1GZP

CD1b in complex with GM2 ganglioside

Summary for 1GZP

• Entry DOI: 10.2210/pdb1gzp/pdb
• Related: 1A1M 1A1N 1A1O 1A6Z 1A9B 1A9E 1AGB 1AGC 1AGD 1AGE 1AGF 1AKJ 1CE6 1DE4 1E27 1E28 1EFX 1EXU 1GZQ 1HHG 1HHH 1HHI 1HHJ 1HHK 1HLA 1HSA 1HSB 1I4F 1I7R 1I7T 1I7U 1IM3 1IM9 1JF1 1JHT 1JNJ 1QLF 1QQD 1TMC 2CLR 2HLA 3HLA
• Descriptor: T-CELL SURFACE GLYCOPROTEIN CD1B, B2-MICROGLOBULIN, N-[(1S,2S)-2-HYDROXY-1-({[(2R,3R,4S,5S,6R)-3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-YL]OXY}METHYL)OCTADECYL]OCTADECANAMIDE, ... (6 entities in total)
• Functional Keywords: lipid, ganglioside, mhc, antigen presentation, glycoprotein
• Biological source: HOMO SAPIENS (HUMAN); More
• Total number of polymer chains: 2
• Total formula weight: 46192.64

Authors

Gadola, S.D.,Zaccai, N.R.,Harlos, K.,Shepherd, D.,Ritter, G.,Schmidt, R.R.,Jones, E.Y.,Cerundolo, V. (deposition date: 2002-05-24, release date: 2002-07-31, Last modification date: 2024-11-13)

Primary citation

Gadola, S.D.,Zaccai, N.R.,Harlos, K.,Shepherd, D.,Castro-Palomino, J.C.,Ritter, G.,Schmidt, R.R.,Jones, E.Y.,Cerundolo, V.
Structure of human CD1b with bound ligands at 2.3 A, a maze for alkyl chains.
Nat. Immunol., 3:721-726, 2002

PubMed Abstract: The human genome encodes five nonpolymorphic major histocompatibility complex class I-like glycoproteins, CD1a to CD1e, that present lipid antigens for specific recognition by T lymphocytes. Using single alkyl chain detergents, we developed a protocol to generate recombinant human CD1b-lipid complexes. We present here the crystal structures of CD1b in complex with either phosphatidylinositol or ganglioside GM2 at 2.3 A and 2.8 A resolutions, respectively. The antigen-binding groove houses four interlinked hydrophobic channels that are occupied by the alkyl chains of the glycolipid plus two detergent molecules. A distinct exit beneath the alpha 2 helix further contributes to the plasticity of the binding groove. These structures reveal the mechanism by which two alkyl chain lipids bind to CD1b, and how CD1b can adapt to ligands of different alkyl chain length. They also suggest how very long alkyl chains, such as those of mycolic acid, could be fully contained within the binding groove. These results extend the spectrum of potential CD1b ligands by revealing that, in addition to two alkyl chain lipids, mono-alkyl and triple-alkyl chain lipids can be accommodated in the binding groove.

PubMed: 12118248
DOI: 10.1038/ni821

Experimental method

X-RAY DIFFRACTION (2.8 Å)