Structure of alpha-GSA[26,P5P] bound by CD1D and in complex with the VA14VB8.2 TCR

Structure

x-ray diffraction · 4 distinct chains.

Ligands and binding sites

• ELS · N-[(2S,3S,4R)-3,4-dihydroxy-8-oxo-8-[(4-pentylphenyl) amino]-1-{[(2S,3R,4S,5R,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)tetr ahydro-2H-pyran-2-yl]oxy}octan-2-yl]hexacosanamide · ligand · chains A, C
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A
• BMA · beta-D-mannopyranose · sugar
• MAN · alpha-D-mannopyranose · sugar
• FUC · alpha-L-fucopyranose · sugar · chains A
• NA · Sodium ion · metal · 6 copies · chains A, C, D

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

• 6CXF · Structure of alpha-GSA[26,P5p] bound by CD1d and in complex with the Va14Vb8.2 TCR · the same entry in another collection · chain A against A, TM-score 1.00
• P01887 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P01887) · a predicted model of the same protein · chain B against A, TM-score 0.98

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt A0A0R4J090
• Every structure of UniProt P01887
• Elsewhere: RCSB PDB 6CXF · PDBe 6CXF · UniProt A0A0R4J090 · UniProt P01887