Primary Citation PubMed: 16007090
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Structure and binding kinetics of three different human CD1d-alpha-galactosylceramide-specific T cell receptors.
(2006) J Exp Med 203
PubMed: 16520393 | PubMedCentral: PMC2118257 | DOI: 10.1084/jem.20052369
Docking models ( Fig. 5, A–C ) were generated for the iNKT, 5B, and 5E TCR crystal structures described above and the previously reported crystal structure of human CD1d–α-GalC... r (PDB code 1ZT4) ( 16 ).
Subsequently, human CD1d–α-GalCer (accession no. 1ZT4; reference 16) was superimposed onto the position of dEV8-H-2K b in the TCR–pMHC complex based on superposition of the α1/α2 domains.
Publication Year: 2006
The length of lipids bound to human CD1d molecules modulates the affinity of NKT cell TCR and the threshold of NKT cell activation.
(2007) J Exp Med 204
PubMed: 17485514 | PubMedCentral: PMC2118584 | DOI: 10.1084/jem.20062342
The structural effects of binding lipid chains of various lengths to hCD1d were assessed by comparison of the hCD1d–α-GalCer and empty hCD1d crystal structures (Protein Data Bank code ... ZT4).
Publication Year: 2007
The molecular basis for recognition of CD1d/?-galactosylceramide by a human non-V?24 T cell receptor.
(2012) PLoS Biol 10
PubMed: 23109910 | PubMedCentral: PMC3479090 | DOI: 10.1371/journal.pbio.1001412
The structure of the ternary complex was solved by molecular replacement with the program Phaser  using the human CD1d–β2m (Protein Data Bank (PDB) accession number 1ZT4) and an iN... T Vα24+ TCR (2EYS) as search models.
Publication Year: 2012
Crystal structures of bovine CD1d reveal altered ?GalCer presentation and a restricted A' pocket unable to bind long-chain glycolipids.
(2012) PLoS One 7
PubMed: 23110152 | PubMedCentral: PMC3479135 | DOI: 10.1371/journal.pone.0047989
Superposition of the entire boCD1d heavy chain from the di-sulfatide complex with that of huCD1d and mCD1d yielded rmsd values of 0.92 Å (PDB 1ZT4) and 1.13 Å (PDB 1Z5L), respectively,... indicating a very similar topology of the boCD1d molecules.
(D) Superposition of the A’ pocket of boCD1d and huCD1d, with C 12∶0 -di-sufatide (yellow), C 16∶0 -αGalCer (grey) and C 26∶0 -αGalCer (green, from PDB ID 1ZT4) shown.
The effect of intracellular trafficking of CD1d on the formation of TCR repertoire of NKT cells.
(2014) BMB Rep 47
PubMed: 24755556 | PubMedCentral: PMC4163858 | DOI: null
PDB accession numbers are 2VAA (MHC I) and 1ZT4 (CD1d).
Publication Year: 2014
Modeling T cell receptor recognition of CD1-lipid and MR1-metabolite complexes.
(2014) BMC Bioinformatics 15
PubMed: 25260513 | PubMedCentral: PMC4261541 | DOI: 10.1186/1471-2105-15-319
Table 1 The TCR-CD1d-Ag and TCR-MR1-Ag test cases PDB code Complex TCR Ligand TCR name TCR type Ligand name Binding RMSD 1 , Å Difficulty 2 3HUJ [ 15 ] 2EYS [ 16 ] 1ZT4 [ 17 ] NKT15 Type I NKT... CD1d-α-GalCer 1.04 Rigid 4EI5 [ 5 ] 4EI6 [ 5 ] 2AKR [ 18 ] XV19 Type II NKT CD1d-sulfatide 1.08 Medium 4LHU [ 9 ] 4LFH [ 9 ] 1ZT4 [ 17 ] 9C2 γδ CD1d-α-GalCer 0.90 Rigid 4MNG [ 10 ] 4MNH [ 10 ] 4MQ7 [ 10 ] DP10.7 γδ CD1d-sulfatide 0.68 Rigid 4L4T [ 8 ] 3 4DZB [ 19 ] 3 4GUP [ 3 ] MAIT MAIT MR1-6FP 0.87 Rigid 1 Backbone atom root-mean-square distance between interface residues in the bound structure and corresponding residues in the unbound structures.
PubMed ID is not available.
Published in 2014
The 9B4 TCR–CD1d–α-GalCer ternary complex was solved by molecular replacement using PHASER with three separate search ensembles: CD1d without α-GalCer, TCR minus the V&... x003b1; domain and CDRβ loops, and Vδ1 minus the CDRδ loops (derived from PDB codes 1ZT4 [ Koch et al., 2005 ], 4DZB [ Reantragoon et al., 2012 ], and 4LFH [ Uldrich et al., 2013 ], respectively).
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