› 6s8s

X-ray diffraction
2.21Å resolution

Extended structure of the human DDX6 C-terminal domain in complex with an EDC3 FDF peptide

Released:
DOI: 10.2210/pdb6s8s/pdb
PDB entry 6s8s coloured by chain, front view.
PDB entry 6s8s coloured by chain, side view.
PDB entry 6s8s coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular basis for GIGYF-Me31B complex assembly in 4EHP-mediated translational repression.
Peter D, Ruscica V, Bawankar P, Weber R, Helms S, Valkov E, Igreja C, Izaurralde E
Genes Dev 33 1355-1360 (2019)
PMID: 31439631

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150665 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Probable ATP-dependent RNA helicase DDX6 Chains: A, C
Molecule details ›
Chains: A, C
Length: 193 amino acids
Theoretical weight: 22.48 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P26196 (Residues: 295-483; Coverage: 39%)
Gene names: DDX6, HLR2, RCK
Sequence domains: Helicase conserved C-terminal domain
Enhancer of mRNA-decapping protein 3 Chains: B, D
Molecule details ›
Chains: B, D
Length: 44 amino acids
Theoretical weight: 5.07 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q96F86 (Residues: 192-228; Coverage: 7%)
Gene names: EDC3, LSM16, PP844, YJDC, YJEFN2

Ligands and Environments

2 bound ligands:
Ligand PO4 9 x PO4
Ligand CXS 5 x CXS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: C2
Unit cell:
a: 172.425Å b: 47.878Å c: 65.757Å
α: 90° β: 96.34° γ: 90°
R-values:
R R work R free
0.181 0.179 0.226
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Cancer Plasticity: The Role of mRNA Translation.
Lee et al. (2021)
1 more

2 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)
1 more