› 2x4n

X-ray diffraction
2.34Å resolution

Crystal structure of MHC CLass I HLA-A2.1 bound to residual fragments of a photocleavable peptide that is cleaved upon UV-light treatment

Released:
DOI: 10.2210/pdb2x4n/pdb
PDB entry 2x4n coloured by chain, front view.
PDB entry 2x4n coloured by chain, side view.
PDB entry 2x4n coloured by chain, top view.
Source organisms:
Primary publication:
UV-induced ligand exchange in MHC class I protein crystals.
Celie PH, Toebes M, Rodenko B, Ovaa H, Perrakis A, Schumacher TN
J Am Chem Soc 131 12298-304 (2009)
PMID: 19655750

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-137740 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class I histocompatibility antigen, A alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 275 amino acids
Theoretical weight: 31.85 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04439 (Residues: 25-299; Coverage: 81%)
Gene names: HLA-A, HLAA
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, E
Molecule details ›
Chains: B, E
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
HLA-A2.1-RESTRICTED INFLUENZA A MATRIX EPITOPE Chains: C, F
Molecule details ›
Chains: C, F
Length: 9 amino acids
Theoretical weight: 1.15 KDa
Source organism: Influenza A virus
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand GOL 10 x GOL
Ligand MES 2 x MES
1 modified residue:
Ligand PRV 2 x PRV

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21
Unit cell:
a: 62.509Å b: 86.523Å c: 80.003Å
α: 90° β: 90.34° γ: 90°
R-values:
R R work R free
0.2 0.196 0.274
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

Single-cell analysis tools for drug discovery and development.
Heath et al. (2016)
4 more

1 mention without citation

Structures of peptide-free and partially loaded MHC class I molecules reveal mechanisms of peptide selection.
Anjanappa et al. (2020)