1G61

CRYSTAL STRUCTURE OF M.JANNASCHII EIF6

• PDB DOI: https://doi.org/10.2210/pdb1G61/pdb

• Classification: TRANSLATION
• Organism(s): Methanocaldococcus jannaschii
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2000-11-02 Released: 2000-11-22 
• Deposition Author(s): Groft, C.M., Beckmann, R., Sali, A., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.179 
• R-Value Work: 0.132 
• R-Value Observed: 0.132 

Literature

Crystal structures of ribosome anti-association factor IF6.

Groft, C.M., Beckmann, R., Sali, A., Burley, S.K.

(2000) Nat Struct Biol 7: 1156-1164

• PubMed: 11101899 
• DOI: https://doi.org/10.1038/82017
• Primary Citation of Related Structures:  
  1G61, 1G62


• PubMed Abstract: 
  

  Ribosome anti-association factor eIF6 (originally named according to translation initiation terminology as eukaryotic initiation factor 6) binds to the large ribosomal subunit, thereby preventing inappropriate interactions with the small subunit during initiation of protein synthesis. We have determined the X-ray structures of two IF6 homologs, Methanococcus jannaschii archaeal aIF6 and Sacchromyces cerevisiae eIF6, revealing a phylogenetically conserved 25 kDa protein consisting of five quasi identical alpha/beta subdomains arrayed about a five-fold axis of pseudosymmetry. Yeast eIF6 prevents ribosomal subunit association. Comparative protein structure modeling with other known archaeal and eukaryotic homologs demonstrated the presence of two conserved surface regions, one or both of which may bind the large ribosomal subunit.

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Organizational Affiliation: 

Laboratories of Molecular Biophysics, The Rockefeller University, 1230 York Avenue, New York, New York 10021, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 48.96 kDa 
• Atom Count: 4,088 
• Modelled Residue Count: 450 
• Deposited Residue Count: 456 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSLATION INITIATION FACTOR 6	A, B	228	Methanocaldococcus jannaschii	Mutation(s): 0  Gene Names: MJ0048
UniProt
Find proteins for Q60357 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore Q60357  Go to UniProtKB:  Q60357

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.179 
• R-Value Work: 0.132 
• R-Value Observed: 0.132 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.067	α = 90
b = 46.964	β = 98.53
c = 84.607	γ = 90

Software Package:

Software Name	Purpose
MLPHARE	phasing
SHELXL-97	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-11-22 
Deposition Author(s): Groft, C.M., Beckmann, R., Sali, A., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2000-11-22
  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: 2021-02-03
  Changes: Database references, Structure summary
• Version 1.4: 2024-02-07
  Changes: Data collection, Database references