2SEB image
Deposition Date 1997-10-16
Release Date 1998-01-28
Last Version Date 2024-10-23
Entry Detail
PDB ID:
2SEB
Keywords:
COMPLEX (MHC CLASS II/SUPERANTIGEN)
Title:
X-RAY CRYSTAL STRUCTURE OF HLA-DR4 COMPLEXED WITH A PEPTIDE FROM HUMAN COLLAGEN II
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Staphylococcus aureus (Taxon ID: 1280)
Host Organism:
Drosophila
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.50 Å
R-Value Free:
0.28
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 21 21 21
2SEB validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:HLA CLASS II HISTOCOMPATIBILITY ANTIGEN
Gene (Uniprot):HLA-DRA
Chain IDs:A
Chain Length:181
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P01903 Pfam ID:PF00993, PF07654
Protein Blast
Polymer Type:polypeptide(L)
Molecule:HLA CLASS II HISTOCOMPATIBILITY ANTIGEN
Chain IDs:B
Chain Length:192
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P01911 Pfam ID:PF00969, PF07654
Protein Blast
Polymer Type:polypeptide(L)
Molecule:ENTEROTOXIN TYPE B
Gene (Uniprot):entB
Chain IDs:C (auth: D)
Chain Length:239
Number of Molecules:1
Biological Source:Staphylococcus aureus
UniProt ID:P01552 Pfam ID:PF01123, PF02876
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PEPTIDE FROM COLLAGEN II
Gene (Uniprot):COL2A1
Chain IDs:D (auth: E)
Chain Length:12
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P02458
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN A ASN GLYCOSYLATION SITE
Ligand Molecules
NAG
Primary Citation
X-ray crystal structure of HLA-DR4 (DRA*0101, DRB1*0401) complexed with a peptide from human collagen II.
Immunity 7 473 481 (1997)
PMID: 9354468 DOI: 10.1016/S1074-7613(00)80369-6

Abstact

Genetic predisposition to rheumatoid arthritis (RA) is linked to the MHC class II allele HLA-DR4. The charge of the amino acid at DRbeta71 in the peptide-binding site appears to be critical in discriminating DR molecules linked to increased disease susceptibility. We have determined the 2.5 A x-ray structure of the DR4 molecule with the strongest linkage to RA (DRB1*0401) complexed with a human collagen II peptide. Details of a predicted salt bridge between lysine DRbeta71 and aspartic acid at the P4 peptide position suggest how it may participate in both antigen binding and TCR activation. A model is proposed for the DR4 recognition of collagen II (261-273), an antigen immunodominant in human-transgenic mouse models of RA.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
2SEB