Motif HL_97270.7 Version HL_97270.7 of this group appears in releases 1.17 to 1.17
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 1-7 | 2-6 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_1VX6_005 | 1VX6 | 0.4684 | 1 | A | 28S ribosomal RNA | C | 202 | A | 203 | G | 204 | G | 205 | A | 206 | A | 207 | G | 209 | cWW | ntsS | |
| 2 | HL_4QCN_009 | 4QCN | 0.2443 | 1 | A | 23S Ribosomal RNA | U | 329 | U | 330 | G | 331 | G | 332 | G | 333 | A | 334 | G | 336 | cWW | tWH | |
| 3 | HL_4IOA_009 | 4IOA | 0.1869 | 1 | T-loop with 1 bulged base | X | LSU rRNA | C | 316 | U | 317 | G | 318 | G | 319 | A | 320 | A | 321 | G | 323 | cWW | tWH |
| 4 | HL_2QBG_011 | 2QBG | 0.1230 | 1 | B | 23S rRNA | C | 305 | U | 306 | G | 307 | G | 308 | A | 309 | A | 310 | G | 312 | cWW | tWH | |
| 5 | HL_4CUV_005 | 4CUV | 0.1202 | 1 | 1 | 25S RRNA | U | 194 | U | 195 | G | 196 | G | 197 | A | 198 | A | 199 | A | 201 | cWW | tWH | |
| 6 | HL_1S72_010 | 1S72 | 0.0000 | 1 | T-loop with 2 stacked bulged bases (H) | 0 | LSU rRNA | U | 312 | U | 313 | G | 314 | G | 315 | A | 316 | A | 317 | A | 319 | cWW | tWH |
| 7 | HL_3U5H_005 | 3U5H | 0.0700 | 1 | 5 | 25S rRNA | U | 194 | U | 195 | G | 196 | G | 197 | A | 198 | A | 199 | A | 201 | cWW | tWH | |
| 8 | HL_4A1B_005 | 4A1B | 0.1516 | 1 | 1 | 26S RRNA | U | 194 | U | 195 | G | 196 | G | 197 | A | 198 | A | 199 | A | 201 | cWW | tWH | |
| 9 | HL_3DHS_002 | 3DHS | 0.2163 | 1 | A | RNase P RNA | C | 69 | U | 70 | G | 71 | A | 72 | G | 73 | A | 74 | G | 76 | cWW | tWH | |
| 10 | HL_2A64_002 | 2A64 | 0.3202 | 1 | T-loop with 2 stacked bulged bases | A | ribonuclease P RNA | C | 69 | U | 70 | G | 71 | A | 72 | G | 73 | A | 74 | G | 76 | cWW | tWH |
| 11 | HL_2HOJ_002 | 2HOJ | 0.5252 | 1 | A | thi-box riboswitch | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW | ||
| 12 | HL_2GDI_002 | 2GDI | 0.5276 | 1 | Other HL | X | TPP riboswitch | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW | |
| 13 | HL_2GDI_004 | 2GDI | 0.4963 | 1 | Y | TPP riboswitch | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW | ||
| 14 | HL_4CUX_006 | 4CUX | 0.4073 | 1 | 2 | 18S RRNA | G | 243 | A | 244 | U | 245 | G | 246 | A | 247 | U | 248 | C | 250 | cWW | ||
| 15 | HL_3U5F_006 | 3U5F | 0.3608 | 1 | 6 | 18S rRNA | G | 243 | A | 244 | U | 245 | G | 246 | A | 247 | U | 248 | C | 250 | cWW | ||
| 16 | HL_3J7A_004 | 3J7A | 0.3206 | 1 | A | SSU rRNA | A | 245 | A | 246 | G | 247 | G | 248 | A | 249 | A | 250 | U | 252 | cWW | ||
