7FJE

Cryo-EM structure of a membrane protein(LL)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 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

Cholesterol inhibits TCR signaling by directly restricting TCR-CD3 core tunnel motility.

Chen, Y.Zhu, Y.Li, X.Gao, W.Zhen, Z.Huang, B.Ma, Z.Zhang, A.Song, X.Ma, Y.Guo, C.Zhang, F.Huang, Z.

(2022) Mol Cell 82: 1278-1287.e5

  • DOI: https://doi.org/10.1016/j.molcel.2022.02.017
  • Primary Citation of Related Structures:  
    7FJD, 7FJE, 7FJF

  • PubMed Abstract: 

    Cholesterol molecules specifically bind to the resting αβTCR to inhibit cytoplasmic CD3ζ ITAM phosphorylation through sequestering the TCR-CD3 complex in an inactive conformation. The mechanisms of cholesterol-mediated inhibition of TCR-CD3 and its activation remain unclear. Here, we present cryoelectron microscopy structures of cholesterol- and cholesterol sulfate (CS)-inhibited TCR-CD3 complexes and an auto-active TCR-CD3 variant. The structures reveal that cholesterol molecules act like a latch to lock CD3ζ into an inactive conformation in the membrane. Mutations impairing binding of cholesterol molecules to the tunnel result in the movement of the proximal C terminus of the CD3ζ transmembrane helix, thereby activating the TCR-CD3 complex in human cells. Together, our data reveal the structural basis of TCR inhibition by cholesterol, illustrate how the cholesterol-binding tunnel is allosterically coupled to TCR triggering, and lay a foundation for the development of immunotherapies through directly targeting the TCR-CD3 complex.


  • Organizational Affiliation

    HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin 150080, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
T-cell surface glycoprotein CD3 zeta chainA [auth a],
B [auth b]
165Homo sapiensMutation(s): 0 
Gene Names: CD247CD3ZT3ZTCRZ
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P20963 (Homo sapiens)
Explore P20963 
Go to UniProtKB:  P20963
PHAROS:  P20963
GTEx:  ENSG00000198821 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP20963
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
T-cell surface glycoprotein CD3 delta chainC [auth d]171Homo sapiensMutation(s): 0 
Gene Names: CD3DT3D
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P04234 (Homo sapiens)
Explore P04234 
Go to UniProtKB:  P04234
PHAROS:  P04234
GTEx:  ENSG00000167286 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04234
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
T-cell surface glycoprotein CD3 epsilon chainD [auth e],
E [auth f]
207Homo sapiensMutation(s): 0 
Gene Names: CD3ET3E
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P07766 (Homo sapiens)
Explore P07766 
Go to UniProtKB:  P07766
PHAROS:  P07766
GTEx:  ENSG00000198851 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07766
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
T-cell surface glycoprotein CD3 gamma chainF [auth g]182Homo sapiensMutation(s): 0 
Gene Names: CD3GT3G
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P09693 (Homo sapiens)
Explore P09693 
Go to UniProtKB:  P09693
PHAROS:  P09693
GTEx:  ENSG00000160654 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP09693
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
T cell receptor alpha variable 12-3,Possible J 11 gene segment,T cell receptor alpha chain constantG [auth m]272Homo sapiensMutation(s): 0 
Gene Names: TRAV12-3Tcr-alphaTRACTCRA
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for A0N4Z6 (Homo sapiens)
Explore A0N4Z6 
Go to UniProtKB:  A0N4Z6
Find proteins for A0A0B4J271 (Homo sapiens)
Explore A0A0B4J271 
Go to UniProtKB:  A0A0B4J271
PHAROS:  A0A0B4J271
GTEx:  ENSG00000211794 
Find proteins for P01848 (Homo sapiens)
Explore P01848 
Go to UniProtKB:  P01848
PHAROS:  P01848
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsA0A0B4J271P01848A0N4Z6
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
T cell receptor beta variable 6-5,M1-specific T cell receptor beta chain,T cell receptor beta constant 2H [auth n]312Homo sapiensMutation(s): 0 
Gene Names: TRBV6-5TRBTRBC2
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P0DSE2 (Homo sapiens)
Explore P0DSE2 
Go to UniProtKB:  P0DSE2
Find proteins for A0A0K0K1A5 (Homo sapiens)
Explore A0A0K0K1A5 
Go to UniProtKB:  A0A0K0K1A5
PHAROS:  A0A0K0K1A5
GTEx:  ENSG00000211721 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP0DSE2A0A0K0K1A5
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 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)China31825008

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-27
    Type: Initial release
  • Version 1.1: 2024-10-30
    Changes: Data collection, Structure summary