› 5h1y

X-ray diffraction
2.26Å resolution

Crystal structure of the DDX41 DEAD domain in complex with SO42- and Mg2+

Released:
DOI: 10.2210/pdb5h1y/pdb
PDB entry 5h1y coloured by chain, front view.
PDB entry 5h1y coloured by chain, side view.
PDB entry 5h1y coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural and functional analyses of human DDX41 DEAD domain.
Jiang Y, Zhu Y, Qiu W, Liu YJ, Cheng G, Liu ZJ, Ouyang S
Protein Cell 8 72-76 (2017)
PMID: 27928732

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193820 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable ATP-dependent RNA helicase DDX41 Chains: A, B
Molecule details ›
Chains: A, B
Length: 281 amino acids
Theoretical weight: 31.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: Q9UJV9 (Residues: 153-410; Coverage: 42%)
Gene names: ABS, DDX41
Sequence domains: DEAD/DEAH box helicase
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand SO4 2 x SO4
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P21
Unit cell:
a: 43.881Å b: 62.746Å c: 92.881Å
α: 90° β: 94.32° γ: 90°
R-values:
R R work R free
0.188 0.186 0.233
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4

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Citations

9 review citations

Innate Sensing of DNA Virus Genomes.
Ma et al. (2018)
8 more

3 mentions without citation

Molecular and Structural Basis of DNA Sensors in Antiviral Innate Immunity.
Zahid et al. (2020)
2 more