6MJ4 image
Deposition Date 2018-09-20
Release Date 2019-01-09
Last Version Date 2024-10-23
Entry Detail
PDB ID:
6MJ4
Keywords:
Title:
Crystal structure of MCD1D/INKTCR TERNARY COMPLEX bound to glycolipid (XXW)
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Antigen-presenting glycoprotein CD1d1
Chain IDs:C (auth: A)
Chain Length:285
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:Beta-2-microglobulin
Gene (Uniprot):B2m
Chain IDs:D (auth: B)
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:T cell receptor alpha variable 11,T cell receptor alpha variable 11,T cell receptor alpha joining 18,Human nkt tcr alpha chain, chimeric protein
Gene (Uniprot):Trav11, B2M
Chain IDs:A (auth: C)
Chain Length:209
Number of Molecules:1
Biological Source:Mus musculus, Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Beta-chain,T cell receptor chain,T cell receptor beta constant 2, CHIMERIC PROTEIN
Gene (Uniprot):TRBC2
Chain IDs:B (auth: D)
Chain Length:241
Number of Molecules:1
Biological Source:Mus musculus, Homo sapiens
Primary Citation
4"-O-Alkylated alpha-Galactosylceramide Analogues as iNKT-Cell Antigens: Synthetic, Biological, and Structural Studies.
ChemMedChem 14 147 168 (2019)
PMID: 30556652 DOI: 10.1002/cmdc.201800649

Abstact

Invariant natural killer T-cells (iNKT) are a glycolipid-responsive subset of T-lymphocytes that fulfill a pivotal role in the immune system. The archetypical synthetic glycolipid, α-galactosylceramide (α-GalCer), whose molecular framework is inspired by a group of amphiphilic natural products, remains the most studied antigen for iNKT-cells. Nonetheless, the potential of α-GalCer as an immunostimulating agent is compromised by the fact that this glycolipid elicits simultaneous secretion of Th1- and Th2-cytokines. This has incited medicinal chemistry efforts to identify analogues that are able to perturb the Th1/Th2 balance. In this work, we present the synthesis of an extensive set of 4"-O-alkylated α-GalCer analogues, which were evaluated in vivo for their cytokine induction. We have found that conversion of the 4"-OH group to ether moieties decreases the immunogenic potential in mice relative to α-GalCer. Yet, the benzyl-modified glycolipids are able to produce a distinct pro-inflammatory immune response. The crystal structures suggest an extra hydrophobic interaction between the benzyl moiety and the α2-helix of CD1d.

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Primary Citation of related structures