7F67

eIF2B-SFSV NSs-2-eIF2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 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-capturing viral protein NSs suppresses the integrated stress response.

Kashiwagi, K.Shichino, Y.Osaki, T.Sakamoto, A.Nishimoto, M.Takahashi, M.Mito, M.Weber, F.Ikeuchi, Y.Iwasaki, S.Ito, T.

(2021) Nat Commun 12: 7102-7102

  • DOI: https://doi.org/10.1038/s41467-021-27337-x
  • Primary Citation of Related Structures:  
    7F64, 7F66, 7F67, 7VLK

  • PubMed Abstract: 

    Various stressors such as viral infection lead to the suppression of cap-dependent translation and the activation of the integrated stress response (ISR), since the stress-induced phosphorylated eukaryotic translation initiation factor 2 [eIF2(αP)] tightly binds to eIF2B to prevent it from exchanging guanine nucleotide molecules on its substrate, unphosphorylated eIF2. Sandfly fever Sicilian virus (SFSV) evades this cap-dependent translation suppression through the interaction between its nonstructural protein NSs and host eIF2B. However, its precise mechanism has remained unclear. Here, our cryo-electron microscopy (cryo-EM) analysis reveals that SFSV NSs binds to the α-subunit of eIF2B in a competitive manner with eIF2(αP). Together with SFSV NSs, eIF2B retains nucleotide exchange activity even in the presence of eIF2(αP), in line with the cryo-EM structures of the eIF2B•SFSV NSs•unphosphorylated eIF2 complex. A genome-wide ribosome profiling analysis clarified that SFSV NSs expressed in cultured human cells attenuates the ISR triggered by thapsigargin, an endoplasmic reticulum stress inducer. Furthermore, SFSV NSs introduced in rat hippocampal neurons and human induced-pluripotent stem (iPS) cell-derived motor neurons exhibits neuroprotective effects against the ISR-inducing stress. Since ISR inhibition is beneficial in various neurological disease models, SFSV NSs may be a promising therapeutic ISR inhibitor.


  • Organizational Affiliation

    Laboratory for Translation Structural Biology, RIKEN Center for Biosystems Dynamics Research, Tsurumi-ku, Yokohama, 230-0045, Japan.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit alpha
A, B
305Homo sapiensMutation(s): 0 
Gene Names: EIF2B1EIF2BA
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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: 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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PHAROS:  P49770
GTEx:  ENSG00000119718 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit gamma
E, F
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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UniProt GroupQ9NR50
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit delta
G, H
523Homo sapiensMutation(s): 0 
Gene Names: EIF2B4EIF2BD
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Find proteins for Q9UI10 (Homo sapiens)
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PHAROS:  Q9UI10
GTEx:  ENSG00000115211 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Translation initiation factor eIF-2B subunit epsilon
I, J
721Homo sapiensMutation(s): 0 
Gene Names: EIF2B5EIF2BE
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Find proteins for Q13144 (Homo sapiens)
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GTEx:  ENSG00000145191 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Non-structural protein NS-S
K, L
261sandfly fever Sicilian virusMutation(s): 0 
Gene Names: NSS
UniProt
Find proteins for P12792 (Sandfly fever sicilian virus)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 1M [auth N],
P [auth Q]
315Homo sapiensMutation(s): 0 
Gene Names: EIF2S1EIF2A
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Find proteins for P05198 (Homo sapiens)
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GTEx:  ENSG00000134001 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
eIF2betaN [auth O],
Q [auth R]
14Homo sapiensMutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Eukaryotic translation initiation factor 2 subunit 3O [auth S],
R [auth T]
472Homo sapiensMutation(s): 0 
Gene Names: EIF2S3EIF2G
EC: 3.6.5.3
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Find proteins for P41091 (Homo sapiens)
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PHAROS:  P41091
GTEx:  ENSG00000130741 
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UniProt GroupP41091
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)JapanJP19H03172
Japan Agency for Medical Research and Development (AMED)JapanJP21gm1410001
Japan Society for the Promotion of Science (JSPS)JapanJP18K14644

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-01
    Type: Initial release
  • Version 1.1: 2022-02-16
    Changes: Database references
  • Version 1.2: 2024-06-12
    Changes: Data collection