› 3l9r

X-ray diffraction
2.3Å resolution

Crystal structure of bovine CD1b3 with endogenously bound ligands

Released:
DOI: 10.2210/pdb3l9r/pdb
PDB entry 3l9r coloured by chain, front view.
PDB entry 3l9r coloured by chain, side view.
PDB entry 3l9r coloured by chain, top view.
Source organism: Bos taurus
Primary publication:
Crystal structure of bovine CD1b3 with endogenously bound ligands.
Girardi E, Wang J, Mac TT, Versluis C, Bhowruth V, Besra G, Heck AJ, Van Rhijn I, Zajonc DM
J Immunol 185 376-86 (2010)
PMID: 20519644

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-525705 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
CD1b3 Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 283 amino acids
Theoretical weight: 31.66 KDa
Source organism: Bos taurus
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q1L1H6 (Residues: 19-295; Coverage: 83%)
Gene name: CD1B3
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 98 amino acids
Theoretical weight: 11.65 KDa
Source organism: Bos taurus
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P01888 (Residues: 21-118; Coverage: 100%)
Gene name: B2M
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, FUC
Carbohydrate polymer
5 bound ligands:
Ligand NAG 5 x NAG
Ligand L9R 2 x L9R
Ligand GOL 9 x GOL
Ligand L9Q 2 x L9Q
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P21212
Unit cell:
a: 137.533Å b: 139.975Å c: 111.953Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.201 0.248
Expression system: Spodoptera frugiperda

Quick links

Citations

4 review citations

Recognition of Microbial Glycolipids by Natural Killer T Cells.
Zajonc et al. (2015)
3 more

3 mentions without citation

Structure of a classical MHC class I molecule that binds "non-classical" ligands.
Hee et al. (2010)
2 more