | C | 2340 | G | 2341 | cWW | ntSH | |||
| 23 | HL_4A1B_032 | 4A1B | 0.4148 | 0 | 1 | 26S RRNA | G | 1569 | U | 1570 | U | 1571 | A | 1572 | A | 1573 | C | 1574 | U | 1575 | C | 1576 | cWW | ncwW | ntSHa | |||
| 24 | HL_1VX6_048 | 1VX6 | 0.4693 | 0 | A | 28S ribosomal RNA | A | 2512 | U | 2513 | G | 2514 | A | 2515 | A | 2516 | A | 2517 | U | 2518 | U | 2519 | cWW | |||||
| 25 | HL_2IL9_006 | 2IL9 | 0.6316 | 0 | M | Ribosomal Binding Domain of the IRES RNA | G | 6118 | C | 6119 | G | 6119|||A | A | 6119|||B | A | 6119|||C | A | 6119|||D | G | 6119|||E | C | 6124 | cWW | ncWW | tSH | |||
| 26 | HL_4UN3_001 | 4UN3 | 0.6154 | 0 | A | tracrRNA | U | 31 | A | 32 | G | 33 | A | 34 | A | 35 | A | 36 | U | 37 | A | 38 | ncWW | ncWW | ||||
| 27 | HL_4CUV_052 | 4CUV | 0.5916 | 0 | 1 | 25S RRNA | G | 2469 | C | 2470 | G | 2471 | C | 2472 | A | 2473 | A | 2474 | G | 2475 | C | 2476 | ncWW | cwW | ntSH | |||
| 28 | HL_4CUV_039 | 4CUV | 0.7014 | 0 | 1 | 25S RRNA | C | 1759 | A | 1760 | C | 1761 | C | 1762 | U | 1763 | U | 1764 | U | 1765 | G | 1766 | cWW | ncWW | ||||
| 29 | HL_1VX6_004 | 1VX6 | 0.7279 | 0 | A | 28S ribosomal RNA | G | 135 | U | 136 | G | 137 | C | 138 | A | 139 | A | 140 | A | 141 | C | 142 | cWW | ncHW | ||||
| 30 | HL_4W23_014 | 4W23 | 0.7019 | 0 | 2 | 18S ribosomal RNA | G | 617 | C | 618 | A | 619 | G | 620 | C | 621 | C | 622 | G | 623 | C | 624 | ncWw | ncWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGUAACAA | 2 |
| CGUAAUAG | 2 |
| GGUAAGAGC | 2 |
| GAUAGUGGC | 2 |
| GGUAACAC | 1 |
| CGUAACAG | 1 |
| CGUAAAAG | 1 |
| GGUGGCGC | 1 |
| CUUUAGAG | 1 |
| GGUGAGAC | 1 |
| UGUAUUGGA | 1 |
| GGUAUUGGC | 1 |
| GGUAAUGGC | 1 |
| GGUAACGGC | 1 |
| CUCGAACAG | 1 |
| CAAACGAG | 1 |
| CCUGCAAG | 1 |
| CUGACACG | 1 |
| GUUAACUC | 1 |
| AUGAAAUU | 1 |
| GCGAAAGC | 1 |
| UAGAAAUA | 1 |
| GCGCAAGC | 1 |
| CACCUUUG | 1 |
| GUGCAAAC | 1 |
| GCAGCCGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GUAACA | 4 |
| GUAAUA | 2 |
| GUAAGAG | 2 |
| GUAUUGG | 2 |
| AUAGUGG | 2 |
| GUAAAA | 1 |
| GUGGCG | 1 |
| UUUAGA | 1 |
| GUGAGA | 1 |
| GUAAUGG | 1 |
| GUAACGG | 1 |
| UCGAACA | 1 |
| AAACGA | 1 |
| CUGCAA | 1 |
| UGACAC | 1 |
| UUAACU | 1 |
| UGAAAU | 1 |
| CGAAAG | 1 |
| AGAAAU | 1 |
| CGCAAG | 1 |
| ACCUUU | 1 |
| UGCAAA | 1 |
| CAGCCG | 1 |
Release history
| Release | 1.18 |
|---|---|
| Date | 2014-10-09 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in HL_18781.9 | Only in the parent motif |
|---|---|---|---|
| HL_18781.8 Compare | HL_4BPP_008, HL_1QA6_002, HL_4IOA_056, HL_1E8O_001, HL_4A1B_032, HL_4A1B_012, HL_1S72_031, HL_2QBG_031, HL_1NBS_002, HL_4QCN_021, HL_2AW7_006, HL_1U9S_003, HL_3J7A_006, HL_1VX6_004, HL_4UN3_001, HL_1VW3_048, HL_1VX6_048, HL_2IL9_006, HL_4CUX_008, HL_2QBG_023, HL_4CUV_039, HL_3U5F_008, HL_4CUV_052, HL_3U5H_028, HL_1FJG_006, HL_4KQY_003, HL_4QCN_055, HL_3Q1Q_005 | HL_4W21_028, HL_4W23_014 | HL_1VWW_028, HL_1VWW_059 |
Children motifs
This motif has no children motifs.- Annotations
-
- (24)
- GNRA wlth tandem sheared (2)
- GNRA related (H) (2)
- GNRA wlth tandem sheared (H) (1)
- GNRA with extra cWW (H) (1)
- Basepair signature
- cWW-tSH-R-R-R-R
- Heat map statistics
- Min 0.12 | Avg 0.53 | Max 0.88
Coloring options: