Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 8-mer - A2B2C1D1E1F1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 184.05 kDa 
• Atom Count: 8437 
• Residue Count: 1073 
• Unique protein chains: 6

6JXR

Structure of human T cell receptor-CD3 complex

• DOI: 10.2210/pdb6JXR/pdb
• EMDataResource: EMD-9895

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2019-04-24 Released: 2019-09-11 
• Deposition Author(s): Dong, D., Zheng, L., Lin, J., Zhu, Y., Li, N., Zhang, B., Xie, S., Zheng, J., Wang, Y., Gao, N., Huang, Z.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: CELL 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis of assembly of the human T cell receptor-CD3 complex.

Zheng, L., Lin, J., Zhang, B., Zhu, Y., Li, N., Xie, S., Wang, Y., Gao, N., Huang, Z.

(2019) Nature 573: 546-552

• PubMed: 31461748 
• DOI: 10.1038/s41586-019-1537-0
• Primary Citation of Related Structures:  
  6JXR


• PubMed Abstract: 
  

The αβ T cell receptor (TCR), in association with the CD3γε-CD3δε-CD3ζζ signalling hexamer, is the primary determinant of T cell development and activation, and of immune responses to foreign antigens. The mechanism of assembly of the TCR-CD3 complex remains unknown. Here we report a cryo-electron microscopy structure of human TCRαβ in complex with the CD3 hexamer at 3.7 Å resolution. The structure contains the complete extracellular domains and all the transmembrane helices of TCR-CD3. The octameric TCR-CD3 complex is assembled with 1:1:1:1 stoichiometry of TCRαβ:CD3γε:CD3δε:CD3ζζ. Assembly of the extracellular domains of TCR-CD3 is mediated by the constant domains and connecting peptides of TCRαβ that pack against CD3γε-CD3δε, forming a trimer-like structure proximal to the plasma membrane. The transmembrane segment of the CD3 complex adopts a barrel-like structure formed by interaction of the two transmembrane helices of CD3ζζ with those of CD3γε and CD3δε. Insertion of the transmembrane helices of TCRαβ into the barrel-like structure via both hydrophobic and ionic interactions results in transmembrane assembly of the TCR-CD3 complex. Together, our data reveal the structural basis for TCR-CD3 complex assembly, providing clues to TCR triggering and a foundation for rational design of immunotherapies that target the complex.

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Organizational Affiliation: 

HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, China. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD3 zeta chain	a, b	164	Homo sapiens	Mutation(s): 0  Gene Names: CD247, CD3Z, T3Z, TCRZ
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for P20963 (Homo sapiens) Explore P20963  Go to UniProtKB:  P20963
NIH Common Fund Data Resources
PHAROS:  P20963 GTEx:  ENSG00000198821

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD3 delta chain	d	171	Homo sapiens	Mutation(s): 0  Gene Names: CD3D, T3D
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for P04234 (Homo sapiens) Explore P04234  Go to UniProtKB:  P04234
NIH Common Fund Data Resources
PHAROS:  P04234 GTEx:  ENSG00000167286

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD3 epsilon chain	e, f	207	Homo sapiens	Mutation(s): 0  Gene Names: CD3E, T3E
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for P07766 (Homo sapiens) Explore P07766  Go to UniProtKB:  P07766
NIH Common Fund Data Resources
PHAROS:  P07766 GTEx:  ENSG00000198851

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD3 gamma chain	g	182	Homo sapiens	Mutation(s): 0  Gene Names: CD3G, T3G
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for P09693 (Homo sapiens) Explore P09693  Go to UniProtKB:  P09693
NIH Common Fund Data Resources
PHAROS:  P09693 GTEx:  ENSG00000160654

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
T cell receptor alpha variable 12-3,Possible J 11 gene segment,T cell receptor alpha constant	m	252	Homo sapiens	Mutation(s): 0  Gene Names: TRAV12-3, Tcr-alpha, TRAC, TCRA
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for A0N4Z6 (Homo sapiens) Explore A0N4Z6  Go to UniProtKB:  A0N4Z6
Find proteins for A0A0B4J271 (Homo sapiens) Explore A0A0B4J271  Go to UniProtKB:  A0A0B4J271
NIH Common Fund Data Resources
PHAROS:  A0A0B4J271 GTEx:  ENSG00000211794
Find proteins for P01848 (Homo sapiens) Explore P01848  Go to UniProtKB:  P01848
NIH Common Fund Data Resources
PHAROS:  P01848

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
T cell receptor beta variable 6-5,M1-specific T cell receptor beta chain,T cell receptor beta constant 2	n	291	Homo sapiens	Mutation(s): 0  Gene Names: TRBV6-5, TRB, TRBC2
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Immune Receptors	Protein:  T cell receptor-CD3 complex
Find proteins for P0DSE2 (Homo sapiens) Explore P0DSE2  Go to UniProtKB:  P0DSE2
Find proteins for A0A0K0K1A5 (Homo sapiens) Explore A0A0K0K1A5  Go to UniProtKB:  A0A0K0K1A5
NIH Common Fund Data Resources
PHAROS:  A0A0K0K1A5 GTEx:  ENSG00000211721

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: CELL 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-04-24 
• Released Date: 2019-09-11 
Deposition Author(s): Dong, D., Zheng, L., Lin, J., Zhu, Y., Li, N., Zhang, B., Xie, S., Zheng, J., Wang, Y., Gao, N., Huang, Z.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	--

Revision History 

• Version 1.0: 2019-09-11
  Type: Initial release
  
• Version 1.1: 2019-09-18
  Changes: Data collection, Database references
• Version 1.2: 2019-10-02
  Changes: Data collection, Database references
• Version 1.3: 2019-10-09
  Changes: Data collection, Database references
• Version 1.4: 2019-11-06
  Changes: Data collection, Other
• Version 1.5: 2020-09-16
  Changes: Structure summary