› 5l2j

X-ray diffraction
1.65Å resolution

Crystal Structure of human CD1b in complex with C36-GMM

Released:
DOI: 10.2210/pdb5l2j/pdb
PDB entry 5l2j coloured by chain, front view.
PDB entry 5l2j coloured by chain, side view.
PDB entry 5l2j coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
T cell receptor recognition of CD1b presenting a mycobacterial glycolipid.
Gras S, Van Rhijn I, Shahine A, Cheng TY, Bhati M, Tan LL, Halim H, Tuttle KD, Gapin L, Le Nours J, Moody DB, Rossjohn J
Nat Commun 7 13257 (2016)
PMID: 27807341

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151323 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
T-cell surface glycoprotein CD1b Chain: A
Molecule details ›
Chain: A
Length: 300 amino acids
Theoretical weight: 33.53 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P29016 (Residues: 20-296; Coverage: 88%)
Gene name: CD1B
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 98 amino acids
Theoretical weight: 11.62 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P61769 (Residues: 21-118; Coverage: 99%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN, FUC
Carbohydrate polymer
6 bound ligands:
Ligand 6UL 1 x 6UL
Ligand NAG 1 x NAG
Ligand ACT 2 x ACT
Ligand CL 2 x CL
Ligand 70E 1 x 70E
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Spacegroup: P212121
Unit cell:
a: 57.66Å b: 78.11Å c: 91.33Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.172 0.198
Expression system: Trichoplusia ni

Quick links

Citations

13 review citations

Harnessing donor unrestricted T-cells for new vaccines against tuberculosis.
Joosten et al. (2019)
12 more

5 mentions without citation

Molecular recognition of microbial lipid-based antigens by T cells.
Gras et al. (2018)
4 more