7T9P | pdb_00007t9p

Cryo-EM structure of Human Enterovirus D68 US/MO/14-18947 strain native virion


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Efficacy of an isoxazole-3-carboxamide analog of pleconaril in mouse models of Enterovirus-D68 and Coxsackie B5.

Lane, T.R.Fu, J.Sherry, B.Tarbet, B.Hurst, B.L.Riabova, O.Kazakova, E.Egorova, A.Clarke, P.Leser, J.S.Frost, J.Rudy, M.Tyler, K.L.Klose, T.Volobueva, A.S.Belyaevskaya, S.V.Zarubaev, V.V.Kuhn, R.J.Makarov, V.Ekins, S.

(2023) Antiviral Res 216: 105654-105654

  • DOI: https://doi.org/10.1016/j.antiviral.2023.105654
  • Primary Citation of Related Structures:  
    7T9P, 7TAF, 7TAG, 7TAH, 7TAJ

  • PubMed Abstract: 

    Enteroviruses (EV) cause a number of life-threatening infectious diseases. EV-D68 is known to cause respiratory illness in children that can lead to acute flaccid myelitis. Coxsackievirus B5 (CVB5) is commonly associated with hand-foot-mouth disease. There is no antiviral treatment available for either. We have developed an isoxazole-3-carboxamide analog of pleconaril (11526092) which displayed potent inhibition of EV-D68 (IC 50 58 nM) as well as other enteroviruses including the pleconaril-resistant Coxsackievirus B3-Woodruff (IC 50 6-20 nM) and CVB5 (EC 50 1 nM). Cryo-electron microscopy structures of EV-D68 in complex with 11526092 and pleconaril demonstrate destabilization of the EV-D68 MO strain VP1 loop, and a strain-dependent effect. A mouse respiratory model of EV-D68 infection, showed 3-log decreased viremia, favorable cytokine response, as well as statistically significant 1-log reduction in lung titer reduction at day 5 after treatment with 11526092. An acute flaccid myelitis neurological infection model did not show efficacy. 11526092 was tested in a mouse model of CVB5 infection and showed a 4-log TCID 50 reduction in the pancreas. In summary, 11526092 represents a potent in vitro inhibitor of EV with in vivo efficacy in EV-D68 and CVB5 animal models suggesting it is worthy of further evaluation as a potential broad-spectrum antiviral therapeutic against EV.


  • Organizational Affiliation
    • Collaborations Pharmaceuticals Inc., Raleigh, NC, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
viral protein 1296enterovirus D68Mutation(s): 0 
UniProt
Find proteins for A0A097BW12 (Human enterovirus D68)
Explore A0A097BW12 
Go to UniProtKB:  A0A097BW12
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A097BW12
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
viral protein 3B [auth C]247enterovirus D68Mutation(s): 0 
UniProt
Find proteins for A0A097BW12 (Human enterovirus D68)
Explore A0A097BW12 
Go to UniProtKB:  A0A097BW12
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A097BW12
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
viral protein 2C [auth B]238enterovirus D68Mutation(s): 0 
UniProt
Find proteins for A0A097BW12 (Human enterovirus D68)
Explore A0A097BW12 
Go to UniProtKB:  A0A097BW12
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A097BW12
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
viral protein 468enterovirus D68Mutation(s): 0 
UniProt
Find proteins for A0A097BW12 (Human enterovirus D68)
Explore A0A097BW12 
Go to UniProtKB:  A0A097BW12
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A097BW12
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX

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 StatesR01-AI011219

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-25
    Type: Initial release
  • Version 1.1: 2024-06-05
    Changes: Data collection, Refinement description
  • Version 1.2: 2026-03-25
    Changes: Data collection, Database references, Structure summary