Research workbench
Hepatitis E virus E2S domain (genotype I) in complex with a neutralizing antibody 8G12
Analyse Hepatitis E virus E2S domain (genotype I) in complex with a neutralizing… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4PLK
- Type
- protein
- Length
- 2,268 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein; 8G12 light chain; 8G12 heavy chain
- UniProt
- L0L7P5
- Pockets
- 20 · best druggability 0.67
Structure
x-ray diffraction · 5 distinct chains · 6% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F | Capsid protein | protein | 147 | 2% helix, 49% strand | L0L7P5 |
| L, K | 8G12 light chain | protein | 208 | 6% helix, 52% strand | — |
| H, J | 8G12 heavy chain | protein | 216 | 7% helix, 51% strand | — |
| C, G | 8G12 light chain | protein | 198 | 6% helix, 40% strand | — |
| D, I | 8G12 heavy chain | protein | 218 | 6% helix, 51% strand | — |
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 | 772 | 0.67 | 0.75 | 66 | empty |
| 2 | 741 | 0.66 | 0.75 | 84 | empty |
| 3 | 641 | 0.64 | 0.74 | 61 | empty |
| 4 | 636 | 0.63 | 0.74 | 64 | empty |
| 5 | 271 | 0.63 | 0.81 | 42 | empty |
Interfaces
22 interfaces between chains.
- L–H · 1920 Ų buried · 12 hydrogen bonds · protein-protein
- K–J · 1895 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1808 Ų buried · 13 hydrogen bonds · protein-protein
- G–I · 1803 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 1263 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 13 disulfide (disulfide).
Compared structures
- 4PLK · Hepatitis E Virus E2s domain (Genotype I) in complex with a neutralizing antibody 8G12 · 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 L0L7P5
- Elsewhere: RCSB PDB 4PLK · PDBe 4PLK · UniProt L0L7P5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.