CD1C with antigen analogue 1

Structure

x-ray diffraction · 2 distinct chains · 18% helix, 44% strand (DSSP).

Ligands and binding sites

• ZPD · (4S,8R,12S,16S,20S)-4,8,12,16,20-pentamethylheptacosyl (1R,2S,3S,4R,5R)-2,3,4-trihydroxy-5-(hydroxymethyl) cyclohexyl hydrogen (R)-phosphate · ligand · chains A
• D12 · Dodecane · ligand · chains A
• ZP7 · (2S)-2,3-dihydroxypropyl hexadecanoate · ligand · chains A
• NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
• MLA · Malonic acid · additive · 2 copies · chains A, B
• NHE · 2-[N-cyclohexylamino]ethane sulfonic acid · additive · chains A, B

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

Pockets

6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–B · 1573 Ų buried · 20 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

• 7MX4 · CD1c with antigen analogue 1 · the same entry in another collection · chain A against A, TM-score 1.00
• P29017 · AlphaFold monomer V2.0 prediction for T-cell surface glycoprotein CD1C (P29017) · a predicted model of the same protein · chain A against A, TM-score 0.95
• P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain B against A, TM-score 0.92
• P29016 · AlphaFold monomer V2.0 prediction for T-cell surface glycoprotein CD1B (P29016) · a predicted model of the same protein · chain A against A, TM-score 0.91

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 P29017
• Every structure of UniProt P29016
• Every structure of UniProt P61769
• Elsewhere: RCSB PDB 7MX4 · PDBe 7MX4 · UniProt P29017 · UniProt P29016 · UniProt P61769