› 1p1z

X-ray diffraction
3.26Å resolution

X-RAY CRYSTAL STRUCTURE OF THE LECTIN-LIKE NATURAL KILLER CELL RECEPTOR LY-49C BOUND TO ITS MHC CLASS I LIGAND H-2Kb

Released:
DOI: 10.2210/pdb1p1z/pdb
PDB entry 1p1z coloured by chain, front view.
PDB entry 1p1z coloured by chain, side view.
PDB entry 1p1z coloured by chain, top view.
Source organisms:
Primary publication:
Variable MHC class I engagement by Ly49 natural killer cell receptors demonstrated by the crystal structure of Ly49C bound to H-2K(b).
Dam J, Guan R, Natarajan K, Dimasi N, Chlewicki LK, Kranz DM, Schuck P, Margulies DH, Mariuzza RA
Nat Immunol 4 1213-22 (2003)
PMID: 14595439

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
PDBe Complex ID:
PDB-CPX-133801 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
H-2 class I histocompatibility antigen, K-B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 274 amino acids
Theoretical weight: 31.65 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01901 (Residues: 22-295; Coverage: 79%)
Gene names: H2-K, H2-K1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 99 amino acids
Theoretical weight: 11.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Ovalbumin Chain: P
Molecule details ›
Chain: P
Length: 8 amino acids
Theoretical weight: 964 Da
Source organism: Gallus gallus
Expression system: Not provided
UniProt:
  • Canonical: P01012 (Residues: 258-265; Coverage: 2%)
Gene name: SERPINB14
Killer cell lectin-like receptor 3 Chain: D
Molecule details ›
Chain: D
Length: 120 amino acids
Theoretical weight: 14.37 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q64329 (Residues: 143-262; Coverage: 45%)
Gene names: Klra3, Ly-49c, Ly49C
Sequence domains: Lectin C-type domain
Structure domains: Mannose-Binding Protein A, subunit A

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12B
Spacegroup: P43212
Unit cell:
a: 149.047Å b: 149.047Å c: 64.383Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.262 0.262 0.316
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

24 review citations

NK cell recognition.
Lanier LL. (2005)
23 more

1 mention without citation

Missing a "Missing Self" Mechanism: Modeling and Detection of Ly49 Expression in Canine NK Cells.
Gingrich et al. (2023)