› 3i6k

X-ray diffraction
2.8Å resolution

Newly identified epitope from SARS-CoV membrane protein complexed with HLA-A*0201

Released:
DOI: 10.2210/pdb3i6k/pdb
PDB entry 3i6k coloured by chain, front view.
PDB entry 3i6k coloured by chain, side view.
PDB entry 3i6k coloured by chain, top view.
Source organisms:
Primary publication:
The membrane protein of severe acute respiratory syndrome coronavirus acts as a dominant immunogen revealed by a clustering region of novel functionally and structurally defined cytotoxic T-lymphocyte epitopes.
Liu J, Sun Y, Qi J, Chu F, Wu H, Gao F, Li T, Yan J, Gao GF
J Infect Dis 202 1171-80 (2010)
PMID: 20831383

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-137700 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class I histocompatibility antigen, A alpha chain Chains: A, E
Molecule details ›
Chains: A, E
Length: 275 amino acids
Theoretical weight: 31.85 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04439 (Residues: 25-299; Coverage: 81%)
Gene names: HLA-A, HLAA
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, F
Molecule details ›
Chains: B, F
Length: 100 amino acids
Theoretical weight: 11.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Membrane protein Chains: C, G
Molecule details ›
Chains: C, G
Length: 10 amino acids
Theoretical weight: 1.01 KDa
Source organism: SARS coronavirus TJF
Expression system: Not provided
UniProt:
  • Canonical: P59596 (Residues: 60-69; Coverage: 5%)
Gene names: 5, M

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 65.54Å b: 108.028Å c: 134.975Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.198 0.244
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

24 review citations

COVID-19 vaccines: The status and perspectives in delivery points of view.
Chung et al. (2021)
23 more

12 mentions without citation

T-cell immunity of SARS-CoV: Implications for vaccine development against MERS-CoV.
Liu et al. (2017)
11 more