› 4pge

X-ray diffraction
2Å resolution

MHC Class I in complex with modified Sendai virus nucleoprotein peptide FAPGNYPAW

Released:
DOI: 10.2210/pdb4pge/pdb
PDB entry 4pge coloured by chain, front view.
PDB entry 4pge coloured by chain, side view.
PDB entry 4pge coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
The first step of peptide selection in antigen presentation by MHC class I molecules.
Garstka MA, Fish A, Celie PH, Joosten RP, Janssen GM, Berlin I, Hoppes R, Stadnik M, Janssen L, Ovaa H, van Veelen PA, Perrakis A, Neefjes J
Proc Natl Acad Sci U S A 112 1505-10 (2015)
PMID: 25605945

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-129584 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, K-B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 304 amino acids
Theoretical weight: 34.96 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01901 (Residues: 22-299; Coverage: 80%)
Gene names: H2-K, H2-K1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 100 amino acids
Theoretical weight: 11.84 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Nucleoprotein Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.02 KDa
UniProt:
  • Canonical: O57286 (Residues: 324-333; Coverage: 2%)
Gene names: N, NP

Ligands and Environments

2 bound ligands:
Ligand GOL 6 x GOL
Ligand MPD 2 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21212
Unit cell:
a: 87.933Å b: 136.665Å c: 45.231Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.201 0.234
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

8 review citations

Present Yourself! By MHC Class I and MHC Class II Molecules.
Rock et al. (2016)
7 more

2 mentions without citation

The first step of peptide selection in antigen presentation by MHC class I molecules.
Garstka et al. (2015)
1 more