Motif HL_41833.5 Version HL_41833.5 of this group appears in releases 1.16 to 1.16
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 1-11 | 2-10 | 3-9 | 4-8 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_1VWW_056 | 1VWW | 0.2740 | 2 | 5 | 28S ribosomal RNA | U | 4210 | C | 4211 | A | 4212 | A | 4213 | C | 4215 | G | 4216 | G | 4217 | U | 4218 | A | 4219 | A | 4220 | G | 4222 | cWW | ntSH | tHH | ntWW | |
| 2 | HL_4A1B_055 | 4A1B | 0.1680 | 2 | 1 | 26S RRNA | U | 2622 | U | 2623 | A | 2624 | A | 2625 | C | 2627 | C | 2628 | A | 2629 | U | 2630 | A | 2631 | A | 2632 | G | 2634 | cWW | tSH | tHH | ntWW | |
| 3 | HL_4CUV_056 | 4CUV | 0.0930 | 2 | 1 | 25S RRNA | U | 2633 | U | 2634 | A | 2635 | A | 2636 | C | 2638 | G | 2639 | A | 2640 | U | 2641 | A | 2642 | A | 2643 | G | 2645 | cWW | ntSH | tHH | tWW | |
| 4 | HL_3U5H_056 | 3U5H | 0.0000 | 2 | 5 | 25S rRNA | U | 2633 | U | 2634 | A | 2635 | A | 2636 | C | 2638 | G | 2639 | A | 2640 | U | 2641 | A | 2642 | A | 2643 | G | 2645 | cWW | ntSH | tHH | tWW | |
| 5 | HL_1VX6_055 | 1VX6 | 0.1161 | 2 | A | 28S ribosomal RNA | U | 2972 | U | 2973 | A | 2974 | A | 2975 | U | 2977 | A | 2978 | U | 2979 | U | 2980 | A | 2981 | A | 2982 | G | 2984 | cWW | ntSH | tHH | tWW | |
| 6 | HL_1S72_056 | 1S72 | 0.1258 | 2 | 0 | LSU rRNA | C | 2298 | G | 2299 | A | 2300 | A | 2301 | A | 2303 | G | 2304 | A | 2305 | U | 2306 | A | 2307 | U | 2308 | G | 2310 | cWW | tSH | tHH | tWW | |
| 7 | HL_4IOA_053 | 4IOA | 0.1841 | 2 | X | LSU rRNA | C | 2243 | C | 2244 | A | 2245 | A | 2246 | A | 2248 | U | 2249 | G | 2250 | U | 2251 | A | 2252 | A | 2253 | G | 2255 | cWW | ntSH | tHH | tWW | |
| 8 | HL_4NVV_052 | 4NVV | 0.1737 | 2 | A | 23S Ribosomal RNA | C | 2276 | U | 2277 | A | 2278 | A | 2279 | A | 2281 | G | 2282 | G | 2283 | U | 2284 | A | 2285 | A | 2286 | G | 2288 | cWW | tSH | tHH | tWW | |
| 9 | HL_1VW3_041 | 1VW3 | 0.2761 | 2 | A | 21S ribosomal RNA | A | 2290 | G | 2291 | C | 2292 | A | 2293 | A | 2295 | A | 2296 | G | 2297 | U | 2298 | A | 2299 | U | 2300 | U | 2302 | cWW | tSH | ntHH | tWW | |
| 10 | HL_2QBG_056 | 2QBG | 0.3645 | 2 | B | 23S rRNA | C | 2264 | U | 2265 | A | 2266 | A | 2267 | G | 2269 | A | 2270 | G | 2271 | U | 2272 | A | 2273 | A | 2274 | G | 2276 | cWW | ntSH | tHH |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUAAACGAUAACG | 2 |
| UCAAACGGUAACG | 1 |
| UUAAACCAUAACG | 1 |
| UUAAAUAUUAACG | 1 |
| CGAAAAGAUAUCG | 1 |
| CCAAAAUGUAACG | 1 |
| CUAAAAGGUAACG | 1 |
| AGCAAAAGUAUCU | 1 |
| CUAAAGAGUAACG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UAAACGAUAAC | 2 |
| CAAACGGUAAC | 1 |
| UAAACCAUAAC | 1 |
| UAAAUAUUAAC | 1 |
| GAAAAGAUAUC | 1 |
| CAAAAUGUAAC | 1 |
| UAAAAGGUAAC | 1 |
| GCAAAAGUAUC | 1 |
| UAAAGAGUAAC | 1 |
Release history
| Release | 1.16 |
|---|---|
| Date | 2014-07-26 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in HL_41833.5 | Only in the parent motif |
|---|---|---|---|
| HL_41833.4 Compare | HL_4IOA_053, HL_1VW3_041, HL_4CUV_056, HL_1S72_056, HL_4A1B_055, HL_4NVV_052, HL_2QBG_056, HL_3U5H_056 | HL_1VX6_055, HL_1VWW_056 |
Children motifs
| Child motif | Common motif instances | Only in HL_41833.5 | Only in the child motif |
|---|---|---|---|
| HL_41833.6 Compare | HL_4IOA_053, HL_1VW3_041, HL_4CUV_056, HL_1S72_056, HL_4A1B_055, HL_2QBG_056, HL_3U5H_056, HL_1VX6_055, HL_1VWW_056 | HL_4NVV_052 | HL_4QCN_052 |
- Annotations
- Basepair signature
- cWW-tSH-tHH-tWW-R-R-R
- Heat map statistics
- Min 0.09 | Avg 0.21 | Max 0.38
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