22KK | pdb_000022kk

Cryo-EM structure of the BTNL3-BTNL8-TCR complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history

Literature

Butyrophilin-like 3 and 8 tetramers clamp V gamma 4V delta 1 T cell receptors for antigen-independent activation.

Dong, D.Li, H.Zhu, Y.Lu, Z.Zhu, J.Tian, X.Huang, Z.

(2026) Immunity 

  • DOI: https://doi.org/10.1016/j.immuni.2026.07.004
  • Primary Citation Related Structures: 
    22KK

  • PubMed Abstract: 

    BTNL3 and BTNL8, butyrophilin-like (BTNL) family receptors, are predominantly expressed on intestinal epithelial cells. The BTNL3-BTNL8 complex selectively activates human Vγ4⁺ T cells, which play critical roles in intestinal immune homeostasis and tissue damage repair. Here, we report the structure of the BTNL3-BTNL8-Vγ4Vδ1 T cell receptor (TCR) complex. The structure reveals that BTNL3-BTNL8 forms an antigen-independent tetramer, in contrast to the phosphoantigen-driven association of BTN2A1-BTN3A1. Two BTNL3-BTNL8 heterodimers clamp a head-to-head TCR homodimer to form a 2:2:2 BTNL3:BTNL8:Vγ4Vδ1 TCR complex, with the Vγ4 HV4 and CDR2 loops jointly engaging BTNL3. Structural alignment indicates that the CD1d binding site on TCR overlaps spatially with one monomer within a TCR dimer, suggesting that TCR dimerization sterically precludes simultaneous engagement of CD1d molecules. Together, our results elucidate the structural mechanism of BTNL3-BTNL8-mediated engagement and activation of Vγ4Vδ1 TCR, offering insights into γδ TCR signaling initiation.


  • Organizational Affiliation
    • HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin 150001, China; Westlake Center for Genome Editing, Westlake Laboratory of Life Sciences and Biomedicine, School of Life Sciences, Westlake University, Hangzhou 310024, Zhejiang, China.

Macromolecule Content 

  • Total Structure Weight: 356.49 kDa 
  • Atom Count: 20,798 
  • Modeled Residue Count: 2,622 
  • Deposited Residue Count: 3,162 
  • Unique protein chains: 4

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Butyrophilin-like protein 3A [auth B],
C [auth A]
466Homo sapiensMutation(s): 0 
Gene Names: BTNL3BTNLRCOLF4100UNQ744/PRO1472
UniProt & NIH Common Fund Data Resources
Find proteins for Q6UXE8 (Homo sapiens)
Explore Q6UXE8 
Go to UniProtKB:  Q6UXE8
GTEx:  ENSG00000168903 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6UXE8
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Butyrophilin-like protein 8B [auth C],
D
500Homo sapiensMutation(s): 0 
Gene Names: BTNL8UNQ702/PRO1347
UniProt & NIH Common Fund Data Resources
Find proteins for Q6UX41 (Homo sapiens)
Explore Q6UX41 
Go to UniProtKB:  Q6UX41
GTEx:  ENSG00000113303 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6UX41
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
TCRE [auth G],
G [auth I]
293Homo sapiensMutation(s): 0 
Entity Groups
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
TCRF [auth H],
H [auth J]
322Homo sapiensMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20_4459
RECONSTRUCTIONcryoSPARC

Structure Validation

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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: 2026-08-26
    Type: Initial release