› 6irl

X-ray diffraction
2.1Å resolution

Crystal structure of 8-mer peptide from avian influenza H5N1 virus in complex with BF2*1501

Released:
DOI: 10.2210/pdb6irl/pdb
PDB entry 6irl coloured by chain, front view.
PDB entry 6irl coloured by chain, side view.
PDB entry 6irl coloured by chain, top view.
Source organisms:
Primary publication:
Structures of the MHC-I molecule BF2*1501 disclose the preferred presentation of an H5N1 virus-derived epitope.
Li X, Zhang L, Liu Y, Ma L, Zhang N, Xia C
J Biol Chem 295 5292-5306 (2020)
PMID: 32152225

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-149332 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 273 amino acids
Theoretical weight: 31.07 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9GIP6 (Residues: 22-291; Coverage: 81%)
Gene name: BF2
Sequence domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 101 amino acids
Theoretical weight: 11.47 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli
UniProt:
  • Canonical: P21611 (Residues: 22-119; Coverage: 100%)
Gene name: B2M
Sequence domains: Immunoglobulin C1-set domain
Polymerase acidic protein Chain: C
Molecule details ›
Chain: C
Length: 8 amino acids
Theoretical weight: 1.13 KDa
Source organism: Influenza A virus (A/Chicken/Hong Kong/715.5/01 (H5N1))
Expression system: Not provided
UniProt:
  • Canonical: Q809J3 (Residues: 124-131; Coverage: 1%)
Gene name: PA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 47.103Å b: 75.009Å c: 101.896Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.217
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

From Chickens to Humans: The Importance of Peptide Repertoires for MHC Class I Alleles.
Kaufman J. (2020)
1 more

3 mentions without citation

New vistas unfold: Chicken MHC molecules reveal unexpected ways to present peptides to the immune system.
Halabi et al. (2022)
2 more