6V80: Crystal structure of human CD1d presenting alpha-Galactosylceramide in complex with NKT12 TCR and VHH nanobody 1D12

PDB ID: 6V80Download
MMDB ID: 192362
PDB Deposition Date: 2019/12/10
Updated in MMDB: 2024/10
Experimental Method:
x-ray diffraction
Resolution: 3.53  Å
Source Organism:
Lama glama▼
Similar Structures:
Biological Unit for 6V80: pentameric; determined by author and by software (PISA)
Molecular Components in 6V80
Label Count Molecule
Proteins (5 molecules)
1
Antigen-presenting Glycoprotein Cd1d
Molecule annotation
1
Beta-2-microglobulin
Molecule annotation
1
T Cell Receptor Alpha Variable 10, NKT TCR Alpha Chain Fusion
Molecule annotation
1
NKT TCR Beta Chain
Molecule annotation
1
Nanobody VHH Id12
Molecule annotation
Chemicals and Non-standard biopolymers (2 molecules)
1
1
2-acetamido-2-deoxy-beta-D-glucopyranose2-acetamido-2-deoxy-beta-D-glucopyranose
2
1
N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDEN-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303