9FVD | pdb_00009fvd

Cryo-EM structure of single-layered nucleoprotein-RNA helical assembly from Marburg virus, trimeric repeat unit

• PDB DOI: https://doi.org/10.2210/pdb9FVD/pdb
• EM Map EMD-50803: EMDB EMDataResource
• NAKB: 9FVD

• Classification: VIRAL PROTEIN
• Organism(s): Marburg virus - Musoke, Kenya, 1980
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2024-06-26 Released: 2024-10-09 
• Deposition Author(s): Zinzula, L., Beck, F., Camasta, M., Bohn, S., Liu, C., Morado, D., Bracher, A., Plitzko, J.M., Baumeister, W.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

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

Starting Model: in silico

Literature

Cryo-EM structure of single-layered nucleoprotein-RNA complex from Marburg virus.

Zinzula, L., Beck, F., Camasta, M., Bohn, S., Liu, C., Morado, D., Bracher, A., Plitzko, J.M., Baumeister, W.

(2024) Nat Commun 15: 10307-10307

• PubMed: 39604358 
• DOI: https://doi.org/10.1038/s41467-024-54431-7
• Primary Citation Related Structures: 
  9FVD


• PubMed Abstract: 
  

  Marburg virus (MARV) causes lethal hemorrhagic fever in humans, posing a threat to global health. We determined by cryogenic electron microscopy (cryo-EM) the MARV helical ribonucleoprotein (RNP) complex structure in single-layered conformation, which differs from the previously reported structure of a double-layered helix. Our findings illuminate novel RNP interactions and expand knowledge on MARV genome packaging and nucleocapsid assembly, both processes representing attractive targets for the development of antiviral therapeutics against MARV disease.

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Organizational Affiliation: 
• Max Planck Institute of Biochemistry, Research Group Molecular Structural Biology, Martinsried, Germany. [e-mail].
iHuman Institute, ShanghaiTech University, Shanghai, China. [e-mail].
Max Planck Institute of Biochemistry, Research Group Molecular Structural Biology, Martinsried, Germany.
Max Planck Institute of Biochemistry, Research Group CryoEM Technology, Martinsried, Germany.
Institute of Structural Biology, Helmholtz Center Munich, Oberschleissheim, Germany.
Max Planck Institute of Biochemistry, Department of Cell and Virus Structure, Martinsried, Germany.
Stockholm University, Department of Biochemistry and Biophysics, Science for Life Laboratory, Stockholm, Sweden.
Max Planck Institute of Biochemistry, Department of Cellular Biochemistry, Martinsried, Germany.
Max Planck Institute of Biochemistry, Research Group Molecular Structural Biology, Martinsried, Germany. [e-mail].
iHuman Institute, ShanghaiTech University, Shanghai, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 9-mer - A9 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 177.57 kDa 
• Atom Count: 10,146 
• Modeled Residue Count: 1,197 
• Deposited Residue Count: 1,413 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	A [auth B], B [auth A], C	441	Marburg virus - Musoke, Kenya, 1980	Mutation(s): 2  Gene Names: NP
UniProt
Find proteins for P27588 (Lake Victoria marburgvirus (strain Musoke-80)) Explore P27588  Go to UniProtKB:  P27588

Entity ID: 2
Molecule	Chains	Length	Organism	Image
RNA (5'-R(P*AP*GP*AP*CP*AP*CP*AP*CP*AP*AP*AP*AP*AP*CP*AP*AP*GP*A)-3')	D [auth S], E [auth R], F [auth Q], G [auth U], H [auth T]	18	Marburg virus - Musoke, Kenya, 1980

Experimental Data & Validation

Experimental Data

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

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	4.0
MODEL REFINEMENT	PHENIX	1.19.2-4158_1309

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-10-09 
Deposition Author(s): Zinzula, L., Beck, F., Camasta, M., Bohn, S., Liu, C., Morado, D., Bracher, A., Plitzko, J.M., Baumeister, W.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-10-09
  Type: Initial release
  
• Version 1.1: 2024-12-25
  Changes: Data collection, Database references, Derived calculations