5K0U

CryoEM structure of the full virion of a human rhinovirus C


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.79 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.4 of the entry. See complete history


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

  • 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 ...

    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.


    Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907; mr@purdue.edu acpalmen@wisc.edu.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Capsid protein VP1A279Rhinovirus CMutation(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)
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Go to UniProtKB:  E5D8F2
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UniProt GroupE5D8F2
Protein Feature View
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Capsid protein VP3B235Rhinovirus CMutation(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)
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UniProt GroupE5D8F2
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Capsid protein VP2C265Rhinovirus CMutation(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)
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Go to UniProtKB:  E5D8F2
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UniProt GroupE5D8F2
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Capsid protein VP4D66Rhinovirus CMutation(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
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UniProt GroupE5D8F2
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.79 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.10.1-2155
MODEL REFINEMENTCoot0.8.2
RECONSTRUCTIONjspr

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI011219
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI104317

Revision History  (Full details and data files)

  • 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
  • Version 1.3: 2018-07-18
    Changes: Data collection
  • Version 1.4: 2019-12-11
    Changes: Author supporting evidence