› 7phr

Electron Microscopy
3.08Å resolution

Structure of a fully assembled T-cell receptor engaging a tumor-associated peptide-MHC I

Released:
DOI: 10.2210/pdb7phr/pdb
PDB entry 7phr coloured by chain, front view.
PDB entry 7phr coloured by chain, side view.
PDB entry 7phr coloured by chain, top view.
Source organisms:
Primary publication:
Structure of a fully assembled tumor-specific T cell receptor ligated by pMHC.
Sušac L, Vuong MT, Thomas C, von Bülow S, O'Brien-Ball C, Santos AM, Fernandes RA, Hummer G, Tampé R, Davis SJ
Cell 185 3201-3213.e19 (2022)
PMID: 35985289
Related structures: EMD-13427

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero undecamer (preferred)
PDBe Complex ID:
PDB-CPX-225025 (preferred)
Entry contents:
9 distinct polypeptide molecules
Macromolecules (9 distinct):
T-cell receptor alpha chain Chain: A
Molecule details ›
Chain: A
Length: 251 amino acids
Theoretical weight: 27.98 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
T-cell receptor beta chain Chain: B
Molecule details ›
Chain: B
Length: 290 amino acids
Theoretical weight: 32.75 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
T-cell surface glycoprotein CD3 gamma chain Chain: C
Molecule details ›
Chain: C
Length: 122 amino acids
Theoretical weight: 13.71 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P09693 (Residues: 23-144; Coverage: 76%)
Gene names: CD3G, T3G
Sequence domains: T-cell surface glycoprotein CD3 delta chain
Green fluorescent protein; T-cell surface glycoprotein CD3 delta chain Chain: D
Molecule details ›
Chain: D
Length: 356 amino acids
Theoretical weight: 39.86 KDa
Source organisms: Expression system: Cricetulus griseus
UniProt:
  • Canonical: P04234 (Residues: 22-132; Coverage: 74%)
  • Canonical: P42212 (Residues: 2-238; Coverage: 100%)
Gene names: CD3D, GFP, T3D
Sequence domains:
T-cell surface glycoprotein CD3 epsilon chain Chains: E, e
Molecule details ›
Chains: E, e
Length: 136 amino acids
Theoretical weight: 15.32 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P07766 (Residues: 23-158; Coverage: 74%)
Gene names: CD3E, T3E
Sequence domains: Ig-like domain on T-cell surface glycoprotein CD3 epsilon chain
HLA class I histocompatibility antigen, A alpha chain Chain: H
Molecule details ›
Chain: H
Length: 304 amino acids
Theoretical weight: 35.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04439 (Residues: 25-304; Coverage: 82%)
Gene names: HLA-A, HLAA
Sequence domains:
Beta-2-microglobulin Chain: L
Molecule details ›
Chain: L
Length: 101 amino acids
Theoretical weight: 11.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 20-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
M-alpha Chain: P
Molecule details ›
Chain: P
Length: 9 amino acids
Theoretical weight: 974 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P40967 (Residues: 280-288; Coverage: 1%)
Gene names: D12S53E, PMEL, PMEL17, SILV
T-cell surface glycoprotein CD3 zeta chain Chains: Z, z
Molecule details ›
Chains: Z, z
Length: 36 amino acids
Theoretical weight: 4.14 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P20963 (Residues: 22-57; Coverage: 25%)
Gene names: CD247, CD3Z, T3Z, TCRZ
Sequence domains: T-cell surface glycoprotein CD3 zeta chain

Ligands and Environments

1 bound ligand:
Ligand NAG 6 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.08Å
Relevant EMDB volumes: EMD-13427
Expression systems:
  • Cricetulus griseus
  • Escherichia coli
  • Not provided

Quick links

Citations

8 review citations

A Story of Kinases and Adaptors: The Role of Lck, ZAP-70 and LAT in Switch Panel Governing T-Cell Development and Activation.
Fernández-Aguilar et al. (2023)
7 more

3 mentions without citation

Conformation-selective rather than avidity-based binding to tumor associated antigen derived peptide-MHC enables targeting of WT1-pMHC low expressing cancer cells by anti-WT1-pMHC/CD3 T cell engagers.
Walseng et al. (2023)
2 more