› 6zdx

X-ray diffraction
3Å resolution

RIFIN variable region bound to LILRB1 ectodomain

Released:
DOI: 10.2210/pdb6zdx/pdb
PDB entry 6zdx coloured by chain, front view.
PDB entry 6zdx coloured by chain, side view.
PDB entry 6zdx coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for RIFIN-mediated activation of LILRB1 in malaria.
Harrison TE, Mørch AM, Felce JH, Sakoguchi A, Reid AJ, Arase H, Dustin ML, Higgins MK
Nature 587 309-312 (2020)
PMID: 32650338

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-184670 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Rifin Chain: A
Molecule details ›
Chain: A
Length: 129 amino acids
Theoretical weight: 14.17 KDa
Source organism: Plasmodium falciparum 3D7
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8I4N9 (Residues: 165-273; Coverage: 34%)
Gene name: PF3D7_1254800
Sequence domains: Rifin
Leukocyte immunoglobulin-like receptor subfamily B member 1 Chain: B
Molecule details ›
Chain: B
Length: 437 amino acids
Theoretical weight: 47.83 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q8NHL6 (Residues: 25-420; Coverage: 63%)
Gene names: ILT2, LILRB1, LIR1, MIR7
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P6122
Unit cell:
a: 134.507Å b: 134.507Å c: 277.468Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.235 0.234 0.249
Expression systems:
  • Escherichia coli
  • Homo sapiens

Quick links

Citations

10 review citations

Naturally Acquired Humoral Immunity Against Plasmodium falciparum Malaria.
Gonzales et al. (2020)
9 more

2 mentions without citation

Structural basis of malaria RIFIN binding by LILRB1-containing antibodies.
Chen et al. (2021)
1 more