2IU1

Crystal structure of eIF5 C-terminal domain

• PDB DOI: https://doi.org/10.2210/pdb2IU1/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-05-26 Released: 2006-06-01 
• Deposition Author(s): Bieniossek, C., Schuetz, P., Baumann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.221 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 

Literature

The Crystal Structure of the Carboxy-Terminal Domain of Human Translation Initiation Factor Eif5.

Bieniossek, C., Schutz, P., Bumann, M., Limacher, A., Uson, I., Baumann, U.

(2006) J Mol Biol 360: 457

• PubMed: 16781736 
• DOI: https://doi.org/10.1016/j.jmb.2006.05.021
• Primary Citation of Related Structures:  
  2IU1


• PubMed Abstract: 
  

  The carboxy-terminal domain (CTD) of eukaryotic initiation factor 5 (eIF5) plays a central role in the formation of the multifactor complex (MFC), an important intermediate for the 43 S pre-initiation complex assembly. The IF5-CTD interacts directly with the translation initiation factors eIF1, eIF2-beta, and eIF3c, thus forming together with eIF2 bound Met-tRNA(i)(Met) the MFC. In this work we present the high resolution crystal structure of eIF5-CTD. This domain of the protein is exclusively composed out of alpha-helices and is homologous to the carboxy-terminal domain of eIF2B-epsilon (eIF2Bepsilon-CTD). The most striking difference in the two structures is an additional carboxy-terminal helix in eIF5. The binding sites of eIF2-beta, eIF3 and eIF1 were mapped onto the structure. eIF2-beta and eIF3 bind to non-overlapping patches of negative and positive electrostatic potential, respectively.

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Organizational Affiliation: 

Departement für Chemie und Biochemie, Universität Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 24.44 kDa 
• Atom Count: 1,612 
• Modelled Residue Count: 179 
• Deposited Residue Count: 208 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EUKARYOTIC TRANSLATION INITIATION FACTOR 5	A	208	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P55010 (Homo sapiens) Explore P55010  Go to UniProtKB:  P55010
PHAROS:  P55010 GTEx:  ENSG00000100664

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.221 
• R-Value Work: 0.185 
• R-Value Observed: 0.188 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.137	α = 90
b = 70.254	β = 90
c = 81.705	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-06-01 
Deposition Author(s): Bieniossek, C., Schuetz, P., Baumann, U.

Revision History  

• Version 1.0: 2006-06-01
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-05-08
  Changes: Advisory, Data collection, Experimental preparation, Other
• Version 1.4: 2024-05-08
  Changes: Advisory, Data collection, Database references