› 1ddh

X-ray diffraction
3.1Å resolution

MHC CLASS I H-2DD HEAVY CHAIN COMPLEXED WITH BETA-2 MICROGLOBULIN AND AN IMMUNODOMINANT PEPTIDE P18-I10 FROM THE HUMAN IMMUNODEFICIENCY VIRUS ENVELOPE GLYCOPROTEIN 120

Released:
DOI: 10.2210/pdb1ddh/pdb
PDB entry 1ddh coloured by chain, front view.
PDB entry 1ddh coloured by chain, side view.
PDB entry 1ddh coloured by chain, top view.
Source organisms:
Primary publication:
Three-dimensional structure of H-2Dd complexed with an immunodominant peptide from human immunodeficiency virus envelope glycoprotein 120.
Li H, Natarajan K, Malchiodi EL, Margulies DH, Mariuzza RA
J Mol Biol 283 179-91 (1998)
PMID: 9761682

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-135030 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
H-2 class I histocompatibility antigen, D-D alpha chain Chain: A
Molecule details ›
Chain: A
Length: 274 amino acids
Theoretical weight: 31.86 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01900 (Residues: 26-298; Coverage: 80%)
Gene name: H2-D1
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
Length: 99 amino acids
Theoretical weight: 11.68 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Surface protein gp120 Chain: P
Molecule details ›
Chain: P
Length: 10 amino acids
Theoretical weight: 1.08 KDa
Source organism: Human immunodeficiency virus 1
Expression system: Not provided
UniProt:
  • Canonical: P04582 (Residues: 311-320; Coverage: 1%)
Gene name: env

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-1
Spacegroup: P212121
Unit cell:
a: 51.33Å b: 91.35Å c: 108.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.229 0.337
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

4 review citations

MHC superfamily structure and the immune system.
Maenaka et al. (1999)
3 more

4 mentions without citation

Structural basis of the CD8 alpha beta/MHC class I interaction: focused recognition orients CD8 beta to a T cell proximal position.
Wang et al. (2009)
3 more