| 17 | HL_4BPP_006 | 4BPP | 0.4858 | 1 | A | 18S RRNA | G | 240 | A | 241 | U | 242 | G | 243 | A | 244 | A | 245 | C | 247 | cWW | ||
| 18 | HL_1S72_039 | 1S72 | 0.5628 | 0 | Other HL (H) | 0 | LSU rRNA | C | 1594 | G | 1595 | U | 1596 | A | 1597 | A | 1598 | U | 1599 | G | 1600 | cWW | |
| 19 | HL_4A1B_037 | 4A1B | 0.5904 | 0 | 1 | 26S RRNA | G | 1743 | A | 1744 | U | 1745 | U | 1746 | A | 1747 | U | 1748 | C | 1749 | cWW | ||
| 20 | HL_1VX6_037 | 1VX6 | 0.5925 | 0 | A | 28S ribosomal RNA | A | 1876 | U | 1877 | U | 1878 | U | 1879 | A | 1880 | C | 1881 | U | 1882 | cWW | ntSHa | |
| 21 | HL_1VWW_039 | 1VWW | 0.7375 | -1 | 5 | 28S ribosomal RNA | G | 2664 | U | 2665 | U | 2666 | C | 2667 | G | 2668 | C | 2669 | C | 2670 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUGGAACA | 4 |
| GAUAAUGC | 3 |
| CUGGAAAG | 2 |
| CUGAGAUG | 2 |
| GAUGAUUC | 2 |
| CAGGAAUG | 1 |
| UUGGGAAG | 1 |
| AAGGAAUU | 1 |
| GAUGAAUC | 1 |
| CGUAAUG | 1 |
| GAUUAUC | 1 |
| AUUUACU | 1 |
| CUUCGG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UGGAAC | 4 |
| AUAAUG | 3 |
| AGGAAU | 2 |
| UGGAAA | 2 |
| UGAGAU | 2 |
| AUGAUU | 2 |
| UGGGAA | 1 |
| AUGAAU | 1 |
| GUAAU | 1 |
| AUUAU | 1 |
| UUUAC | 1 |
| UUCG | 1 |
Release history
| Release | 1.17 |
|---|---|
| Date | 2014-09-06 |
| Status | Updated, 1 parent |
Parent motifs
| Parent motif | Common motif instances | Only in HL_97270.7 | Only in the parent motif |
|---|---|---|---|
| HL_97270.6 Compare | HL_4A1B_037, HL_4A1B_005, HL_4BPP_006, HL_2HOJ_002, HL_3J7A_004, HL_1VX6_005, HL_2A64_002, HL_2QBG_011, HL_1S72_039, HL_4CUX_006, HL_1VX6_037, HL_2GDI_002, HL_4IOA_009, HL_4CUV_005, HL_3U5F_006, HL_1S72_010, HL_3U5H_005, HL_3DHS_002, HL_1VWW_039, HL_2GDI_004 | HL_4QCN_009 | HL_4NVV_009 |
Children motifs
| Child motif | Common motif instances | Only in HL_97270.7 | Only in the child motif |
|---|---|---|---|
| HL_97270.8 Compare | HL_3DHS_002, HL_4A1B_037, HL_4A1B_005, HL_2A64_002, HL_2HOJ_002, HL_4QCN_009, HL_1VX6_005, HL_2QBG_011, HL_1S72_039, HL_4CUX_006, HL_1VX6_037, HL_2GDI_004, HL_2GDI_002, HL_4IOA_009, HL_4CUV_005, HL_3U5F_006, HL_1S72_010, HL_3U5H_005, HL_3J7A_004, HL_4BPP_006 | HL_1VWW_039 | HL_4W21_039 |
- Annotations
-
- (16)
- T-loop with 2 stacked bulged bases (H) (1)
- Other HL (H) (1)
- T-loop with 2 stacked bulged bases (1)
- Other HL (1)
- T-loop with 1 bulged base (1)
- Basepair signature
- cWW-tWH-R-R-R
- Heat map statistics
- Min 0.07 | Avg 0.46 | Max 0.92
Coloring options: