8PWX

PfRH5 bound to monoclonal antibody R5.008


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.243 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Natural malaria infection elicits rare but potent neutralizing antibodies to the blood-stage antigen RH5.

Wang, L.T.Cooper, A.J.R.Farrell, B.Miura, K.Diouf, A.Muller-Sienerth, N.Crosnier, C.Purser, L.Kirtley, P.J.Maciuszek, M.Barrett, J.R.McHugh, K.Ogwang, R.Tucker, C.Li, S.Doumbo, S.Doumtabe, D.Pyo, C.W.Skinner, J.Nielsen, C.M.Silk, S.E.Kayentao, K.Ongoiba, A.Zhao, M.Nguyen, D.C.Lee, F.E.Minassian, A.M.Geraghty, D.E.Traore, B.Seder, R.A.Wilder, B.K.Crompton, P.D.Wright, G.J.Long, C.A.Draper, S.J.Higgins, M.K.Tan, J.

(2024) Cell 187: 4981-4995.e14

  • DOI: https://doi.org/10.1016/j.cell.2024.06.037
  • Primary Citation of Related Structures:  
    8PWU, 8PWV, 8PWW, 8PWX, 8Q5D

  • PubMed Abstract: 

    Plasmodium falciparum reticulocyte-binding protein homolog 5 (RH5) is the most advanced blood-stage malaria vaccine candidate and is being evaluated for efficacy in endemic regions, emphasizing the need to study the underlying antibody response to RH5 during natural infection, which could augment or counteract responses to vaccination. Here, we found that RH5-reactive B cells were rare, and circulating immunoglobulin G (IgG) responses to RH5 were short-lived in malaria-exposed Malian individuals, despite repeated infections over multiple years. RH5-specific monoclonal antibodies isolated from eight malaria-exposed individuals mostly targeted non-neutralizing epitopes, in contrast to antibodies isolated from five RH5-vaccinated, malaria-naive UK individuals. However, MAD8-151 and MAD8-502, isolated from two malaria-exposed Malian individuals, were among the most potent neutralizers out of 186 antibodies from both cohorts and targeted the same epitopes as the most potent vaccine-induced antibodies. These results suggest that natural malaria infection may boost RH5-vaccine-induced responses and provide a clear strategy for the development of next-generation RH5 vaccines.


  • Organizational Affiliation

    Antibody Biology Unit, Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, MD 20852, USA; Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892, USA; Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK; Medical Scientist Training Program, University of California, San Diego School of Medicine, La Jolla, CA 92093, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
scFv fragment for antibody R5.008284Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Reticulocyte-binding protein homolog 5338Plasmodium falciparum 3D7Mutation(s): 3 
Gene Names: RH5PFD1145cPF3D7_0424100
UniProt
Find proteins for Q8IFM5 (Plasmodium falciparum (isolate 3D7))
Explore Q8IFM5 
Go to UniProtKB:  Q8IFM5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IFM5
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
C [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.243 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 114.99α = 90
b = 114.99β = 90
c = 147.494γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
PHENIXrefinement
xia2data reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom220797/Z/20/Z

Revision History  (Full details and data files)

  • Version 1.0: 2024-06-05
    Type: Initial release
  • Version 1.1: 2024-11-06
    Changes: Structure summary
  • Version 1.2: 2024-12-18
    Changes: Database references