PDBe 5ggs

X-ray diffraction
2Å resolution

PD-1 in complex with pembrolizumab Fab

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
heavy chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 232 amino acids
Theoretical weight: 25.24 KDa
Source organism: Homo sapiens
Expression system: Not provided
Structure domains: Immunoglobulins
light chain Chains: B, D
Molecule details ›
Chains: B, D
Length: 218 amino acids
Theoretical weight: 23.77 KDa
Source organism: Homo sapiens
Expression system: Not provided
Structure domains: Immunoglobulins
Programmed cell death protein 1 Chains: Y, Z
Molecule details ›
Chains: Y, Z
Length: 123 amino acids
Theoretical weight: 13.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpARG4
UniProt:
  • Canonical: Q15116 (Residues: 26-148; Coverage: 46%)
Gene names: PD1, PDCD1
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 7A (6B, 6C1)
Spacegroup: P1
Unit cell:
a: 54.17Å b: 54.195Å c: 104.039Å
α: 105.69° β: 96.99° γ: 96.06°
R-values:
R R work R free
0.182 0.18 0.228
Expression systems:
  • Not provided
  • Escherichia coli-Pichia pastoris shuttle vector pPpARG4