› 6lf8

X-ray diffraction
2.5Å resolution

Crystal structure of pSLA-1*0401 complex with dodecapeptide RVEDVTNTAEYW

Released:
DOI: 10.2210/pdb6lf8/pdb
PDB entry 6lf8 coloured by chain, front view.
PDB entry 6lf8 coloured by chain, side view.
PDB entry 6lf8 coloured by chain, top view.
Source organisms:
Primary publication:
Structure and Peptidomes of Swine MHC Class I with Long Peptides Reveal the Cross-Species Characteristics of the Novel N-Terminal Extension Presentation Mode.
Wei X, Wang S, Wang S, Xie X, Zhang N
J Immunol 208 480-491 (2022)
PMID: 34937745

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-127597 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 275 amino acids
Theoretical weight: 31.68 KDa
Source organism: Sus scrofa
Expression system: Escherichia coli
UniProt:
  • Canonical: O19244 (Residues: 22-296; Coverage: 81%)
Gene names: PD1, SLA-1
Sequence domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 97 amino acids
Theoretical weight: 11.33 KDa
Source organism: Sus scrofa
Expression system: Escherichia coli
UniProt:
  • Canonical: Q07717 (Residues: 22-118; Coverage: 99%)
Gene name: B2M
Sequence domains: Immunoglobulin C1-set domain
Surface protein Chain: C
Molecule details ›
Chain: C
Length: 12 amino acids
Theoretical weight: 1.48 KDa
Source organism: unidentified influenza virus
Expression system: Not provided
UniProt:
  • Canonical: P16082 (Residues: 195-206; Coverage: 1%)
Gene name: env

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: C2
Unit cell:
a: 217.15Å b: 45.28Å c: 44.9Å
α: 90° β: 90.45° γ: 90°
R-values:
R R work R free
0.252 0.25 0.285
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

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

1 mention without citation

Peptidomes and Structures Illustrate How SLA-I Micropolymorphism Influences the Preference of Binding Peptide Length.
Wei et al. (2022)