Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Hetero 180-mer - A60B60C60 Pseudo Symmetry: Icosahedral - I  (3D View)
Pseudo Stoichiometry: Hetero 180-mer - A120B60 

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

Macromolecule Content

• Total Structure Weight: 94.02 kDa 
• Atom Count: 6007 
• Modelled Residue Count: 764 
• Deposited Residue Count: 845 
• Unique protein chains: 3

5JZG

CryoEM structure of the native empty particle of a human rhinovirus C

• PDB DOI: 10.2210/pdb5JZG/pdb
• EM Map EMD-8184:EMDBEMDataResource

• Classification: VIRUS
• Organism(s): Rhinovirus C
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2016-05-16 Released: 2016-07-13 
• Deposition Author(s): Liu, Y., Hill, M.G., Klose, T., Chen, Z., Watters, K.E., Jiang, W., Palmenberg, A.C., Rossmann, M.G.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.16 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Atomic structure of a rhinovirus C, a virus species linked to severe childhood asthma.

Liu, Y., Hill, M.G., Klose, T., Chen, Z., Watters, K., Bochkov, Y.A., Jiang, W., Palmenberg, A.C., Rossmann, M.G.

(2016) Proc Natl Acad Sci U S A 113: 8997-9002

• PubMed: 27511920 
• DOI: 10.1073/pnas.1606595113
• Primary Citation of Related Structures:  
  5JZG, 5K0U


• PubMed Abstract: 
  

Isolates of rhinovirus C (RV-C), a recently identified Enterovirus (EV) species, are the causative agents of severe respiratory infections among children and are linked to childhood asthma exacerbations. The RV-C have been refractory to structure determination because they are difficult to propagate in vitro. Here, we report the cryo-EM atomic structures of the full virion and native empty particle (NEP) of RV-C15a. The virus has 60 "fingers" on the virus outer surface that probably function as dominant immunogens. Because the NEPs also display these fingers, they may have utility as vaccine candidates. A sequence-conserved surface depression adjacent to each finger forms a likely binding site for the sialic acid on its receptor. The RV-C, unlike other EVs, are resistant to capsid-binding antiviral compounds because the hydrophobic pocket in VP1 is filled with multiple bulky residues. These results define potential molecular determinants for designing antiviral therapeutics and vaccines.

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Organizational Affiliation: 

Department of Biological Sciences, Purdue University, West Lafayette, IN 47907; [e-mail] [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP1	A	279	Rhinovirus C	Mutation(s): 1  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for E5D8F2 (Rhinovirus C) Explore E5D8F2  Go to UniProtKB:  E5D8F2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP3	B	235	Rhinovirus C	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for E5D8F2 (Rhinovirus C) Explore E5D8F2  Go to UniProtKB:  E5D8F2

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP0	C	331	Rhinovirus C	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for E5D8F2 (Rhinovirus C) Explore E5D8F2  Go to UniProtKB:  E5D8F2

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.16 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-05-16 
• Released Date: 2016-07-13 
Deposition Author(s): Liu, Y., Hill, M.G., Klose, T., Chen, Z., Watters, K.E., Jiang, W., Palmenberg, A.C., Rossmann, M.G.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI011219
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI104317

Revision History  

• Version 1.0: 2016-07-13
  Type: Initial release
  
• Version 1.1: 2016-08-31
  Changes: Database references
• Version 1.2: 2017-09-13
  Changes: Author supporting evidence, Data collection, Database references
• Version 1.3: 2018-07-18
  Changes: Data collection
• Version 1.4: 2019-12-11
  Changes: Author supporting evidence