› 2hyi

X-ray diffraction
2.3Å resolution

Structure of the human exon junction complex with a trapped DEAD-box helicase bound to RNA

Released:
DOI: 10.2210/pdb2hyi/pdb
PDB entry 2hyi coloured by chain, front view.
PDB entry 2hyi coloured by chain, side view.
PDB entry 2hyi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the exon junction core complex with a trapped DEAD-box ATPase bound to RNA.
Andersen CB, Ballut L, Johansen JS, Chamieh H, Nielsen KH, Oliveira CL, Pedersen JS, Séraphin B, Le Hir H, Andersen GR
Science 313 1968-72 (2006)
PMID: 16931718

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127366 (preferred)
Entry contents:
4 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (5 distinct):
Protein mago nashi homolog Chains: A, G
Molecule details ›
Chains: A, G
Length: 146 amino acids
Theoretical weight: 17.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61326 (Residues: 1-146; Coverage: 100%)
Gene names: MAGOH, MAGOHA
Sequence domains: Mago nashi protein
Structure domains: Mago nashi
RNA-binding protein 8A Chains: B, H
Molecule details ›
Chains: B, H
Length: 91 amino acids
Theoretical weight: 10.37 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y5S9 (Residues: 64-154; Coverage: 52%)
Gene names: HSPC114, MDS014, RBM8, RBM8A
Sequence domains: RNA recognition motif
Structure domains: Alpha-Beta Plaits
Eukaryotic initiation factor 4A-III Chains: C, I
Molecule details ›
Chains: C, I
Length: 413 amino acids
Theoretical weight: 47.17 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P38919 (Residues: 1-411; Coverage: 100%)
Gene names: DDX48, EIF4A3, KIAA0111
Sequence domains:
Structure domains: P-loop containing nucleotide triphosphate hydrolases
Protein CASC3 Chains: D, J
Molecule details ›
Chains: D, J
Length: 77 amino acids
Theoretical weight: 9.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O15234 (Residues: 170-246; Coverage: 11%)
Gene names: CASC3, MLN51
Sequence domains: CASC3/Barentsz eIF4AIII binding
5'-R(*UP*UP*UP*UP*UP*U)-3' Chains: F, L
Molecule details ›
Chains: F, L
Length: 6 nucleotides
Theoretical weight: 1.79 KDa

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: C2
Unit cell:
a: 185.83Å b: 88.26Å c: 145.77Å
α: 90° β: 110.77° γ: 90°
R-values:
R R work R free
0.213 0.212 0.231
Expression system: Escherichia coli

Quick links

Citations

78 review citations

The mechanism of eukaryotic translation initiation and principles of its regulation.
Jackson et al. (2010)
77 more

27 mentions without citation

Building RNA-protein granules: insight from the germline.
Arkov et al. (2010)
26 more