Research workbench
DSRBD3 of loquacious
Analyse DSRBD3 of loquacious in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4X8W
- Type
- protein
- Length
- 491 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Loquacious, isoform B; Loquacious
- UniProt
- Q9VJY9
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 7 distinct chains · 35% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Loquacious, isoform B | protein | 72 | 38% helix, 29% strand | Q9VJY9 |
| B | Loquacious, isoform B | protein | 72 | 40% helix, 28% strand | Q9VJY9 |
| D | Loquacious, isoform B | protein | 73 | 41% helix, 33% strand | Q9VJY9 |
| E | Loquacious, isoform B | protein | 75 | 40% helix, 32% strand | Q9VJY9 |
| F | Loquacious, isoform B | protein | 35 | 54% helix, 23% strand | Q9VJY9 |
| G | Loquacious, isoform B | protein | 44 | 25% helix, 39% strand | Q9VJY9 |
| H | Loquacious | protein | 48 | 0% helix, 17% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 902 | 0.73 | 0.77 | 62 | empty |
| 2 | 175 | 0.48 | 0.77 | 25 | empty |
| 3 | 125 | 0.41 | 0.75 | 22 | empty |
| 4 | 90 | 0.40 | 0.77 | 17 | empty |
Interfaces
16 interfaces between chains.
- D–E · 2174 Ų buried · 29 hydrogen bonds · protein-protein
- F–G · 1085 Ų buried · 16 hydrogen bonds · protein-protein
- C–F · 683 Ų buried · 6 hydrogen bonds · protein-protein
- B–E · 660 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 633 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (methylation).
Compared structures
- 4X8W · dsRBD3 of Loquacious · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9VJY9
- Elsewhere: RCSB PDB 4X8W · PDBe 4X8W · UniProt Q9VJY9
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