Motif HL_80459.2 Version HL_80459.2 of this group appears in releases 1.1 to 1.4
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 1-5 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3V2F_039 | 3V2F | 0.6724 | 1 | A | 23S Ribosomal RNA | C | 1631 | A | 1631|||A | A | 1632 | G | 1633 | G | 1635 | cWW | |
| 2 | HL_4IOA_040 | 4IOA | 0.6017 | 1 | X | LSU rRNA | U | 1647 | C | 1648 | A | 1649 | A | 1650 | G | 1652 | cWW | |
| 3 | HL_2QBG_035 | 2QBG | 0.2820 | 2 | B | 23S rRNA | G | 1324 | U | 1326 | A | 1327 | A | 1328 | C | 1330 | cWW | |
| 4 | HL_1S72_035 | 1S72 | 0.2464 | 2 | Pseudoknot geometry with 3' bulge (H) | 0 | LSU rRNA | G | 1430 | U | 1432 | G | 1433 | A | 1434 | C | 1436 | cWW |
| 5 | HL_3V2F_031 | 3V2F | 0.0766 | 2 | A | 23S Ribosomal RNA | G | 1324 | U | 1326 | C | 1327 | G | 1328 | C | 1330 | cWW | |
| 6 | HL_4IOA_032 | 4IOA | 0.0000 | 2 | X | LSU rRNA | G | 1337 | U | 1339 | C | 1340 | G | 1341 | C | 1343 | cWW | |
| 7 | HL_2QBG_039 | 2QBG | 0.1758 | 2 | B | 23S rRNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW | |
| 8 | HL_3V2F_035 | 3V2F | 0.2251 | 2 | A | 23S Ribosomal RNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW | |
| 9 | HL_3U5H_032 | 3U5H | 0.2344 | 2 | 5 | 25S rRNA | A | 1506 | C | 1508 | A | 1509 | G | 1510 | U | 1512 | cWW | |
| 10 | HL_4A1B_031 | 4A1B | 0.2758 | 2 | 1 | 26S RRNA | A | 1532 | C | 1534 | A | 1535 | A | 1536 | U | 1538 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GGUCGUC | 2 |
| GCAAAUC | 2 |
| CAAGAG | 1 |
| UCAAUG | 1 |
| GUUAAUC | 1 |
| GCUGAUC | 1 |
| AGCAGUU | 1 |
| AGCAAUU | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GUCGU | 2 |
| CAAAU | 2 |
| AAGA | 1 |
| CAAU | 1 |
| UUAAU | 1 |
| CUGAU | 1 |
| GCAGU | 1 |
| GCAAU | 1 |
Release history
| Release | 1.1 | 1.2 | 1.3 | 1.4 |
|---|---|---|---|---|
| Date | 2013-04-06 | 2013-05-04 | 2013-06-01 | 2013-07-03 |
| Status | Updated, 1 parent | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in HL_80459.2 | Only in the parent motif |
|---|---|---|---|
| HL_80459.1 Compare | HL_3U5H_032, HL_1S72_035, HL_2QBG_035, HL_3V2F_039, HL_3V2F_035, HL_4A1B_031, HL_3V2F_031, HL_2QBG_039 | HL_4IOA_040, HL_4IOA_032 | HL_2ZJR_041, HL_2ZJR_030, HL_2ZJR_033 |
Children motifs
| Child motif | Common motif instances | Only in HL_80459.2 | Only in the child motif |
|---|---|---|---|
| HL_80459.3 Compare | HL_4IOA_040, HL_3U5H_032, HL_1S72_035, HL_2QBG_035, HL_3V2F_039, HL_3V2F_035, HL_4A1B_031, HL_3V2F_031, HL_4IOA_032 | HL_2QBG_039 | |
| HL_27271.1 Compare | HL_2QBG_039 | HL_4IOA_040, HL_3U5H_032, HL_1S72_035, HL_2QBG_035, HL_3V2F_039, HL_3V2F_035, HL_4A1B_031, HL_3V2F_031, HL_4IOA_032 | HL_2NR0_003, HL_3OWZ_002, HL_1U6B_002, HL_1S72_067, HL_2QBG_067, HL_4A1B_066, HL_4IOA_036, HL_3U5H_067, HL_4IOA_064 |
- Annotations
-
- (9)
- Pseudoknot geometry with 3' bulge (H) (1)
- Basepair signature
- cWW-R-R
- Heat map statistics
- Min 0.08 | Avg 0.36 | Max 0.78
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