› 4o2f

X-ray diffraction
1.9Å resolution

A peptide complexed with HLA-B*3901

Released:
DOI: 10.2210/pdb4o2f/pdb
PDB entry 4o2f coloured by chain, front view.
PDB entry 4o2f coloured by chain, side view.
PDB entry 4o2f coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Nα-terminal acetylation for T cell recognition: molecular basis of MHC class I-restricted nα-acetylpeptide presentation.
Sun M, Liu J, Qi J, Tefsen B, Shi Y, Yan J, Gao GF
J Immunol 192 5509-19 (2014)
PMID: 24829406

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-126357 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class I histocompatibility antigen, B alpha chain Chains: A, D
Molecule details ›
Chains: A, D
Length: 274 amino acids
Theoretical weight: 31.71 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01889 (Residues: 25-298; Coverage: 81%)
Gene names: HLA-B, HLAB
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, E
Molecule details ›
Chains: B, E
Length: 99 amino acids
Theoretical weight: 11.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
ATP-dependent RNA helicase DDX3X Chains: C, F
Molecule details ›
Chains: C, F
Length: 8 amino acids
Theoretical weight: 853 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: O00571 (Residues: 3-10; Coverage: 1%)
Gene names: DBX, DDX3, DDX3X

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 78.369Å b: 95.918Å c: 122.93Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.187 0.185 0.213
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Empirical and Rational Design of T Cell Receptor-Based Immunotherapies.
Jones et al. (2020)
1 more

1 mention without citation

Host DDX Helicases as Possible SARS-CoV-2 Proviral Factors: A Structural Overview of Their Hijacking Through Multiple Viral Proteins.
Squeglia et al. (2020)