› 5e7j

X-ray diffraction
2.23Å resolution

Crystal structure of the active catalytic core of the human DEAD-box protein DDX3 bound to AMP

Released:
DOI: 10.2210/pdb5e7j/pdb
PDB entry 5e7j coloured by chain, front view.
PDB entry 5e7j coloured by chain, side view.
PDB entry 5e7j coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Autoinhibitory Interdomain Interactions and Subfamily-specific Extensions Redefine the Catalytic Core of the Human DEAD-box Protein DDX3.
Floor SN, Condon KJ, Sharma D, Jankowsky E, Doudna JA
J Biol Chem 291 2412-21 (2016)
PMID: 26598523

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126356 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
ATP-dependent RNA helicase DDX3X Chain: A
Molecule details ›
Chain: A
Length: 452 amino acids
Theoretical weight: 51.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O00571 (Residues: 133-584; Coverage: 68%)
Gene names: DBX, DDX3, DDX3X
Sequence domains:
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

1 bound ligand:
Ligand AMP 1 x AMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P212121
Unit cell:
a: 51.35Å b: 89.91Å c: 107.65Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.23 0.264
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

10 review citations

DDX3X: structure, physiologic functions and cancer.
Mo et al. (2021)
9 more

7 mentions without citation

Host DDX Helicases as Possible SARS-CoV-2 Proviral Factors: A Structural Overview of Their Hijacking Through Multiple Viral Proteins.
Squeglia et al. (2020)
6 more