5T1D

Crystal structure of EBV gHgL/gp42/E1D1 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 

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This is version 2.0 of the entry. See complete history


Literature

Structural basis for Epstein-Barr virus host cell tropism mediated by gp42 and gHgL entry glycoproteins.

Sathiyamoorthy, K.Hu, Y.X.Mohl, B.S.Chen, J.Longnecker, R.Jardetzky, T.S.

(2016) Nat Commun 7: 13557-13557

  • DOI: https://doi.org/10.1038/ncomms13557
  • Primary Citation of Related Structures:  
    5T1D

  • PubMed Abstract: 

    Herpesvirus entry into host cells is mediated by multiple virally encoded receptor binding and membrane fusion glycoproteins. Despite their importance in host cell tropism and associated disease pathology, the underlying and essential interactions between these viral glycoproteins remain poorly understood. For Epstein-Barr virus (EBV), gHgL/gp42 complexes bind HLA class II to activate membrane fusion with B cells, but gp42 inhibits fusion and entry into epithelial cells. To clarify the mechanism by which gp42 controls the cell specificity of EBV infection, here we determined the structure of gHgL/gp42 complex bound to an anti-gHgL antibody (E1D1). The critical regulator of EBV tropism is the gp42 N-terminal domain, which tethers the HLA-binding domain to gHgL by wrapping around the exterior of three gH domains. Both the gp42 N-terminal domain and E1D1 selectively inhibit epithelial-cell fusion; however, they engage distinct surfaces of gHgL. These observations clarify key determinants of EBV host cell tropism.


  • Organizational Affiliation

    Department of Structural Biology, Stanford University School of Medicine, 1201 Welch Road, Stanford, California 94305.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoprotein H655Human herpesvirus 4 strain B95-8Mutation(s): 0 
Gene Names: gHBXLF2
UniProt
Find proteins for P03231 (Epstein-Barr virus (strain B95-8))
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Go to UniProtKB:  P03231
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UniProt GroupP03231
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Envelope glycoprotein L112Human herpesvirus 4 strain B95-8Mutation(s): 0 
Gene Names: gLBKRF2
UniProt
Find proteins for P03212 (Epstein-Barr virus (strain B95-8))
Explore P03212 
Go to UniProtKB:  P03212
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UniProt GroupP03212
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Glycoprotein 42191human gammaherpesvirus 4Mutation(s): 0 
Gene Names: BZLF2
UniProt
Find proteins for P0C6Z5 (Epstein-Barr virus (strain GD1))
Explore P0C6Z5 
Go to UniProtKB:  P0C6Z5
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UniProt GroupP0C6Z5
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
E1D1 IgG2a heavy chainD [auth H]213Mus musculusMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
E1D1 IgG2a light chainE [auth L]217Mus musculusMutation(s): 0 
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Oligosaccharides

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Entity ID: 6
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseF [auth D],
G [auth E]
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.51α = 90
b = 166β = 90
c = 272.4γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

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 StatesAI119480
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI076183
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA117794

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-28
    Type: Initial release
  • Version 1.1: 2017-01-04
    Changes: Database references
  • Version 1.2: 2017-09-20
    Changes: Author supporting evidence
  • Version 1.3: 2019-12-04
    Changes: Author supporting evidence
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary