ISDA

Deposition Date 2006-03-21

Release Date 2006-03-29

Last Version Date 2024-10-16

Entry Detail

PDB ID:

2CII

Keywords:

IMMUNE SYSTEM/PEPTIDE

Title:

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

Biological Source:

Source Organism:

MUS MUSCULUS (Taxon ID: 10090)
HOMO SAPIENS (Taxon ID: 9606)
HUMAN PARAINFLUENZA 1 VIRUS (Taxon ID: 12730)

Host Organism:

ESCHERICHIA COLI BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.55 Å

R-Value Free:

0.29

R-Value Work:

0.23

R-Value Observed:

0.23

Space Group:

P 1 21 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN D-B ALPHA CHAIN
Gene (Uniprot):H2-D1
Chain IDs:A
Chain Length:275
Number of Molecules:1
Biological Source:MUS MUSCULUS

UniProt ID:P01899 Pfam ID:PF00129, PF07654

Protein Blast

Polymer Type:polypeptide(L)
Molecule:BETA-2-MICROGLOBULIN
Gene (Uniprot):B2M
Chain IDs:B
Chain Length:99
Number of Molecules:1
Biological Source:HOMO SAPIENS

UniProt ID:P61769 Pfam ID:PF07654

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NUCLEOPROTEIN
Gene (Uniprot):N
Chain IDs:C
Chain Length:9
Number of Molecules:1
Biological Source:HUMAN PARAINFLUENZA 1 VIRUS

UniProt ID:P26590

Ligand Molecules

GOL

Primary Citation

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, E.Y, Elliott, T.Show

J. Biol. Chem. 281 12699 12704 (2006)

PMID: 16478731 DOI: 10.1074/jbc.M511683200

Abstact

In the absence of bound peptide ligands, major histocompatibility complex (MHC) class I molecules are unstable. In an attempt to determine the minimum requirement for peptide-dependent MHC class I stabilization, we have used short synthetic peptides derived from the Sendai virus nucleoprotein epitope (residues 324-332, 1FAPGNYPAL9) to promote its folding in vitro of H-2D(b). We found that H-2D(b) can be stabilized by the pentapeptide 5NYPAL9, which is equivalent to the C-terminal portion of the optimal nonapeptide and includes both the P5 and P9 anchor residues. We have crystallized the complex of the H-2D(b) molecule with the pentamer and determined the structure to show how a quasi-stable MHC class I molecule can be formed by occupancy of a single binding pocket in the peptide-binding groove.

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Primary Citation of related structures