7THX

Cryo-EM structure of W6 possum enterovirus

• PDB DOI: https://doi.org/10.2210/pdb7THX/pdb
• EM Map EMD-25905: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Possum enterovirus W6
• Mutation(s): No 


• Deposited: 2022-01-12 Released: 2022-03-09 
• Deposition Author(s): Wang, I., Jayawardena, N., Strauss, M., Bostina, M.
• Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM Structure of a Possum Enterovirus.

Wang, I., Gupta, S.K., Ems, G., Jayawardena, N., Strauss, M., Bostina, M.

(2022) Viruses 14

• PubMed: 35215909 
• DOI: https://doi.org/10.3390/v14020318
• Primary Citation of Related Structures:  
  7THX


• PubMed Abstract: 
  

  Enteroviruses (EVs) represent a substantial concern to global health. Here, we present the cryo-EM structure of a non-human enterovirus, EV-F4, isolated from the Australian brushtail possum to assess the structural diversity of these picornaviruses. The capsid structure, determined to ~3 Å resolution by single particle analysis, exhibits a largely smooth surface, similar to EV-F3 (formerly BEV-2). Although the cellular receptor is not known, the absence of charged residues on the outer surface of the canyon suggest a different receptor type than for EV-F3. Density for the pocket factor is clear, with the entrance to the pocket being smaller than for other enteroviruses.

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Organizational Affiliation: 

Department of Anatomy and Cell Biology, McGill University, Montreal, QC H3A 0C7, Canada.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Hetero 240-mer - A60B60C60D60 Pseudo Symmetry: Icosahedral - I  (Explore in 3D)
Pseudo Stoichiometry: Hetero 240-mer - A120B60C60 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 91.86 kDa 
• Atom Count: 6,088 
• Modelled Residue Count: 776 
• Deposited Residue Count: 833 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP1	A [auth 1]	275	Possum enterovirus W6	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP2	B [auth 2]	244	Possum enterovirus W6	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP3	C [auth 3]	243	Possum enterovirus W6	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP4	D [auth 4]	71	Possum enterovirus W6	Mutation(s): 0
UniProt
Find proteins for T1T299 (Enterovirus F) Explore T1T299  Go to UniProtKB:  T1T299

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SPH (Subject of Investigation/LOI)	E [auth 1]	SPHINGOSINE C18 H37 N O2 WWUZIQQURGPMPG-MSOLQXFVSA-N
K	F [auth 1]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3.1
MODEL REFINEMENT	REFMAC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-09 
Deposition Author(s): Wang, I., Jayawardena, N., Strauss, M., Bostina, M.

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Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	RGPAS/00011-2020

Revision History  

• Version 1.0: 2022-03-09
  Type: Initial release
  
• Version 1.1: 2022-12-14
  Changes: Refinement description