Motif HL_97270.3 Version HL_97270.3 of this group appears in releases 1.5 to 1.13
| #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_2A64_002 | 2A64 | 0.3202 | 1 | T-loop with 2 stacked bulged bases | A | RNase P class B | C | 69 | U | 70 | G | 71 | A | 72 | G | 73 | A | 74 | G | 76 | cWW | tWH |
| 2 | HL_3DHS_002 | 3DHS | 0.2163 | 1 | A | RNase P class B | C | 69 | U | 70 | G | 71 | A | 72 | G | 73 | A | 74 | G | 76 | cWW | tWH | |
| 3 | HL_3V2F_010 | 3V2F | 0.2384 | 1 | A | LSU rRNA | U | 305 | U | 306 | G | 307 | G | 308 | G | 309 | A | 310 | G | 312 | cWW | tWH | |
| 4 | 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 |
| 5 | HL_2QBG_011 | 2QBG | 0.1230 | 1 | B | LSU rRNA | C | 305 | U | 306 | G | 307 | G | 308 | A | 309 | A | 310 | G | 312 | 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 | LSU 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 | LSU rRNA | U | 194 | U | 195 | G | 196 | G | 197 | A | 198 | A | 199 | A | 201 | cWW | tWH | |
| 9 | HL_3U5F_006 | 3U5F | 0.3608 | 1 | 6 | SSU rRNA | G | 243 | A | 244 | U | 245 | G | 246 | A | 247 | U | 248 | C | 250 | cWW | ||
| 10 | HL_4BPP_006 | 4BPP | 0.4858 | 1 | A | SSU rRNA | G | 240 | A | 241 | U | 242 | G | 243 | A | 244 | A | 245 | C | 247 | cWW | ||
| 11 | 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 | |
| 12 | HL_4A1B_037 | 4A1B | 0.5904 | 0 | 1 | LSU rRNA | G | 1743 | A | 1744 | U | 1745 | U | 1746 | A | 1747 | U | 1748 | C | 1749 | cWW | ||
| 13 | HL_2HOJ_002 | 2HOJ | 0.5252 | 1 | A | TPP riboswitch (THI element) | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW | ||
| 14 | HL_2GDI_002 | 2GDI | 0.5276 | 1 | Other HL | X | TPP riboswitch (THI element) | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW | |
| 15 | HL_2GDI_004 | 2GDI | 0.4963 | 1 | Y | TPP riboswitch (THI element) | G | 66 | A | 67 | U | 68 | A | 69 | A | 70 | U | 71 | C | 73 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUGGAACA | 3 |
| GAUAAUGC | 3 |
| CUGAGAUG | 2 |
| CUGGAAAG | 2 |
| UUGGGAAG | 1 |
| GAUGAUUC | 1 |
| GAUGAAUC | 1 |
| CGUAAUG | 1 |
| GAUUAUC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UGGAAC | 3 |
| AUAAUG | 3 |
| UGAGAU | 2 |
| UGGAAA | 2 |
| UGGGAA | 1 |
| AUGAUU | 1 |
| AUGAAU | 1 |
| GUAAU | 1 |
| AUUAU | 1 |
Release history
| Release | 1.5 | 1.6 | 1.7 | 1.8 | 1.9 | 1.10 | 1.11 | 1.12 | 1.13 |
|---|---|---|---|---|---|---|---|---|---|
| Date | 2013-08-03 | 2013-08-31 | 2013-09-28 | 2013-11-04 | 2013-12-07 | 2014-01-04 | 2014-02-01 | 2014-03-01 | 2014-03-29 |
| Status | Updated, 1 parent | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in HL_97270.3 | Only in the parent motif |
|---|---|---|---|
| HL_97270.2 Compare | HL_3V2F_010, HL_2GDI_002, HL_4A1B_005, HL_3U5F_006, HL_2A64_002, HL_2HOJ_002, HL_4A1B_037, HL_2QBG_011, HL_1S72_039, HL_4IOA_009, HL_1S72_010, HL_3U5H_005, HL_3DHS_002, HL_2GDI_004 | HL_4BPP_006 | HL_2XZM_006 |
Children motifs
| Child motif | Common motif instances | Only in HL_97270.3 | Only in the child motif |
|---|---|---|---|
| HL_97270.4 Compare | HL_2GDI_002, HL_4A1B_005, HL_2A64_002, HL_2HOJ_002, HL_4A1B_037, HL_2QBG_011, HL_1S72_039, HL_2GDI_004, HL_4IOA_009, HL_3U5F_006, HL_1S72_010, HL_3U5H_005, HL_3DHS_002, HL_4BPP_006 | HL_3V2F_010 | HL_4NVV_009 |
- Annotations
-
- (10)
- 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 0.41 | Max 0.75
Coloring options: