1ZT4

The crystal structure of human CD1d with and without alpha-Galactosylceramide

Summary for 1ZT4

• Entry DOI: 10.2210/pdb1zt4/pdb
• Descriptor: T-cell surface glycoprotein CD1d, Beta-2-microglobulin, N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE, ... (4 entities in total)
• Functional Keywords: human cd1d, cd1, mhc class i, empty binding groove, glycolipid, alpha-galactosylceramide, alpha-galcer, structural proteomics in europe, spine, structural genomics, immune system
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 4
• Total formula weight: 88254.66

Authors

Koch, M.,Stronge, V.S.,Shepherd, D.,Gadola, S.D.,Mathew, B.,Ritter, G.,Fersht, A.R.,Besra, G.S.,Schmidt, R.R.,Jones, E.Y.,Cerundolo, V.,Structural Proteomics in Europe (SPINE) (deposition date: 2005-05-26, release date: 2005-07-19, Last modification date: 2024-11-20)

Primary citation

Koch, M.,Stronge, V.S.,Shepherd, D.,Gadola, S.D.,Mathew, B.,Ritter, G.,Fersht, A.R.,Besra, G.S.,Schmidt, R.R.,Jones, E.Y.,Cerundolo, V.
The crystal structure of human CD1d with and without alpha-galactosylceramide
Nat.Immunol., 6:819-826, 2005

PubMed Abstract: The glycolipid alpha-galactosylceramide binds with high affinity to CD1d and stimulates natural killer T cells. Here we report the crystal structure of human CD1d in complex with synthetic alpha-galactosylceramide at a resolution of 3.0 A. The structure shows a tightly fit lipid in the CD1d binding groove, with the sphingosine chain bound in the C' pocket and the longer acyl chain anchored in the A' pocket. We also present the CD1d structure without lipid, which has a more open conformation of the binding groove, suggesting a dual conformation of CD1d in which the 'open' conformation is more able to load lipids. These structures provide clues as to how CD1 molecules load glycolipids as well as data to guide the design of new therapeutic agents.

PubMed: 16007090
DOI: 10.1038/ni1225

Experimental method

X-RAY DIFFRACTION (3 Å)