1H8T

Echovirus 11


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 
    0.255 (Depositor), 0.240 (DCC) 
  • R-Value Work: 
    0.246 (Depositor), 0.250 (DCC) 
  • R-Value Observed: 
    0.246 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted MYRClick on this verticalbar to view detailsBest fitted DOAClick on this verticalbar to view details

This is version 2.1 of the entry. See complete history


Literature

Determination of the Structure of a Decay Accelerating Factor-Binding Clinical Isolate of Echovirus 11 Allows Mapping of Mutants with Altered Receptor Requirements for Infection

Stuart, A.Mckee, T.Williams, P.A.Harley, C.Shen, S.Stuart, D.I.Brown, T.D.K.Lea, S.M.

(2002) J Virol 76: 7694

  • DOI: https://doi.org/10.1128/jvi.76.15.7694-7704.2002
  • Primary Citation of Related Structures:  
    1H8T

  • PubMed Abstract: 

    We have used X-ray crystallography to determine the structure of a decay accelerating factor (DAF)-binding, clinic-derived isolate of echovirus 11 (EV11-207). The structures of the capsid proteins closely resemble those of capsid proteins of other picornaviruses. The structure allows us to interpret a series of amino acid changes produced by passaging EV11-207 in different cell lines as highlighting the locations of multiple receptor-binding sites on the virion surface. We suggest that a DAF-binding site is located at the fivefold axes of the virion, while the binding site for a distinct but as yet unidentified receptor is located within the canyon surrounding the virion fivefold axes.


  • Organizational Affiliation

    Division of Virology, Department of Pathology, University of Cambridge, Cambridge CB2 1QP, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ECHOVIRUS 11 COAT PROTEIN VP1292Echovirus E11Mutation(s): 0 
UniProt
Find proteins for Q8JKE8 (Echovirus E11)
Explore Q8JKE8 
Go to UniProtKB:  Q8JKE8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8JKE8
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ECHOVIRUS 11 COAT PROTEIN VP2262Echovirus E11Mutation(s): 0 
UniProt
Find proteins for Q8JKE8 (Echovirus E11)
Explore Q8JKE8 
Go to UniProtKB:  Q8JKE8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8JKE8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ECHOVIRUS 11 COAT PROTEIN VP3238Echovirus E11Mutation(s): 0 
UniProt
Find proteins for Q8JKE8 (Echovirus E11)
Explore Q8JKE8 
Go to UniProtKB:  Q8JKE8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8JKE8
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ECHOVIRUS 11 COAT PROTEIN VP468Echovirus E11Mutation(s): 0 
UniProt
Find proteins for Q8JKE8 (Echovirus E11)
Explore Q8JKE8 
Go to UniProtKB:  Q8JKE8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8JKE8
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free:  0.255 (Depositor), 0.240 (DCC) 
  • R-Value Work:  0.246 (Depositor), 0.250 (DCC) 
  • R-Value Observed: 0.246 (Depositor) 
Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 300.85α = 90
b = 300.85β = 90
c = 1476.62γ = 120
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted MYRClick on this verticalbar to view detailsBest fitted DOAClick on this verticalbar to view details

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-07-11
    Type: Initial release
  • Version 1.1: 2012-01-11
    Changes: Derived calculations, Other, Refinement description, Version format compliance
  • Version 2.0: 2023-11-15
    Changes: Atomic model, Data collection, Database references, Derived calculations, Other
  • Version 2.1: 2023-12-13
    Changes: Refinement description