7RLO

Structure of the human eukaryotic translation initiation factor 2B (eIF2B) in complex with a viral protein NSs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Viral evasion of the integrated stress response through antagonism of eIF2-P binding to eIF2B.

Schoof, M.Wang, L.Cogan, J.Z.Lawrence, R.E.Boone, M.Wuerth, J.D.Frost, A.Walter, P.

(2021) Nat Commun 12: 7103-7103

  • DOI: https://doi.org/10.1038/s41467-021-26164-4
  • Primary Citation of Related Structures:  
    7RLO

  • PubMed Abstract: 

    Viral infection triggers activation of the integrated stress response (ISR). In response to viral double-stranded RNA (dsRNA), RNA-activated protein kinase (PKR) phosphorylates the translation initiation factor eIF2, converting it from a translation initiator into a potent translation inhibitor and this restricts the synthesis of viral proteins. Phosphorylated eIF2 (eIF2-P) inhibits translation by binding to eIF2's dedicated, heterodecameric nucleotide exchange factor eIF2B and conformationally inactivating it. We show that the NSs protein of Sandfly Fever Sicilian virus (SFSV) allows the virus to evade the ISR. Mechanistically, NSs tightly binds to eIF2B (K D  = 30 nM), blocks eIF2-P binding, and rescues eIF2B GEF activity. Cryo-EM structures demonstrate that SFSV NSs and eIF2-P directly compete, with the primary NSs contacts to eIF2Bα mediated by five 'aromatic fingers'. NSs binding preserves eIF2B activity by maintaining eIF2B's conformation in its active A-State.


  • Organizational Affiliation

    Howard Hughes Medical Institute, University of California at San Francisco, 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
PHAROS:  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
351Homo sapiensMutation(s): 0 
Gene Names: EIF2B2EIF2BB
UniProt & NIH Common Fund Data Resources
Find proteins for P49770 (Homo sapiens)
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Go to UniProtKB:  P49770
PHAROS:  P49770
GTEx:  ENSG00000119718 
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UniProt GroupP49770
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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)
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PHAROS:  Q9UI10
GTEx:  ENSG00000115211 
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UniProt GroupQ9UI10
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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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PHAROS:  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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PHAROS:  Q9NR50
GTEx:  ENSG00000070785 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Non-structural protein NS-S
K, L
269sandfly fever Sicilian virusMutation(s): 0 
Gene Names: NSS
UniProt
Find proteins for P12792 (Sandfly fever sicilian virus)
Explore P12792 
Go to UniProtKB:  P12792
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UniProt GroupP12792
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 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 States--

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-22
    Type: Initial release
  • Version 1.1: 2024-06-05
    Changes: Data collection