8JBV

Extracellular domain of gamma delta TCR


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.02 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structures of human gamma delta T cell receptor-CD3 complex.

Xin, W.Huang, B.Chi, X.Liu, Y.Xu, M.Zhang, Y.Li, X.Su, Q.Zhou, Q.

(2024) Nature 630: 222-229

  • DOI: https://doi.org/10.1038/s41586-024-07439-4
  • Primary Citation of Related Structures:  
    8JBV, 8JC0, 8JCB, 8WXE, 8WY0, 8WYI, 8YC0

  • PubMed Abstract: 

    Gamma delta (γδ) T cells, a unique T cell subgroup, are crucial in various immune responses and immunopathology 1-3 . The γδ T cell receptor (TCR), generated by γδ T cells, recognizes a diverse range of antigens independently of the major histocompatibility complex 2 . The γδ TCR associates with CD3 subunits, initiating T cell activation and holding great potential in immunotherapy 4 . Here, we report the structures of two prototypical human Vγ9Vδ2 and Vγ5Vδ1 TCR-CD3 complexes 5,6 , unveiling two distinct assembly mechanisms that depend on Vγ usage. The Vγ9Vδ2 TCR-CD3 complex is monomeric, with considerable conformational flexibility in the TCRγ/TCRδ extracellular domain (ECD) and connecting peptides (CPs). The length of CPs regulates the ligand association and T cell activation. Additionally, a cholesterol-like molecule wedges into the transmembrane region, exerting an inhibitory role in TCR signaling. The Vγ5Vδ1 TCR-CD3 complex displays a dimeric architecture, where two protomers nestle back-to-back via their Vγ5 domains of TCR ECDs. Our biochemical and biophysical assays further corroborate the dimeric structure. Importantly, the dimeric form of the Vγ5Vδ1 TCR is essential for T cell activation. These findings reveal organizing principles of the γδ TCR-CD3 complex, providing insights into the γδ TCR unique properties and facilitating immunotherapeutic interventions.


  • Organizational Affiliation

    Research Center for Industries of the Future, Center for Infectious Disease Research, Zhejiang Key Laboratory of Structural Biology, School of Life Sciences, Westlake University; Institute of Biology, Westlake Institute for Advanced Study, Hangzhou, Zhejiang Province, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
T cell receptor delta variable 1,T cell receptor delta constantA [auth m],
C [auth M]
307Homo sapiensMutation(s): 0 
Gene Names: TRDV1TRDC
UniProt & NIH Common Fund Data Resources
Find proteins for A0A1B0GX56 (Homo sapiens)
Explore A0A1B0GX56 
Go to UniProtKB:  A0A1B0GX56
GTEx:  ENSG00000211804 
Find proteins for B7Z8K6 (Homo sapiens)
Explore B7Z8K6 
Go to UniProtKB:  B7Z8K6
PHAROS:  B7Z8K6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsB7Z8K6A0A1B0GX56
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
T cell receptor gamma variable 5,T cell receptor gamma constant 1B [auth n],
D [auth N]
331Homo sapiensMutation(s): 0 
Gene Names: TRGV5TCRGV5TRGC1TCRGC1
UniProt & NIH Common Fund Data Resources
Find proteins for A0A0B4J1U4 (Homo sapiens)
Explore A0A0B4J1U4 
Go to UniProtKB:  A0A0B4J1U4
GTEx:  ENSG00000211697 
Find proteins for P0CF51 (Homo sapiens)
Explore P0CF51 
Go to UniProtKB:  P0CF51
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP0CF51A0A0B4J1U4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.02 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-08
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Database references