The peptide-receptive transition state of MHC class I molecules: insight from structure and molecular dynamics

J Immunol. 2012 Aug 1;189(3):1391-9. doi: 10.4049/jimmunol.1200831. Epub 2012 Jun 29.

Abstract

MHC class I (MHC-I) proteins of the adaptive immune system require antigenic peptides for maintenance of mature conformation and immune function via specific recognition by MHC-I-restricted CD8(+) T lymphocytes. New MHC-I molecules in the endoplasmic reticulum are held by chaperones in a peptide-receptive (PR) transition state pending release by tightly binding peptides. In this study, we show, by crystallographic, docking, and molecular dynamics methods, dramatic movement of a hinged unit containing a conserved 3(10) helix that flips from an exposed "open" position in the PR transition state to a "closed" position with buried hydrophobic side chains in the peptide-loaded mature molecule. Crystallography of hinged unit residues 46-53 of murine H-2L(d) MHC-I H chain, complexed with mAb 64-3-7, demonstrates solvent exposure of these residues in the PR conformation. Docking and molecular dynamics predict how this segment moves to help form the A and B pockets crucial for the tight peptide binding needed for stability of the mature peptide-loaded conformation, chaperone dissociation, and Ag presentation.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, N.I.H., Intramural

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Crystallography, X-Ray
  • H-2 Antigens / chemistry
  • H-2 Antigens / metabolism*
  • Histocompatibility Antigen H-2D
  • Humans
  • Ligands
  • Mice
  • Molecular Dynamics Simulation*
  • Molecular Sequence Data
  • Peptide Fragments / chemistry
  • Peptide Fragments / metabolism*
  • Structure-Activity Relationship
  • beta 2-Microglobulin / chemistry
  • beta 2-Microglobulin / metabolism

Substances

  • H-2 Antigens
  • Histocompatibility Antigen H-2D
  • Ligands
  • Peptide Fragments
  • beta 2-Microglobulin

Associated data

  • PDB/3UO1
  • PDB/3UYR
  • PDB/3V4U
  • PDB/3V52