5N09 image
Deposition Date 2017-02-02
Release Date 2017-06-07
Last Version Date 2024-11-13
Entry Detail
PDB ID:
5N09
Title:
Crystal structure of L107C/A313C covalently linked dengue 2 virus envelope glycoprotein dimer in complex with the Fab fragment of the broadly neutralizing human antibody EDE2 A11
Biological Source:
Source Organism:
Dengue virus 2 (Taxon ID: 11060)
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
3.90 Å
R-Value Free:
0.34
R-Value Work:
0.30
R-Value Observed:
0.30
Space Group:
P 2 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Envelope Glycoprotein E
Mutations:L107C A313C
Chain IDs:A, B
Chain Length:430
Number of Molecules:2
Biological Source:Dengue virus 2
Polymer Type:polypeptide(L)
Molecule:BROADLY NEUTRALIZING HUMAN ANTIBODY EDE2 A11 - Heavy chain
Chain IDs:C (auth: H), D (auth: I)
Chain Length:283
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:BROADLY NEUTRALIZING HUMAN ANTIBODY EDE2 A11 - Light chain
Chain IDs:E (auth: L), F (auth: M)
Chain Length:218
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation

Abstact

A problem in the search for an efficient vaccine against dengue virus is the immunodominance of the fusion loop epitope (FLE), a segment of the envelope protein E that is buried at the interface of the E dimers coating mature viral particles. Anti-FLE antibodies are broadly cross-reactive but poorly neutralizing, displaying a strong infection enhancing potential. FLE exposure takes place via dynamic 'breathing' of E dimers at the virion surface. In contrast, antibodies targeting the E dimer epitope (EDE), readily exposed at the E dimer interface over the region of the conserved fusion loop, are very potent and broadly neutralizing. We here engineer E dimers locked by inter-subunit disulfide bonds, and show by X-ray crystallography and by binding to a panel of human antibodies that these engineered dimers do not expose the FLE, while retaining the EDE exposure. These locked dimers are strong immunogen candidates for a next-generation vaccine.

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Primary Citation of related structures