2fik
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2fik |SIZE=350|CAPTION= <scene name='initialview01'>2fik</scene>, resolution 1.80Å | |PDB= 2fik |SIZE=350|CAPTION= <scene name='initialview01'>2fik</scene>, resolution 1.80Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=GSL:(2S,3R)-3-HYDROXY-2-(TETRADECANOYLAMINO)OCTADECYL+ALPHA-D-GALACTOPYRANOSIDURONIC+ACID'>GSL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= Cd1d1, Cd1.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), beta-2-microglobulin ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]) | |GENE= Cd1d1, Cd1.1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), beta-2-microglobulin ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1z5l|1Z5L]], [[2akr|2AKR]], [[1zhn|1ZHN]], [[1zt4|1ZT4]], [[1cd1|1CD1]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2fik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fik OCA], [http://www.ebi.ac.uk/pdbsum/2fik PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2fik RCSB]</span> | ||
}} | }} | ||
| Line 24: | Line 27: | ||
[[Category: Wu, D.]] | [[Category: Wu, D.]] | ||
[[Category: Zajonc, D M.]] | [[Category: Zajonc, D M.]] | ||
| - | [[Category: GSL]] | ||
| - | [[Category: NAG]] | ||
| - | [[Category: PLM]] | ||
[[Category: bacterial antigen]] | [[Category: bacterial antigen]] | ||
[[Category: cd1d]] | [[Category: cd1d]] | ||
| Line 34: | Line 34: | ||
[[Category: tcr]] | [[Category: tcr]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:03:13 2008'' |
Revision as of 00:03, 31 March 2008
| |||||||
| , resolution 1.80Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , | ||||||
| Gene: | Cd1d1, Cd1.1 (Mus musculus), beta-2-microglobulin (Mus musculus) | ||||||
| Related: | 1Z5L, 2AKR, 1ZHN, 1ZT4, 1CD1
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Structure of a microbial glycosphingolipid bound to mouse CD1d
Overview
Natural killer T (NKT) cells provide an innate-type immune response upon T cell receptor interaction with CD1d-presented antigens. We demonstrate through equilibrium tetramer binding and antigen presentation assays with Valpha14i-positive NKT cell hybridomas that the Sphingomonas glycolipid alpha-galacturonosyl ceramide (GalA-GSL) is a NKT cell agonist that is significantly weaker than alpha-galactosylceramide (alpha-GalCer), the most potent known NKT agonist. For GalA-GSL, a shorter fatty acyl chain, an absence of the 4-OH on the sphingosine tail and a 6'-COOH group on the galactose moiety account for its observed antigenic potency. We further determined the crystal structure of mCD1d in complex with GalA-GSL at 1.8-A resolution. The overall binding mode of GalA-GSL to mCD1d is similar to that of the short-chain alpha-GalCer ligand PBS-25, but its sphinganine chain is more deeply inserted into the F' pocket due to alternate hydrogen-bonding interactions between the sphinganine 3-OH with Asp-80. Subsequently, a slight lateral shift (>1 A) of the galacturonosyl head group is noted at the CD1 surface compared with the galactose of alpha-GalCer. Because the relatively short C(14) fatty acid of GalA-GSL does not fully occupy the A' pocket, a spacer lipid is found that stabilizes this pocket. The lipid spacer was identified by GC/MS as a mixture of saturated and monounsaturated palmitic acid (C(16)). Comparison of available crystal structures of alpha-anomeric glycosphingolipids now sheds light on the structural basis of their differential antigenic potency and has led to the design and synthesis of NKT cell agonists with enhanced cell-based stimulatory activities compared with alpha-GalCer.
About this Structure
2FIK is a Protein complex structure of sequences from Mus musculus. Full crystallographic information is available from OCA.
Reference
Design of natural killer T cell activators: structure and function of a microbial glycosphingolipid bound to mouse CD1d., Wu D, Zajonc DM, Fujio M, Sullivan BA, Kinjo Y, Kronenberg M, Wilson IA, Wong CH, Proc Natl Acad Sci U S A. 2006 Mar 14;103(11):3972-7. Epub 2006 Mar 6. PMID:16537470
Page seeded by OCA on Mon Mar 31 03:03:13 2008
Categories: Mus musculus | Protein complex | Wu, D. | Zajonc, D M. | Bacterial antigen | Cd1d | Immune system | Mhc-fold | Nkt cell | Tcr
