› 5knm

X-ray diffraction
3.3Å resolution

Human leukocyte antigen F (HLA-F) presents peptides and regulates immunity through interactions with NK-cell receptors

Released:
DOI: 10.2210/pdb5knm/pdb
PDB entry 5knm coloured by chain, front view.
PDB entry 5knm coloured by chain, side view.
PDB entry 5knm coloured by chain, top view.
Source organisms:
Primary publication:
Human Leukocyte Antigen F Presents Peptides and Regulates Immunity through Interactions with NK Cell Receptors.
Dulberger CL, McMurtrey CP, Hölzemer A, Neu KE, Liu V, Steinbach AM, Garcia-Beltran WF, Sulak M, Jabri B, Lynch VJ, Altfeld M, Hildebrand WH, Adams EJ
Immunity 46 1018-1029.e7 (2017)
PMID: 28636952

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-151749 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
HLA class I histocompatibility antigen, alpha chain F Chain: A
Molecule details ›
Chain: A
Length: 284 amino acids
Theoretical weight: 32.77 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P30511 (Residues: 22-305; Coverage: 87%)
Gene names: HLA-5.4, HLA-F, HLAF
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 182 amino acids
Theoretical weight: 20.06 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Leukocyte immunoglobulin-like receptor subfamily B member 1 Chain: D
Molecule details ›
Chain: D
Length: 267 amino acids
Theoretical weight: 29.47 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q8NHL6 (Residues: 24-221; Coverage: 32%)
Gene names: ILT2, LILRB1, LIR1, MIR7
Sequence domains: Immunoglobulin domain
Structure domains: Immunoglobulins
Peptide ILE-LEU-ARG-TRP-GLU-GLN Chain: N
Molecule details ›
Chain: N
Length: 6 amino acids
Theoretical weight: 845 Da
Source organism: Trichoplusia ni
Expression system: Trichoplusia ni

Ligands and Environments

1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P622
Unit cell:
a: 231.82Å b: 231.82Å c: 73.25Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.305 0.303 0.326
Expression system: Trichoplusia ni

Quick links

Citations

25 review citations

Engineering universal cells that evade immune detection.
Lanza et al. (2019)
24 more

5 mentions without citation

Human Leukocyte Antigen F Presents Peptides and Regulates Immunity through Interactions with NK Cell Receptors.
Dulberger et al. (2017)
4 more