8FSJ

Cryo-EM structure of engineered hepatitis C virus E1E2 ectodomain in complex with antibodies AR4A, HEPC74, and IGH520


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Structure of engineered hepatitis C virus E1E2 ectodomain in complex with neutralizing antibodies.

Metcalf, M.C.Janus, B.M.Yin, R.Wang, R.Guest, J.D.Pozharski, E.Law, M.Mariuzza, R.A.Toth, E.A.Pierce, B.G.Fuerst, T.R.Ofek, G.

(2023) Nat Commun 14: 3980-3980

  • DOI: https://doi.org/10.1038/s41467-023-39659-z
  • Primary Citation of Related Structures:  
    8FSJ

  • PubMed Abstract: 

    Hepatitis C virus (HCV) is a major global health burden as the leading causative agent of chronic liver disease and hepatocellular carcinoma. While the main antigenic target for HCV-neutralizing antibodies is the membrane-associated E1E2 surface glycoprotein, the development of effective vaccines has been hindered by complications in the biochemical preparation of soluble E1E2 ectodomains. Here, we present a cryo-EM structure of an engineered, secreted E1E2 ectodomain of genotype 1b in complex with neutralizing antibodies AR4A, HEPC74, and IGH520. Structural characterization of the E1 subunit and C-terminal regions of E2 reveal an overall architecture of E1E2 that concurs with that observed for non-engineered full-length E1E2. Analysis of the AR4A epitope within a region of E2 that bridges between the E2 core and E1 defines the structural basis for its broad neutralization. Our study presents the structure of an E1E2 complex liberated from membrane via a designed scaffold, one that maintains all essential structural features of native E1E2. The study advances the understanding of the E1E2 heterodimer structure, crucial for the rational design of secreted E1E2 antigens in vaccine development.


  • Organizational Affiliation

    Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HCV E2 ectodomain, SYNZIP2 scaffold fusionA [auth E]385Hepacivirus hominissynthetic construct
This entity is chimeric
Mutation(s): 0 
UniProt
Find proteins for A0A2P0NE15 (Hepacivirus hominis)
Explore A0A2P0NE15 
Go to UniProtKB:  A0A2P0NE15
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2P0NE15
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
HEPC74 heavy chainB [auth H]264Homo sapiensMutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
HEPC74 light chainC [auth L]214Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
HCV E1 ectodomain, SYNZIP1 scaffold fusionD [auth A]206Hepacivirus hominissynthetic construct
This entity is chimeric
Mutation(s): 0 
UniProt
Find proteins for Q81387 (Hepacivirus hominis)
Explore Q81387 
Go to UniProtKB:  Q81387
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UniProt GroupQ81387
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
AR4A light chainE [auth B]236Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
AR4A heavy chainF [auth C]298Homo sapiensMutation(s): 0 
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 7
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseG [auth D],
H [auth F]
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 8
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
I [auth G],
J [auth I],
K [auth J],
L [auth K],
M,
I [auth G],
J [auth I],
K [auth J],
L [auth K],
M,
N
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARCv3.3.2

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 States1R01AI168048-01

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-19
    Type: Initial release