Research workbench
Structure of japanese encephalitis virus
Analyse Structure of japanese encephalitis virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5WSN
- Type
- protein
- Length
- 1,722 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E protein; M protein
- UniProt
- A1E4C6, Q82863
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 2 distinct chains · 26% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E | E protein | protein | 500 | 21% helix, 34% strand | A1E4C6 |
| B, D, F | M protein | protein | 74 | 59% helix, 0% strand | Q82863 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1097 | 0.86 | 0.87 | 127 | empty |
| 2 | 317 | 0.73 | 0.85 | 45 | empty |
| 3 | 1018 | 0.72 | 0.75 | 81 | empty |
| 4 | 488 | 0.71 | 0.80 | 54 | empty |
| 5 | 373 | 0.68 | 0.81 | 46 | empty |
Interfaces
9 interfaces between chains.
- E–F · 1431 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1423 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 1389 Ų buried · 11 hydrogen bonds · protein-protein
- C–E · 1196 Ų buried · 2 hydrogen bonds · protein-protein
- D–F · 802 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 15 disulfide (disulfide).
Compared structures
- 5WSN · Structure of Japanese encephalitis virus · 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 A1E4C6
- Every structure of UniProt Q82863
- Elsewhere: RCSB PDB 5WSN · PDBe 5WSN · UniProt A1E4C6 · UniProt Q82863
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