4WWK

Crystal structure of human TCR Alpha Chain-TRAV12-3, Beta Chain-TRBV6-5, Antigen-presenting molecule CD1d, and Beta-2-microglobulin

Summary for 4WWK

• Entry DOI: 10.2210/pdb4wwk/pdb
• Descriptor: TCR Alpha Chain-TRAV12-3, TCR Beta Chain-TRBV6-5, Antigen-presenting glycoprotein CD1d, ... (7 entities in total)
• Functional Keywords: innate immunity, nkt, immune system
• Biological source: Homo sapiens; More
• Total number of polymer chains: 4
• Total formula weight: 96991.58

Authors

Le Nours, J.,Praveena, T.,Pellicci, D.G.,Gherardin, N.A.,Lim, R.T.,Besra, G.,Keshipeddy, A.,Richardson, S.K.,Howell, A.R.,Gras, S.,Godfrey, D.I.,Rossjohn, J.,Uldrich, A.P. (deposition date: 2014-11-11, release date: 2016-02-03, Last modification date: 2024-10-09)

Primary citation

Le Nours, J.,Praveena, T.,Pellicci, D.G.,Gherardin, N.A.,Ross, F.J.,Lim, R.T.,Besra, G.S.,Keshipeddy, S.,Richardson, S.K.,Howell, A.R.,Gras, S.,Godfrey, D.I.,Rossjohn, J.,Uldrich, A.P.
Atypical natural killer T-cell receptor recognition of CD1d-lipid antigens.
Nat Commun, 7:10570-10570, 2016

PubMed Abstract: Crucial to Natural Killer T (NKT) cell function is the interaction between their T-cell receptor (TCR) and CD1d-antigen complex. However, the diversity of the NKT cell repertoire and the ensuing interactions with CD1d-antigen remain unclear. We describe an atypical population of CD1d-α-galactosylceramide (α-GalCer)-reactive human NKT cells that differ markedly from the prototypical TRAV10-TRAJ18-TRBV25-1(+) type I NKT cell repertoire. These cells express a range of TCR α- and β-chains that show differential recognition of glycolipid antigens. Two atypical NKT TCRs (TRAV21-TRAJ8-TRBV7-8 and TRAV12-3-TRAJ27-TRBV6-5) bind orthogonally over the A'-pocket of CD1d, adopting distinct docking modes that contrast with the docking mode of all type I NKT TCR-CD1d-antigen complexes. Moreover, the interactions with α-GalCer differ between the type I and these atypical NKT TCRs. Accordingly, diverse NKT TCR repertoire usage manifests in varied docking strategies and specificities towards CD1d-α-GalCer and related antigens, thus providing far greater scope for diverse glycolipid antigen recognition.

PubMed: 26875526
DOI: 10.1038/ncomms10570

Experimental method

X-RAY DIFFRACTION (3.1 Å)