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› 5jcf

X-ray diffraction
2.6Å resolution

Crystal structure of chicken MDA5 with 5'p 10-mer dsRNA and ADP-Mg2+ at 2.6 A resolution (orthorhombic form).

Released:
DOI: 10.2210/pdb5jcf/pdb
Model geometry
Fit model/data
PDB entry 5jcf coloured by chain, front view.
PDB entry 5jcf coloured by chain, side view.
PDB entry 5jcf coloured by chain, top view.
Source organisms:
Primary publication:
Structural Analysis of dsRNA Binding to Anti-viral Pattern Recognition Receptors LGP2 and MDA5.
Uchikawa E, Lethier M, Malet H, Brunel J, Gerlier D, Cusack S
OpenAccess logo Mol Cell 62 586-602 (2016)
PMID: 27203181

Function and Biology Details

Reaction catalysed: 
ATP + H2O = ADP + phosphate + H(+).
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113005 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
RNA helicase Chains: A, B
Molecule details ›
Chains: A, B
Length: 701 amino acids
Theoretical weight: 81.67 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli
UniProt:
  • Canonical: D9N195 (Residues: 298-994; Coverage: 70%)
Gene name: MDA5
Sequence domains:
RNA (5'-R(P*GP*GP*UP*AP*CP*GP*UP*AP*CP*C)-3') Chains: C, D, X
Molecule details ›
Chains: C, D, X
Length: 10 nucleotides
Theoretical weight: 3.18 KDa
Source organism: synthetic construct
Expression system: Not provided
RNA (5'-R(P*AP*GP*GP*UP*AP*CP*GP*UP*AP*CP*C)-3') Chain: Y

Ligands and Environments

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

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P212121
Unit cell:
a: 101.92Å b: 132.47Å c: 139.04Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.278 0.277 0.312
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

40 review citations

RIG-I-like receptors: their regulation and roles in RNA sensing.
Rehwinkel et al. (2020)
39 more

1 mention without citation

Cryo-EM Structures of MDA5-dsRNA Filaments at Different Stages of ATP Hydrolysis.
Yu et al. (2018)