7YR8 | pdb_00007yr8

Lloviu cuevavirus nucleoprotein(1-450 residues)-RNA complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Cryoelectron microscopic structure of the nucleoprotein-RNA complex of the European filovirus, Lloviu virus.

Hu, S.Fujita-Fujiharu, Y.Sugita, Y.Wendt, L.Muramoto, Y.Nakano, M.Hoenen, T.Noda, T.

(2023) PNAS Nexus 2: pgad120-pgad120

  • DOI: https://doi.org/10.1093/pnasnexus/pgad120
  • Primary Citation of Related Structures:  
    7YPW, 7YR8

  • PubMed Abstract: 

    Lloviu virus (LLOV) is a novel filovirus detected in Schreiber's bats in Europe. The isolation of the infectious LLOV from bats has raised public health concerns. However, the virological and molecular characteristics of LLOV remain largely unknown. The nucleoprotein (NP) of LLOV encapsidates the viral genomic RNA to form a helical NP-RNA complex, which acts as a scaffold for nucleocapsid formation and de novo viral RNA synthesis. In this study, using single-particle cryoelectron microscopy, we determined two structures of the LLOV NP-RNA helical complex, comprising a full-length and a C-terminally truncated NP. The two helical structures were identical, demonstrating that the N-terminal region determines the helical arrangement of the NP. The LLOV NP-RNA protomers displayed a structure similar to that in the Ebola and Marburg virus, but the spatial arrangements in the helix differed. Structure-based mutational analysis identified amino acids involved in the helical assembly and viral RNA synthesis. These structures advance our understanding of the filovirus nucleocapsid formation and provide a structural basis for the development of antifiloviral therapeutics.


  • Organizational Affiliation
    • Laboratory of Ultrastructural Virology, Institute for Life and Medical Sciences, Kyoto University, 53 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507, Japan.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nucleoprotein387Cuevavirus lloviuenseMutation(s): 0 
UniProt
Find proteins for G8EFI1 (Cuevavirus lloviuense)
Explore G8EFI1 
Go to UniProtKB:  G8EFI1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG8EFI1
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
RNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')B [auth R]6synthetic construct
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1
MODEL REFINEMENTPHENIX1.18.2

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan21J12207
Japan Society for the Promotion of Science (JSPS)Japan21K07052
Japan Science and TechnologyJapanJPMJFR214S
Japan Agency for Medical Research and Development (AMED)Japan21wm0325023j0002
Japan Science and TechnologyJapanJPMJCR20HA
Japan Agency for Medical Research and Development (AMED)JapanJP22ama1214032

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-19
    Type: Initial release
  • Version 1.1: 2023-05-17
    Changes: Database references
  • Version 1.2: 2023-05-24
    Changes: Database references
  • Version 1.3: 2024-07-03
    Changes: Data collection, Refinement description