› 3dkp

X-ray diffraction
2.1Å resolution

Human DEAD-box RNA-helicase DDX52, conserved domain I in complex with ADP

Released:
DOI: 10.2210/pdb3dkp/pdb
PDB entry 3dkp coloured by chain, front view.
PDB entry 3dkp coloured by chain, side view.
PDB entry 3dkp coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Comparative structural analysis of human DEAD-box RNA helicases.
Schütz P, Karlberg T, van den Berg S, Collins R, Lehtiö L, Högbom M, Holmberg-Schiavone L, Tempel W, Park HW, Hammarström M, Moche M, Thorsell AG, Schüler H
PLoS One 5 (2010)
PMID: 20941364

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-195152 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable ATP-dependent RNA helicase DDX52 Chain: A
Molecule details ›
Chain: A
Length: 245 amino acids
Theoretical weight: 27.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y2R4 (Residues: 139-381; Coverage: 41%)
Gene names: DDX52, HUSSY-19, ROK1
Sequence domains: DEAD/DEAH box helicase
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

3 bound ligands:
Ligand MG 1 x MG
Ligand ADP 2 x ADP
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21
Unit cell:
a: 40.63Å b: 38.36Å c: 73.84Å
α: 90° β: 90.37° γ: 90°
R-values:
R R work R free
0.185 0.182 0.236
Expression system: Escherichia coli

Quick links

Citations

16 review citations

Dbp5, Gle1-IP6 and Nup159: a working model for mRNP export.
Folkmann et al. (2011)
15 more

6 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)
5 more