› 5yua

X-ray diffraction
2.8Å resolution

Crystal structure of voltage-gated sodium channel NavAb in high-pH condition

Released:
DOI: 10.2210/pdb5yua/pdb
PDB entry 5yua coloured by chain, front view.
PDB entry 5yua coloured by chain, side view.
PDB entry 5yua coloured by chain, top view.
Source organism: Aliarcobacter butzleri
Primary publication:
Optimized expression and purification of NavAb provide the structural insight into the voltage dependence.
Irie K, Haga Y, Shimomura T, Fujiyoshi Y
FEBS Lett 592 274-283 (2018)
PMID: 29274127

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-108631 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ion transport domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 271 amino acids
Theoretical weight: 31.38 KDa
Source organism: Aliarcobacter butzleri
Expression system: Escherichia coli
UniProt:
  • Canonical: A8EVM5 (Residues: 1-267; Coverage: 100%)
Gene name: Abu_1752
Sequence domains: Ion transport protein

Ligands and Environments

4 bound ligands:
Ligand CA 1 x CA
Ligand LMT 2 x LMT
Ligand 1N7 1 x 1N7
Ligand PX4 6 x PX4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: I422
Unit cell:
a: 126.45Å b: 126.45Å c: 201.658Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.23 0.262
Expression system: Escherichia coli

Quick links

Citations

7 citation in other articles

A hypothetical molecular mechanism for TRPV1 activation that invokes rotation of an S6 asparagine.
Kasimova et al. (2018)
6 more

2 mentions without citation

A native prokaryotic voltage-dependent calcium channel with a novel selectivity filter sequence.
Shimomura et al. (2020)
1 more