› 4lhu

X-ray diffraction
2.87Å resolution

Crystal Structure of 9C2 TCR bound to CD1d

Released:
DOI: 10.2210/pdb4lhu/pdb
PDB entry 4lhu coloured by chain, front view.
PDB entry 4lhu coloured by chain, side view.
PDB entry 4lhu coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
CD1d-lipid antigen recognition by the γδ TCR.
Uldrich AP, Le Nours J, Pellicci DG, Gherardin NA, McPherson KG, Lim RT, Patel O, Beddoe T, Gras S, Rossjohn J, Godfrey DI
Nat Immunol 14 1137-45 (2013)
PMID: 24076636

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-143223 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (6 distinct):
Antigen-presenting glycoprotein CD1d Chain: A
Molecule details ›
Chain: A
Length: 278 amino acids
Theoretical weight: 31.76 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P15813 (Residues: 24-295; Coverage: 86%)
Gene name: CD1D
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Ig-like domain-containing protein Chain: D
Molecule details ›
Chain: D
Length: 236 amino acids
Theoretical weight: 26.27 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6PJ56 (Residues: 21-252; Coverage: 82%)
Gene name: TRA@
Sequence domains:
Structure domains: Immunoglobulins
T cell receptor gamma constant 1 Chain: G
Molecule details ›
Chain: G
Length: 251 amino acids
Theoretical weight: 28.68 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P0CF51 (Residues: 1-122; Coverage: 71%)
Gene names: TCRGC1, TRGC1
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
5 bound ligands:
Ligand NAG 1 x NAG
Ligand BMA 1 x BMA
Ligand MG 1 x MG
Ligand JLS 1 x JLS
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: C2221
Unit cell:
a: 131.62Å b: 152.69Å c: 135.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.206 0.243
Expression systems:
  • Trichoplusia ni
  • Homo sapiens

Quick links

Citations

93 review citations

The burgeoning family of unconventional T cells.
Godfrey et al. (2015)
92 more

10 mentions without citation

Human gamma delta T cells: Evolution and ligand recognition.
Adams et al. (2015)
9 more