› 3qxd

X-ray diffraction
2.3Å resolution

F54C HLA-DR1 bound with CLIP peptide

Released:
DOI: 10.2210/pdb3qxd/pdb
PDB entry 3qxd coloured by chain, front view.
PDB entry 3qxd coloured by chain, side view.
PDB entry 3qxd coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Conformational lability in the class II MHC 310 helix and adjacent extended strand dictate HLA-DM susceptibility and peptide exchange.
Painter CA, Negroni MP, Kellersberger KA, Zavala-Ruiz Z, Evans JE, Stern LJ
Proc Natl Acad Sci U S A 108 19329-34 (2011)
PMID: 22084083

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-525851 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class II histocompatibility antigen, DR alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 182 amino acids
Theoretical weight: 21.11 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01903 (Residues: 26-207; Coverage: 80%)
Gene names: HLA-DRA, HLA-DRA1
Sequence domains:
Structure domains:
HLA class II histocompatibility antigen, DRB1 beta chain Chains: B, E
Molecule details ›
Chains: B, E
Length: 190 amino acids
Theoretical weight: 22.08 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01911 (Residues: 30-219; Coverage: 80%)
Gene name: HLA-DRB1
Sequence domains:
Structure domains:
Class-II-associated invariant chain peptide Chains: C, F
Molecule details ›
Chains: C, F
Length: 15 amino acids
Theoretical weight: 1.68 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P04233 (Residues: 103-117; Coverage: 5%)
Gene names: CD74, DHLAG

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 65.001Å b: 94.87Å c: 154.09Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.189 0.221
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

17 review citations

HLA-DM and HLA-DO, key regulators of MHC-II processing and presentation.
Mellins et al. (2014)
16 more

4 mentions without citation

Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation.
Wieczorek et al. (2017)
3 more