PDBe 2hyi

X-ray diffraction
2.3Å resolution

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

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero pentamer (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. (a.k.a. RRM, RBD, or RNP domain)
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
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:

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