Motif HL_42228.1 Version HL_42228.1 of this group appears in releases 3.88 to 3.88
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 1-3 | |||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_4OQU_002 | 4OQU | 0.4784 | 6 | Pseudoknot geometry | A | SAM-I/IV riboswitch | G | 32 | C | 38 | C | 40 | cWW |
| 2 | HL_8VTW_037 | 8VTW | 0.3676 | 4 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1492 | A | 1496 | C | 1498 | cWW |
| 3 | HL_5J7L_170 | 5J7L | 0.2876 | 4 | Pseudoknot geometry with 3' bulge | DA | LSU rRNA | G | 1492 | A | 1496 | C | 1498 | cWW |
| 4 | HL_5TBW_032 | 5TBW | 0.2186 | 4 | Pseudoknot geometry with 3' bulge | 1 | LSU rRNA | A | 1506 | G | 1510 | U | 1512 | cWW |
| 5 | HL_8C3A_032 | 8C3A | 0.2156 | 4 | Pseudoknot geometry with 3' bulge | 1 | LSU rRNA | A | 1502 | G | 1506 | U | 1508 | cWW |
| 6 | HL_7A0S_033 | 7A0S | 0.0000 | 4 | Pseudoknot geometry with 3' bulge | X | LSU rRNA | G | 1337 | G | 1341 | C | 1343 | cWW |
| 7 | HL_8VTW_033 | 8VTW | 0.0590 | 4 | Pseudoknot geometry with 3' bulge | 1A | LSU rRNA | G | 1324 | G | 1328 | C | 1330 | cWW |
| 8 | HL_4WF9_033 | 4WF9 | 0.1092 | 4 | Pseudoknot geometry with 3' bulge | X | LSU rRNA | G | 1361 | G | 1365 | C | 1367 | cWW |
| 9 | HL_4V9F_035 | 4V9F | 0.1664 | 4 | Pseudoknot geometry with 3' bulge | 0 | LSU rRNA | G | 1430 | A | 1434 | C | 1436 | cWW |
| 10 | HL_5J7L_166 | 5J7L | 0.2544 | 4 | Pseudoknot geometry with 3' bulge | DA | LSU rRNA | G | 1324 | A | 1328 | C | 1330 | cWW |
| 11 | HL_8VTW_051 | 8VTW | 0.1920 | 3 | 1A | LSU rRNA | C | 2205 | A | 2208 | G | 2219 | cWW | |
| 12 | HL_3BT7_002 | 3BT7 | 0.5424 | 6 | D | RNA (19-mer) | G | 53 | A | 58 | C | 61 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GCAAAUC | 2 |
| AGCAGUU | 2 |
| GGUCGUC | 2 |
| GACGGACAC | 1 |
| GCUCGUC | 1 |
| GCUGAUC | 1 |
| GUUAAUC | 1 |
| CGGAUG | 1 |
| G(5MU)UCGAUCC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CAAAU | 2 |
| GCAGU | 2 |
| GUCGU | 2 |
| ACGGACA | 1 |
| CUCGU | 1 |
| CUGAU | 1 |
| UUAAU | 1 |
| GGAU | 1 |
| (5MU)UCGAUC | 1 |
Release history
| Release | 3.88 |
|---|---|
| Date | 2024-09-11 |
| Status | New id, 2 parents |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- Pseudoknot geometry with 3' bulge (9)
- (2)
- Pseudoknot geometry (1)
- Basepair signature
- cWW-F
- Heat map statistics
- Min 0.06 | Avg 0.30 | Max 0.67
Coloring options: