6V80 image
Deposition Date 2019-12-10
Release Date 2020-09-16
Last Version Date 2024-10-23
Entry Detail
PDB ID:
6V80
Keywords:
IMMUNE SYSTEM
Title:
Crystal structure of human CD1d presenting alpha-Galactosylceramide in complex with NKT12 TCR and VHH nanobody 1D12
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Lama glama (Taxon ID: 9844)
Host Organism:
Trichoplusia ni
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
3.53 Å
R-Value Free:
0.25
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
C 1 2 1
6V80 validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Antigen-presenting glycoprotein CD1d
Gene (Uniprot):CD1D
Chain IDs:A, F
Chain Length:347
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P15813 Pfam ID:PF16497, PF07654
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Beta-2-microglobulin
Gene (Uniprot):B2M
Chain IDs:B, G
Chain Length:100
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P61769 Pfam ID:PF07654
Protein Blast
Polymer Type:polypeptide(L)
Molecule:T cell receptor alpha variable 10, nkt tcr alpha chain fusion
Gene (Uniprot):TRAV10, B2M
Chain IDs:C, H
Chain Length:210
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:A0A0B4J240,K7N5M3 Pfam ID:PF07686, PF09291
Protein Blast
Polymer Type:polypeptide(L)
Molecule:nkt tcr beta chain
Gene (Uniprot):B2M
Chain IDs:D, I
Chain Length:241
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:K7N5M4 Pfam ID:PF07686, PF07654
Polymer Type:polypeptide(L)
Molecule:Nanobody VHH ID12
Chain IDs:E, J
Chain Length:119
Number of Molecules:2
Biological Source:Lama glama
Ligand Molecules
AGH
NAG
Primary Citation
A single-domain bispecific antibody targeting CD1d and the NKT T-cell receptor induces a potent antitumor response.
Nat Cancer ? ? ? (2020)
DOI: 10.1038/s43018-020-00111-6
Primary Citation of related structures
6V7Y
6V7Z