8I26

NMR structure of Toxoplasma gondii PDCD5 (cis form)


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100000 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Proline Isomerization and Molten Globular Property of TgPDCD5 Secreted from Toxoplasma gondii Confers Its Regulation of Heparin Sulfate Binding.

Lin, G.M.Yu, T.A.Chang, C.F.Hsu, C.H.

(2024) JACS Au 4: 1763-1774

  • DOI: https://doi.org/10.1021/jacsau.3c00577
  • Primary Citation of Related Structures:  
    8I25, 8I26

  • PubMed Abstract: 

    Toxoplasmosis, caused by Toxoplasma gondii , poses risks to vulnerable populations. TgPDCD5, a secreted protein of T. gondii , induces apoptosis through heparan sulfate-mediated endocytosis. The entry mechanism of TgPDCD5 has remained elusive. Here, we present the solution structure of TgPDCD5 as a helical bundle with an extended N-terminal helix, exhibiting molten globule characteristics. NMR perturbation studies reveal heparin/heparan sulfate binding involving the heparan sulfate/heparin proteoglycans-binding motif and the core region, influenced by proline isomerization of P107 residue. The heterogeneous proline recruits a cyclophilin TgCyp18, accelerating interconversion between conformers and regulating heparan/heparin binding. These atomic-level insights elucidate the binary switch's functionality, expose novel heparan sulfate-binding surfaces, and illuminate the unconventional cellular entry of pathogenic TgPDCD5.


  • Organizational Affiliation

    Department of Agricultural Chemistry, National Taiwan University, Taipei 10617, Taiwan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Programmed cell death 5 protein123Toxoplasma gondii GT1Mutation(s): 0 
Gene Names: TGGT1_207690
UniProt
Find proteins for A0A125YJ71 (Toxoplasma gondii (strain ATCC 50853 / GT1))
Explore A0A125YJ71 
Go to UniProtKB:  A0A125YJ71
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A125YJ71
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100000 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Council (NSC, Taiwan)Taiwan110-2113-M-002-023

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-17
    Type: Initial release
  • Version 1.1: 2024-05-15
    Changes: Database references
  • Version 1.2: 2024-06-12
    Changes: Database references