7UNB

Crystal structure of malaria transmission-blocking antigen Pfs48/45-6C variant in complex with human antibodies RUPA-117 and RUPA-47

  • Classification: IMMUNE SYSTEM
  • Organism(s): Homo sapiens, Plasmodium falciparum
  • Expression System: Homo sapiens
  • Mutation(s): Yes 

  • Deposited: 2022-04-10 Released: 2022-08-10 
  • Deposition Author(s): Hailemariam, S., McLeod, B., Julien, J.-P.
  • Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), Bill & Melinda Gates Foundation, Canadian Institutes of Health Research (CIHR), CIFAR Azrieli Global Scholars, Ontario Early Researcher Awards, Canada Research Chairs

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.18 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Vaccination with a structure-based stabilized version of malarial antigen Pfs48/45 elicits ultra-potent transmission-blocking antibody responses.

McLeod, B.Mabrouk, M.T.Miura, K.Ravichandran, R.Kephart, S.Hailemariam, S.Pham, T.P.Semesi, A.Kucharska, I.Kundu, P.Huang, W.C.Johnson, M.Blackstone, A.Pettie, D.Murphy, M.Kraft, J.C.Leaf, E.M.Jiao, Y.van de Vegte-Bolmer, M.van Gemert, G.J.Ramjith, J.King, C.R.MacGill, R.S.Wu, Y.Lee, K.K.Jore, M.M.King, N.P.Lovell, J.F.Julien, J.P.

(2022) Immunity 55: 1680-1692.e8

  • DOI: https://doi.org/10.1016/j.immuni.2022.07.015
  • Primary Citation of Related Structures:  
    7UNB

  • PubMed Abstract: 

    Malaria transmission-blocking vaccines (TBVs) aim to elicit human antibodies that inhibit sporogonic development of Plasmodium falciparum in mosquitoes, thereby preventing onward transmission. Pfs48/45 is a leading clinical TBV candidate antigen and is recognized by the most potent transmission-blocking monoclonal antibody (mAb) yet described; still, clinical development of Pfs48/45 antigens has been hindered, largely by its poor biochemical characteristics. Here, we used structure-based computational approaches to design Pfs48/45 antigens stabilized in the conformation recognized by the most potently inhibitory mAb, achieving >25°C higher thermostability compared with the wild-type protein. Antibodies elicited in mice immunized with these engineered antigens displayed on liposome-based or protein nanoparticle-based vaccine platforms exhibited 1-2 orders of magnitude superior transmission-reducing activity, compared with immunogens bearing the wild-type antigen, driven by improved antibody quality. Our data provide the founding principles for using molecular stabilization solely from antibody structure-function information to drive improved immune responses against a parasitic vaccine target.


  • Organizational Affiliation

    Program in Molecular Medicine, The Hospital for Sick Children Research Institute, 686 Bay Street, Toronto, ON M5G 0A4, Canada; Department of Biochemistry, University of Toronto, 1 King's College Circle, Toronto, ON M5S 1A8, Canada.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RUPA-47 Fab kappa chainA [auth L]215Homo sapiensMutation(s): 0 
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Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Gametocyte surface protein P45/48B [auth R]147Plasmodium falciparumMutation(s): 3 
Gene Names: PF45/48PFS45-48PFS45/48PF13_0247PF3D7_1346700
UniProt
Find proteins for Q8I6T1 (Plasmodium falciparum (isolate 3D7))
Explore Q8I6T1 
Go to UniProtKB:  Q8I6T1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8I6T1
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
RUPA-117 Fab kappa chainC [auth E]214Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
RUPA-47 Fab heavy chainD [auth H]223Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
RUPA-117 Fab heavy chainE [auth F]230Homo sapiensMutation(s): 0 
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
F
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.18 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.669α = 90
b = 127.16β = 90
c = 132.706γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
PHASERphasing
XDSdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States1R01AI148557-01A1
Bill & Melinda Gates FoundationUnited StatesOPP1156262
Canadian Institutes of Health Research (CIHR)Canada428410
Bill & Melinda Gates FoundationUnited StatesOPP1179906
CIFAR Azrieli Global ScholarsCanada--
Ontario Early Researcher AwardsCanada--
Canada Research ChairsCanada--

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-10
    Type: Initial release
  • Version 1.1: 2022-08-31
    Changes: Database references
  • Version 1.2: 2022-09-28
    Changes: Database references
  • Version 1.3: 2023-10-18
    Changes: Data collection, Refinement description