› 2cii

X-ray diffraction
2.55Å resolution

The crystal structure of H-2Db complexed with a partial peptide epitope suggests an MHC Class I assembly-intermediate

Released:
DOI: 10.2210/pdb2cii/pdb
PDB entry 2cii coloured by chain, front view.
PDB entry 2cii coloured by chain, side view.
PDB entry 2cii coloured by chain, top view.
Source organisms:
Primary publication:
The crystal structure of H-2D(b) complexed with a partial peptide epitope suggests a major histocompatibility complex class I assembly intermediate.
Glithero A, Tormo J, Doering K, Kojima M, Jones EY, Elliott T
J Biol Chem 281 12699-704 (2006)
PMID: 16478731

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-135286 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, D-B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 275 amino acids
Theoretical weight: 31.93 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01899 (Residues: 25-299; Coverage: 81%)
Gene name: H2-D1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 99 amino acids
Theoretical weight: 11.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Nucleoprotein Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 949 Da
Source organism: Human respirovirus 1
Expression system: Not provided
UniProt:
  • Canonical: P26590 (Residues: 324-332; Coverage: 2%)
Gene names: N, NP

Ligands and Environments

1 bound ligand:
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX7.2
Spacegroup: P21
Unit cell:
a: 60.996Å b: 58.45Å c: 73.534Å
α: 90° β: 106.77° γ: 90°
R-values:
R R work R free
0.239 0.239 0.297
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation.
Wieczorek et al. (2017)
4 more

11 mentions without citation

A miR-21 hairpin structure-based gene knockdown vector.
Yue et al. (2010)
10 more