› 2seb

X-ray diffraction
2.5Å resolution

X-RAY CRYSTAL STRUCTURE OF HLA-DR4 COMPLEXED WITH A PEPTIDE FROM HUMAN COLLAGEN II

Released:
DOI: 10.2210/pdb2seb/pdb
PDB entry 2seb coloured by chain, front view.
PDB entry 2seb coloured by chain, side view.
PDB entry 2seb coloured by chain, top view.
Source organisms:
Primary publication:
X-ray crystal structure of HLA-DR4 (DRA*0101, DRB1*0401) complexed with a peptide from human collagen II.
Dessen A, Lawrence CM, Cupo S, Zaller DM, Wiley DC
Immunity 7 473-81 (1997)
PMID: 9354468

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-134365 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
HLA class II histocompatibility antigen, DR alpha chain Chain: A
Molecule details ›
Chain: A
Length: 181 amino acids
Theoretical weight: 21.08 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: P01903 (Residues: 26-206; Coverage: 79%)
Gene names: HLA-DRA, HLA-DRA1
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DRB1 beta chain Chain: B
Molecule details ›
Chain: B
Length: 192 amino acids
Theoretical weight: 22.52 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: P01911 (Residues: 30-221; Coverage: 81%)
Gene name: HLA-DRB1
Sequence domains:
Structure domains:
Enterotoxin type B Chain: D
Molecule details ›
Chain: D
Length: 239 amino acids
Theoretical weight: 28.41 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: P01552 (Residues: 28-266; Coverage: 100%)
Gene name: entB
Sequence domains:
Structure domains:
Chondrocalcin Chain: E
Molecule details ›
Chain: E
Length: 12 amino acids
Theoretical weight: 1.13 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P02458 (Residues: 1238-1247; Coverage: 1%)
Gene name: COL2A1

Ligands and Environments

1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F1
Spacegroup: P212121
Unit cell:
a: 78.53Å b: 100.28Å c: 100.87Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.229 0.28
Expression system: Drosophila

Quick links

Citations

47 review citations

Structural basis of T cell recognition.
Garcia et al. (1999)
46 more

53 mentions without citation

Yeast surface display for protein engineering and characterization.
Gai et al. (2007)
52 more