› 5ieh

X-ray diffraction
1.5Å resolution

Structure of HLA-B*40:02 in complex with the phosphorylated endogenous peptide REF(p)SKEPEL

Released:
DOI: 10.2210/pdb5ieh/pdb
PDB entry 5ieh coloured by chain, front view.
PDB entry 5ieh coloured by chain, side view.
PDB entry 5ieh coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Alpizar A, Marcilla M, Santiago C

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-135260 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
HLA class I histocompatibility antigen, B alpha chain Chain: A
Molecule details ›
Chain: A
Length: 277 amino acids
Theoretical weight: 32.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01889 (Residues: 25-300; Coverage: 82%)
Gene names: HLA-B, HLAB
Sequence domains:
Structure domains:
Beta-2-microglobulin Chain: B
Molecule details ›
Chain: B
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
Inner centromere protein Chain: C
Molecule details ›
Chain: C
Length: 9 amino acids
Theoretical weight: 1.22 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q9NQS7 (Residues: 47-55; Coverage: 1%)
Gene name: INCENP

Ligands and Environments

1 bound ligand:
Ligand EDO 1 x EDO
1 modified residue:
Ligand SEP 1 x SEP

Experiments and Validation Details

Entry percentile scores
X-ray source: ALBA BEAMLINE XALOC
Spacegroup: P212121
Unit cell:
a: 51.044Å b: 82.249Å c: 110.084Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.161 0.183
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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