› 5k4d

X-ray diffraction
2Å resolution

Structure of eukaryotic translation initiation factor 3 subunit D (eIF3d) cap binding domain from Nasonia vitripennis, Crystal form 3

Released:
DOI: 10.2210/pdb5k4d/pdb
PDB entry 5k4d coloured by chain, front view.
PDB entry 5k4d coloured by chain, side view.
PDB entry 5k4d coloured by chain, top view.
Source organism: Nasonia vitripennis
Primary publication:
eIF3d is an mRNA cap-binding protein that is required for specialized translation initiation.
Lee AS, Kranzusch PJ, Doudna JA, Cate JH
OpenAccess logo Nature 536 96-9 (2016)
PMID: 27462815

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125581 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Eukaryotic translation initiation factor 3 subunit D Chains: A, B
Molecule details ›
Chains: A, B
Length: 368 amino acids
Theoretical weight: 42.2 KDa
Source organism: Nasonia vitripennis
Expression system: Escherichia coli
UniProt:
  • Canonical: K7IM66 (Residues: 172-537; Coverage: 66%)
Sequence domains: Eukaryotic translation initiation factor 3 subunit 7 (eIF-3)

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P21
Unit cell:
a: 49.975Å b: 144.325Å c: 55.302Å
α: 90° β: 109.12° γ: 90°
R-values:
R R work R free
0.178 0.177 0.208
Expression system: Escherichia coli

Quick links

Citations

67 review citations

Functions of N6-methyladenosine and its role in cancer.
He et al. (2019)
66 more

2 mentions without citation

Protein Synthesis Initiation in Eukaryotic Cells.
Merrick et al. (2018)
1 more