› 5b04

X-ray diffraction
2.99Å resolution

Crystal structure of the eukaryotic translation initiation factor 2B from Schizosaccharomyces pombe

Released:
DOI: 10.2210/pdb5b04/pdb
PDB entry 5b04 coloured by chain, front view.
PDB entry 5b04 coloured by chain, side view.
PDB entry 5b04 coloured by chain, top view.
Source organism: Schizosaccharomyces pombe 972h-
Primary publication:
Crystal structure of eukaryotic translation initiation factor 2B.
Kashiwagi K, Takahashi M, Nishimoto M, Hiyama TB, Higo T, Umehara T, Sakamoto K, Ito T, Yokoyama S
Nature 531 122-5 (2016)
PMID: 26901872

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-157461 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Translation initiation factor eIF2B subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 341 amino acids
Theoretical weight: 37.82 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9USP0 (Residues: 1-341; Coverage: 100%)
Gene names: SPCC11E10.07c, gcn3, tif221
Sequence domains: Initiation factor 2 subunit family
Translation initiation factor eIF2B subunit beta Chains: C, D
Molecule details ›
Chains: C, D
Length: 399 amino acids
Theoretical weight: 43.9 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UT76 (Residues: 1-393; Coverage: 100%)
Gene names: SPAC343.14c, tif222
Sequence domains: Initiation factor 2 subunit family
Translation initiation factor eIF2B subunit gamma Chains: E, F
Molecule details ›
Chains: E, F
Length: 458 amino acids
Theoretical weight: 50.55 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: P56288 (Residues: 1-458; Coverage: 100%)
Gene names: SPAC4D7.09, tif223
Sequence domains: Nucleotidyl transferase
Translation initiation factor eIF2B subunit delta Chains: G, H
Molecule details ›
Chains: G, H
Length: 467 amino acids
Theoretical weight: 51.65 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: Q09924 (Residues: 1-467; Coverage: 100%)
Gene names: SPAC21E11.06, tif224
Sequence domains: Initiation factor 2 subunit family
Translation initiation factor eIF2B subunit epsilon Chains: I, J
Molecule details ›
Chains: I, J
Length: 678 amino acids
Theoretical weight: 76.41 KDa
Source organism: Schizosaccharomyces pombe 972h-
Expression system: Escherichia coli
UniProt:
  • Canonical: P56287 (Residues: 1-678; Coverage: 100%)
Gene names: SPAC8C9.15c, tif225
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand PO4 9 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 144.495Å b: 209.234Å c: 223.534Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.222 0.271
Expression system: Escherichia coli

Quick links

Citations

16 review citations

The integrated stress response: From mechanism to disease.
Costa-Mattioli et al. (2020)
15 more

9 mentions without citation

The structural basis of translational control by eIF2 phosphorylation.
Adomavicius et al. (2019)
8 more