› 3fol

X-ray diffraction
2.5Å resolution

Crystal structure of the Class I MHC Molecule H-2Kwm7 with a Single Self Peptide VNDIFERI

Released:
DOI: 10.2210/pdb3fol/pdb
PDB entry 3fol coloured by chain, front view.
PDB entry 3fol coloured by chain, side view.
PDB entry 3fol coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Predominant occupation of the class I MHC molecule H-2Kwm7 with a single self-peptide suggests a mechanism for its diabetes-protective effect.
Brims DR, Qian J, Jarchum I, Mikesh L, Palmieri E, Ramagopal UA, Malashkevich VN, Chaparro RJ, Lund T, Hattori M, Shabanowitz J, Hunt DF, Nathenson SG, Almo SC, Dilorenzo TP
Int Immunol 22 191-203 (2010)
PMID: 20093428

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-238511 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 274 amino acids
Theoretical weight: 31.49 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: D2YW38 (Residues: 1-274; Coverage: 100%)
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
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
8 residue synthetic peptide Chain: P
Molecule details ›
Chain: P
Length: 8 amino acids
Theoretical weight: 1.01 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: C2
Unit cell:
a: 117.393Å b: 66.63Å c: 56.211Å
α: 90° β: 93.66° γ: 90°
R-values:
R R work R free
0.196 0.192 0.261
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Use of nonobese diabetic mice to understand human type 1 diabetes.
Thayer et al. (2010)
1 other article

3 mentions without citation

Structural Comparison Between MHC Classes I and II; in Evolution, a Class-II-Like Molecule Probably Came First.
Wu et al. (2021)
2 more