6O9Z

Electron cryo-microscopy of the eukaryotic translation initiation factor 2B bound to eukaryotic translation initiation factor 2 from Homo sapiens


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.03 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

eIF2B-catalyzed nucleotide exchange and phosphoregulation by the integrated stress response.

Kenner, L.R.Anand, A.A.Nguyen, H.C.Myasnikov, A.G.Klose, C.J.McGeever, L.A.Tsai, J.C.Miller-Vedam, L.E.Walter, P.Frost, A.

(2019) Science 364: 491-495

  • DOI: https://doi.org/10.1126/science.aaw2922
  • Primary Citation of Related Structures:  
    6O81, 6O85, 6O9Z

  • PubMed Abstract: 

    The integrated stress response (ISR) tunes the rate of protein synthesis. Control is exerted by phosphorylation of the general translation initiation factor eIF2. eIF2 is a guanosine triphosphatase that becomes activated by eIF2B, a two-fold symmetric and heterodecameric complex that functions as eIF2's dedicated nucleotide exchange factor. Phosphorylation converts eIF2 from a substrate into an inhibitor of eIF2B. We report cryo-electron microscopy structures of eIF2 bound to eIF2B in the dephosphorylated state. The structures reveal that the eIF2B decamer is a static platform upon which one or two flexible eIF2 trimers bind and align with eIF2B's bipartite catalytic centers to catalyze nucleotide exchange. Phosphorylation refolds eIF2α, allowing it to contact eIF2B at a different interface and, we surmise, thereby sequestering it into a nonproductive complex.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, University of California, San Francisco, CA, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit epsilon
A, B
721Homo sapiensMutation(s): 0 
Gene Names: EIF2B5EIF2BE
UniProt & NIH Common Fund Data Resources
Find proteins for Q13144 (Homo sapiens)
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Go to UniProtKB:  Q13144
GTEx:  ENSG00000145191 
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UniProt GroupQ13144
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit beta
C, D
368Homo sapiensMutation(s): 0 
Gene Names: EIF2B2EIF2BB
UniProt & NIH Common Fund Data Resources
Find proteins for P49770 (Homo sapiens)
Explore P49770 
Go to UniProtKB:  P49770
GTEx:  ENSG00000119718 
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UniProt GroupP49770
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit delta
E, F
523Homo sapiensMutation(s): 0 
Gene Names: EIF2B4EIF2BD
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UI10 (Homo sapiens)
Explore Q9UI10 
Go to UniProtKB:  Q9UI10
GTEx:  ENSG00000115211 
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UniProt GroupQ9UI10
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit alpha
G, H
305Homo sapiensMutation(s): 0 
Gene Names: EIF2B1EIF2BA
UniProt & NIH Common Fund Data Resources
Find proteins for Q14232 (Homo sapiens)
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Go to UniProtKB:  Q14232
GTEx:  ENSG00000111361 
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UniProt GroupQ14232
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit gamma
I, J
452Homo sapiensMutation(s): 0 
Gene Names: EIF2B3
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Find proteins for Q9NR50 (Homo sapiens)
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GTEx:  ENSG00000070785 
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UniProt GroupQ9NR50
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  • Reference Sequence
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 1K [auth L],
L [auth M]
323Homo sapiensMutation(s): 0 
Gene Names: EIF2S1EIF2A
UniProt & NIH Common Fund Data Resources
Find proteins for P05198 (Homo sapiens)
Explore P05198 
Go to UniProtKB:  P05198
GTEx:  ENSG00000134001 
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UniProt GroupP05198
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
SEP
Query on SEP
K [auth L],
L [auth M]
L-PEPTIDE LINKINGC3 H8 N O6 PSER
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.03 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States55108523

Revision History  (Full details and data files)

  • Version 1.0: 2019-05-15
    Type: Initial release
  • Version 1.1: 2019-11-20
    Changes: Author supporting evidence
  • Version 1.2: 2019-12-18
    Changes: Other