› 3to4

X-ray diffraction
3.1Å resolution

Structure of mouse Valpha14Vbeta2-mouseCD1d-alpha-Galactosylceramide

Released:
DOI: 10.2210/pdb3to4/pdb
PDB entry 3to4 coloured by chain, front view.
PDB entry 3to4 coloured by chain, side view.
PDB entry 3to4 coloured by chain, top view.
Source organisms:
Primary publication:
Vβ2 natural killer T cell antigen receptor-mediated recognition of CD1d-glycolipid antigen.
Patel O, Pellicci DG, Uldrich AP, Sullivan LC, Bhati M, McKnight M, Richardson SK, Howell AR, Mallevaey T, Zhang J, Bedel R, Besra GS, Brooks AG, Kjer-Nielsen L, McCluskey J, Porcelli SA, Gapin L, Rossjohn J, Godfrey DI
Proc Natl Acad Sci U S A 108 19007-12 (2011)
PMID: 22065767

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-208701 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Antigen-presenting glycoprotein CD1d1 Chain: A
Molecule details ›
Chain: A
Length: 302 amino acids
Theoretical weight: 34.66 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P11609 (Residues: 19-297; Coverage: 88%)
Gene names: Cd1.1, Cd1d1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 99 amino acids
Theoretical weight: 11.66 KDa
Source organism: Mus musculus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
NKT Valpha14 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN) Chain: C
Molecule details ›
Chain: C
Length: 212 amino acids
Theoretical weight: 23.24 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins
NKT Vbeta2 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN) Chain: D
Molecule details ›
Chain: D
Length: 253 amino acids
Theoretical weight: 28.9 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand AGH 1 x AGH
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P212121
Unit cell:
a: 59.211Å b: 82.594Å c: 238.482Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.22 0.217 0.268
Expression systems:
  • Trichoplusia ni
  • Escherichia coli

Quick links

Citations

16 review citations

T cell antigen receptor recognition of antigen-presenting molecules.
Rossjohn et al. (2015)
15 more

2 mentions without citation

Recognition of CD1d-restricted antigens by natural killer T cells.
Rossjohn et al. (2012)
1 more