1HDM

HISTOCOMPATIBILITY ANTIGEN HLA-DM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure of HLA-DM, the peptide exchange catalyst that loads antigen onto class II MHC molecules during antigen presentation.

Mosyak, L.Zaller, D.M.Wiley, D.C.

(1998) Immunity 9: 377-383


  • PubMed Abstract: 
  • The three-dimensional structure of the soluble ecto-domain of HLA-DM has been determined to 2.5 A resolution by X-ray crystallography. HLA-DM has both peptide exchange activity and acts as a chaperone to peptide-free class II MHC molecules. As predic ...

    The three-dimensional structure of the soluble ecto-domain of HLA-DM has been determined to 2.5 A resolution by X-ray crystallography. HLA-DM has both peptide exchange activity and acts as a chaperone to peptide-free class II MHC molecules. As predicted, the structure is similar to that of classical class II MHC molecules except that the peptide-binding site is altered to an almost fully closed groove. An unusual cavity is found at the center of the region that binds peptides in class II MHC molecules, and a tryptophanrich lateral surface is identified that is a candidate both for binding to HLA-DR, to effect catalysis, and to HLA-DO, an inhibitor.


    Organizational Affiliation

    Department of Cellular and Molecular Biology, Howard Hughes Medical Institute, Harvard University, Cambridge, Massachusetts 02138, USA. mosyak@crystal.harvard.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (CLASS II HISTOCOMPATIBILITY ANTIGEN, M ALPHA CHAIN)
A
201Homo sapiensGene Names: HLA-DMA (DMA, RING6)
Find proteins for P28067 (Homo sapiens)
Go to Gene View: HLA-DMA
Go to UniProtKB:  P28067
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (CLASS II HISTOCOMPATIBILITY ANTIGEN, M BETA CHAIN)
B
193Homo sapiensGene Names: HLA-DMB (DMB, RING7)
Find proteins for P28068 (Homo sapiens)
Go to Gene View: HLA-DMB
Go to UniProtKB:  P28068
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.197 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 95.390α = 90.00
b = 109.930β = 90.00
c = 105.120γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
AMoREphasing
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-09-10
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance