MolNFT v1 · #117393 · protein
Crystal structure of bovine norovirus P domain
5E6T · Capsid: “Crystal structure of bovine norovirus P domain”. X-ray diffraction, 1 ligand (ZN), 2 pockets (best druggability 0.79). MolNFT v1 #117393 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5E6T
- Type
- protein
- Length
- 572 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid
- UniProt
- E6Y5B1
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid | protein | 288 | 7% helix, 33% strand | E6Y5B1 |
| B | Capsid | protein | 284 | 7% helix, 36% strand | E6Y5B1 |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 155 | 0.79 | 0.95 | 30 | ZN |
| 2 | 690 | 0.76 | 0.81 | 82 | ZN |
Interfaces
1 interface between chains.
- A–B · 1287 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 5E6T · Crystal structure of bovine norovirus P domain · 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 E6Y5B1
- Elsewhere: RCSB PDB 5E6T · PDBe 5E6T · UniProt E6Y5B1
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