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Crystal structure of P domain from GII.11 swine norovirus
Analyse Crystal structure of P domain from GII.11 swine norovirus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6J0Q
- Type
- protein
- Length
- 615 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1 capsid protein
- UniProt
- Q8QY02
- Pockets
- 6 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VP1 capsid protein | protein | 307 | 6% helix, 35% strand | Q8QY02 |
| B | VP1 capsid protein | protein | 308 | 6% helix, 35% strand | Q8QY02 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 380 | 0.71 | 0.83 | 63 | empty |
| 2 | 333 | 0.67 | 0.81 | 45 | empty |
| 3 | 96 | 0.53 | 0.84 | 20 | empty |
| 4 | 77 | 0.33 | 0.74 | 18 | empty |
| 5 | 61 | 0.31 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1813 Ų buried · 29 hydrogen bonds · protein-protein
Compared structures
- 6J0Q · Crystal structure of P domain from GII.11 swine norovirus · 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 Q8QY02
- Elsewhere: RCSB PDB 6J0Q · PDBe 6J0Q · UniProt Q8QY02
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