6I2N

Helical RNA-bound Hantaan virus nucleocapsid

• PDB DOI:  https://doi.org/10.2210/pdb6I2N/pdb
• EM Map EMD-0333: EMDB EMDataResource
• NAKB: 6I2N

• Classification: VIRAL PROTEIN
• Organism(s): Spodoptera frugiperda, Orthohantavirus hantanense
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2018-11-01 Released: 2019-01-23 
• Deposition Author(s): Arragain, B., Reguera, J., Desfosses, A., Gutsche, I., Schoehn, G., Malet, H.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

High resolution cryo-EM structure of the helical RNA-bound Hantaan virus nucleocapsid reveals its assembly mechanisms.

Arragain, B., Reguera, J., Desfosses, A., Gutsche, I., Schoehn, G., Malet, H.

(2019) Elife 8

• PubMed: 30638449 
• DOI: https://doi.org/10.7554/eLife.43075
• Primary Citation of Related Structures:  
  6I2N


• PubMed Abstract: 
  

Negative-strand RNA viruses condense their genome into helical nucleocapsids that constitute essential templates for viral replication and transcription. The intrinsic flexibility of nucleocapsids usually prevents their full-length structural characterisation at high resolution. Here, we describe purification of full-length recombinant metastable helical nucleocapsid of Hantaan virus ( Hantaviridae family, Bunyavirales order) and determine its structure at 3.3 Å resolution by cryo-electron microscopy. The structure reveals the mechanisms of helical multimerisation via sub-domain exchanges between protomers and highlights nucleotide positions in a continuous positively charged groove compatible with viral genome binding. It uncovers key sites for future structure-based design of antivirals that are currently lacking to counteract life-threatening hantavirus infections. The structure also suggests a model of nucleoprotein-polymerase interaction that would enable replication and transcription solely upon local disruption of the nucleocapsid.

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Organizational Affiliation: 

Electron Microscopy and Methods Group, Université Grenoble Alpes, CNRS, CEA, Institute for Structural Biology, Grenoble, France.

Biological Assembly 1  

Global Symmetry: Helical - H  (3D View)
Global Stoichiometry: Homo 7-mer - A7 

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

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 49.14 kDa 
• Atom Count: 2,710 
• Modelled Residue Count: 339 
• Deposited Residue Count: 433 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	B [auth D]	430	Orthohantavirus hantanense	Mutation(s): 0  EC: 3.1
UniProt
Find proteins for P05133 (Hantaan virus (strain 76-118)) Explore P05133  Go to UniProtKB:  P05133

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (5'-R(P*UP*UP*U)-3')	A [auth U]	3	Spodoptera frugiperda

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.0
MODEL REFINEMENT	PHENIX	1.13
MODEL REFINEMENT	Coot	0.8.9

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-01-23 
Deposition Author(s): Arragain, B., Reguera, J., Desfosses, A., Gutsche, I., Schoehn, G., Malet, H.

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Funding Organization	Location	Grant Number
	France	G7H-IRS17H50

Revision History  

• Version 1.0: 2019-01-23
  Type: Initial release
  
• Version 1.1: 2019-04-24
  Changes: Data collection, Source and taxonomy
• Version 1.2: 2019-12-18
  Changes: Other