4Z80

Crystal structure of Toxoplasma gondii AMA4 DI-DII-EGF1 in complex with a 33 aa TgRON2L1 peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.153 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Dissecting the interface between apicomplexan parasite and host cell: Insights from a divergent AMA-RON2 pair.

Parker, M.L.Penarete-Vargas, D.M.Hamilton, P.T.Guerin, A.Dubey, J.P.Perlman, S.J.Spano, F.Lebrun, M.Boulanger, M.J.

(2016) Proc.Natl.Acad.Sci.USA 113: 398-403

  • DOI: 10.1073/pnas.1515898113
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Plasmodium falciparum and Toxoplasma gondii are widely studied parasites in phylum Apicomplexa and the etiological agents of severe human malaria and toxoplasmosis, respectively. These intracellular pathogens have evolved a sophisticated invasion str ...

    Plasmodium falciparum and Toxoplasma gondii are widely studied parasites in phylum Apicomplexa and the etiological agents of severe human malaria and toxoplasmosis, respectively. These intracellular pathogens have evolved a sophisticated invasion strategy that relies on delivery of proteins into the host cell, where parasite-derived rhoptry neck protein 2 (RON2) family members localize to the host outer membrane and serve as ligands for apical membrane antigen (AMA) family surface proteins displayed on the parasite. Recently, we showed that T. gondii harbors a novel AMA designated as TgAMA4 that shows extreme sequence divergence from all characterized AMA family members. Here we show that sporozoite-expressed TgAMA4 clusters in a distinct phylogenetic clade with Plasmodium merozoite apical erythrocyte-binding ligand (MAEBL) proteins and forms a high-affinity, functional complex with its coevolved partner, TgRON2L1. High-resolution crystal structures of TgAMA4 in the apo and TgRON2L1-bound forms complemented with alanine scanning mutagenesis data reveal an unexpected architecture and assembly mechanism relative to previously characterized AMA-RON2 complexes. Principally, TgAMA4 lacks both a deep surface groove and a key surface loop that have been established to govern RON2 ligand binding selectivity in other AMAs. Our study reveals a previously underappreciated level of molecular diversity at the parasite-host-cell interface and offers intriguing insight into the adaptation strategies underlying sporozoite invasion. Moreover, our data offer the potential for improved design of neutralizing therapeutics targeting a broad range of AMA-RON2 pairs and apicomplexan invasive stages.


    Organizational Affiliation

    Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC, V8P 5C2, Canada;




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
EGF family domain-containing protein
A, B
508Toxoplasma gondii (strain ATCC 50853 / GT1)Mutation(s): 0 
Find proteins for S7UIL3 (Toxoplasma gondii (strain ATCC 50853 / GT1))
Go to UniProtKB:  S7UIL3
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cytoadherence-linked asexual protein
C, D
37Toxoplasma gondii (strain ATCC 50861 / VEG)Mutation(s): 0 
Find proteins for B6KQU6 (Toxoplasma gondii (strain ATCC 50861 / VEG))
Go to UniProtKB:  B6KQU6
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.153 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 120.560α = 90.00
b = 120.560β = 90.00
c = 141.690γ = 120.00
Software Package:
Software NamePurpose
SHELXphasing
Aimlessdata scaling
PHENIXrefinement
Cootmodel building
iMOSFLMdata reduction
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health ResearchCanadaMOP82915

Revision History 

  • Version 1.0: 2015-12-30
    Type: Initial release
  • Version 1.1: 2016-01-13
    Type: Database references
  • Version 1.2: 2016-01-27
    Type: Database references
  • Version 1.3: 2017-09-20
    Type: Author supporting evidence, Database references, Derived calculations