4ZAK image
Deposition Date 2015-04-13
Release Date 2015-07-01
Last Version Date 2024-10-09
Entry Detail
PDB ID:
4ZAK
Keywords:
Title:
Crystal structure of the mCD1d/DB06-1/iNKTCR ternary complex
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.82 Å
R-Value Free:
0.25
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
C 2 2 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Antigen-presenting glycoprotein CD1d1
Gene (Uniprot):Cd1d1
Chain IDs:A
Chain Length:285
Number of Molecules:1
Biological Source:Mus musculus
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Beta-2-microglobulin
Gene (Uniprot):B2m
Chain IDs:B
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein Trav11,Va14Ja18/Vb8.2,Human nkt tcr alpha chain
Gene (Uniprot):Trav11, B2M
Chain IDs:C
Chain Length:209
Number of Molecules:1
Biological Source:Mus musculus, Homo sapiens
Protein Blast
Polymer Type:polypeptide(L)
Molecule:T cell antigen receptor beta chain 8.2,T-cell receptor beta-2 chain C region,Protein Trbc2,T-cell receptor beta-2 chain C region
Gene (Uniprot):TRBC2
Chain IDs:D
Chain Length:241
Number of Molecules:1
Biological Source:Mus musculus, Homo sapiens
Primary Citation
A Novel Glycolipid Antigen for NKT Cells That Preferentially Induces IFN-gamma Production.
J Immunol. 195 924 933 (2015)
PMID: 26078271 DOI: 10.4049/jimmunol.1500070

Abstact

In this article, we characterize a novel Ag for invariant NKT (iNKT) cells capable of producing an especially robust Th1 response. This glycosphingolipid, DB06-1, is similar in chemical structure to the well-studied α-galactosylceramide (αGalCer), with the only change being a single atom: the substitution of a carbonyl oxygen with a sulfur atom. Although DB06-1 is not a more effective Ag in vitro, the small chemical change has a marked impact on the ability of this lipid Ag to stimulate iNKT cells in vivo, with increased IFN-γ production at 24 h compared with αGalCer, increased IL-12, and increased activation of NK cells to produce IFN-γ. These changes are correlated with an enhanced ability of DB06-1 to load in the CD1d molecules expressed by dendritic cells in vivo. Moreover, structural studies suggest a tighter fit into the CD1d binding groove by DB06-1 compared with αGalCer. Surprisingly, when iNKT cells previously exposed to DB06-1 are restimulated weeks later, they have greatly increased IL-10 production. Therefore, our data are consistent with a model whereby augmented and or prolonged presentation of a glycolipid Ag leads to increased activation of NK cells and a Th1-skewed immune response, which may result, in part, from enhanced loading into CD1d. Furthermore, our data suggest that strong antigenic stimulation in vivo may lead to the expansion of IL-10-producing iNKT cells, which could counteract the benefits of increased early IFN-γ production.

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Primary Citation of related structures