Research workbench
Crystal structure of hepatitis a virus
Analyse Crystal structure of hepatitis a virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4QPI
- Type
- protein
- Length
- 726 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1; Capsid protein VP2; Capsid protein VP3
- Ligands
- SO4, CL
- Pockets
- 8 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 10% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 263 | 12% helix, 32% strand | — |
| B | Capsid protein VP2 | protein | 217 | 9% helix, 44% strand | — |
| C | Capsid protein VP3 | protein | 246 | 10% helix, 37% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 662 | 0.72 | 0.79 | 83 | empty |
| 2 | 78 | 0.46 | 0.82 | 16 | empty |
| 3 | 83 | 0.40 | 0.78 | 27 | empty |
| 4 | 104 | 0.36 | 0.74 | 24 | empty |
| 5 | 62 | 0.32 | 0.76 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–C · 3937 Ų buried · 89 hydrogen bonds · protein-protein
- B–C · 1510 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1510 Ų buried · 34 hydrogen bonds · protein-protein
Compared structures
- 4QPI · Crystal structure of hepatitis A 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
- Elsewhere: RCSB PDB 4QPI · PDBe 4QPI
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.