1EJ4 | pdb_00001ej4

COCRYSTAL STRUCTURE OF EIF4E/4E-BP1 PEPTIDE

• PDB DOI: https://doi.org/10.2210/pdb1EJ4/pdb

• Classification: TRANSLATION
• Organism(s): Mus musculus, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-02-28 Released: 2000-03-15 
• Deposition Author(s): Marcotrigiano, J., Gingras, A.-C., Sonenberg, N., Burley, S.K.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 
  0.267 (Depositor), 0.274 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.229 (DCC) 

Literature

Cap-dependent translation initiation in eukaryotes is regulated by a molecular mimic of eIF4G.

Marcotrigiano, J., Gingras, A.C., Sonenberg, N., Burley, S.K.

(1999) Mol Cell 3: 707-716

• PubMed: 10394359 
• DOI: https://doi.org/10.1016/s1097-2765(01)80003-4
• Primary Citation Related Structures: 
  1EJ4, 1EJH


• PubMed Abstract: 
  

  eIF4G uses a conserved Tyr-X-X-X-X-Leu-phi segment (where X is variable and phi is hydrophobic) to recognize eIF4E during cap-dependent translation initiation in eukaryotes. High-resolution X-ray crystallography and complementary biophysical methods have revealed that this eIF4E recognition motif undergoes a disorder-to-order transition, adopting an L-shaped, extended chain/alpha-helical conformation when it interacts with a phylogenetically invariant portion of the convex surface of eIF4E. Inhibitors of translation initiation known as eIF4E-binding proteins (4E-BPs) contain similar eIF4E recognition motifs. These molecules are molecular mimics of eIF4G, which act by occupying the same binding site on the convex dorsum of eIF4E and blocking assembly of the translation machinery. The implications of our results for translation initiation are discussed in detail, and a molecular mechanism for relief of translation inhibition following phosphorylation of the 4E-BPs is proposed.

---

Organizational Affiliation: 
• Laboratories of Molecular Biophysics, Rockefeller University, New York, New York 10021, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.46 kDa 
• Atom Count: 1,713 
• Modeled Residue Count: 193 
• Deposited Residue Count: 204 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EUKARYOTIC INITIATION FACTOR 4E	A	190	Mus musculus	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P63073 (Mus musculus) Explore P63073  Go to UniProtKB:  P63073
IMPC:  MGI:95305

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
EUKARYOTIC TRANSLATION INITIATION FACTOR 4E BINDING PROTEIN 1	B	14	N/A	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q13541 (Homo sapiens) Explore Q13541  Go to UniProtKB:  Q13541
PHAROS:  Q13541 GTEx:  ENSG00000187840

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
M7G	C [auth A]	7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE C11 H18 N5 O11 P2 SBASPRRECYVBRF-KQYNXXCUSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free:  0.267 (Depositor), 0.274 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.229 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.9	α = 90
b = 45.2	β = 101.8
c = 62.1	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-03-15 
Deposition Author(s): Marcotrigiano, J., Gingras, A.-C., Sonenberg, N., Burley, S.K.

Revision History  

• Version 1.0: 2000-03-15
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-01-31
  Changes: Experimental preparation
• Version 1.4: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.5: 2024-02-07
  Changes: Data collection, Database references
• Version 2.0: 2024-03-06
  Changes: Data collection, Non-polymer description, Structure summary