5VK2

Structural basis for antibody-mediated neutralization of Lassa virus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.201 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for antibody-mediated neutralization of Lassa virus.

Hastie, K.M.Zandonatti, M.A.Kleinfelter, L.M.Heinrich, M.L.Rowland, M.M.Chandran, K.Branco, L.M.Robinson, J.E.Garry, R.F.Saphire, E.O.

(2017) Science 356: 923-928

  • DOI: 10.1126/science.aam7260

  • PubMed Abstract: 
  • The arenavirus Lassa causes severe hemorrhagic fever and a significant disease burden in West Africa every year. The glycoprotein, GPC, is the sole antigen expressed on the viral surface and the critical target for antibody-mediated neutralization. H ...

    The arenavirus Lassa causes severe hemorrhagic fever and a significant disease burden in West Africa every year. The glycoprotein, GPC, is the sole antigen expressed on the viral surface and the critical target for antibody-mediated neutralization. Here we present the crystal structure of the trimeric, prefusion ectodomain of Lassa GP bound to a neutralizing antibody from a human survivor at 3.2-angstrom resolution. The antibody extensively anchors two monomers together at the base of the trimer, and biochemical analysis suggests that it neutralizes by inhibiting conformational changes required for entry. This work illuminates pH-driven conformational changes in both receptor-binding and fusion subunits of Lassa virus, illustrates the unique assembly of the arenavirus glycoprotein spike, and provides a much-needed template for vaccine design against these threats to global health.


    Organizational Affiliation

    Department of Immunology and Microbial Science, The Scripps Research Institute, La Jolla, CA 92037, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pre-glycoprotein polyprotein GP complex
A, B, C
259Lassa virus (strain Mouse/Sierra Leone/Josiah/1976)Mutation(s): 3 
Gene Names: GPC (GP-C)
Find proteins for P08669 (Lassa virus (strain Mouse/Sierra Leone/Josiah/1976))
Go to UniProtKB:  P08669
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Pre-glycoprotein polyprotein GP complex
a, b, c
164Lassa virus (strain Mouse/Sierra Leone/Josiah/1976)Mutation(s): 3 
Gene Names: GPC (GP-C)
Find proteins for P08669 (Lassa virus (strain Mouse/Sierra Leone/Josiah/1976))
Go to UniProtKB:  P08669
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Fab 37.7H heavy chain
D, F, H
229N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Fab 37.7H light chain
E, G, L
217N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MAN
Query on MAN

Download SDF File 
Download CCD File 
a, b, c
ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
FUC
Query on FUC

Download SDF File 
Download CCD File 
a, b, c
ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
 Ligand Interaction
BMA
Query on BMA

Download SDF File 
Download CCD File 
a, A, b, c, C
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, a, b, B, C, c
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.201 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.189 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 152.697α = 90.00
b = 152.697β = 90.00
c = 456.738γ = 120.00
Software Package:
Software NamePurpose
PHENIXphasing
Aimlessdata scaling
XDSdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited States1U19AI109762-01
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesR21 AI116112
National Institutes of Health/National Institute of General Medical SciencesUnited StatesT32 GM007491

Revision History 

  • Version 1.0: 2017-05-31
    Type: Initial release
  • Version 1.1: 2017-06-14
    Type: Database references
  • Version 1.2: 2017-09-27
    Type: Author supporting evidence