› 5xdo

X-ray diffraction
3.1Å resolution

Crystal structure of human voltage-dependent anion channel 1 (hVDAC1) in C222 space group

Released:
DOI: 10.2210/pdb5xdo/pdb
Model geometry
Fit model/data
PDB entry 5xdo coloured by chain, front view.
PDB entry 5xdo coloured by chain, side view.
PDB entry 5xdo coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structural characterization reveals novel oligomeric interactions of human voltage-dependent anion channel 1.
Hosaka T, Okazaki M, Kimura-Someya T, Ishizuka-Katsura Y, Ito K, Yokoyama S, Dodo K, Sodeoka M, Shirouzu M
Protein Sci 26 1749-1758 (2017)
PMID: 28608415

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149425 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Non-selective voltage-gated ion channel VDAC1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 295 amino acids
Theoretical weight: 32.21 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P21796 (Residues: 1-283; Coverage: 100%)
Gene names: VDAC, VDAC1
Sequence domains: Eukaryotic porin
Structure domains: Porin

Ligands and Environments

4 bound ligands:
Ligand SPD 2 x SPD
Ligand OCT 4 x OCT
Ligand LNK 2 x LNK
Ligand HEX 1 x HEX
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SPRING-8 BEAMLINE BL32XU
Spacegroup: C222
Unit cell:
a: 121.62Å b: 146.33Å c: 77.53Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.258 0.255 0.298
Expression system: Escherichia coli

Quick links

Citations

3 review citations

VDAC1 and the TSPO: Expression, Interactions, and Associated Functions in Health and Disease States.
Shoshan-Barmatz et al. (2019)
2 more

4 mentions without citation

Ten Years of High Resolution Structural Research on the Voltage Dependent Anion Channel (VDAC)-Recent Developments and Future Directions.
Zeth et al. (2018)
3 more