MolNFT v1 · #150518 · protein
GII.1 human norovirus protruding domain in complex with glycochenodeoxycholate (gcdca)
6GVZ · Capsid protein VP1: “GII.1 human norovirus protruding domain in complex with glycochenodeoxycholate (gcdca)”. X-ray diffraction, 1 ligand (CHO), 1 pocket (best druggability 0.35). MolNFT v1 #150518 on GenesisL1: 3D structure…
- PDB
- 6GVZ
- Type
- protein
- Length
- 305 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1
- UniProt
- J9XXB7
- Ligands
- CHO
- Pockets
- 1 · best druggability 0.35
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 305 | 6% helix, 35% strand | J9XXB7 |
Ligands and binding sites
- CHO · Glycochenodeoxycholic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 95 | 0.35 | 0.74 | 17 | CHO |
Compared structures
- 6GVZ · GII.1 human norovirus protruding domain in complex with glycochenodeoxycholate (GCDCA) · 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 J9XXB7
- Elsewhere: RCSB PDB 6GVZ · PDBe 6GVZ · UniProt J9XXB7
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