› 5j8o

X-ray diffraction
2.3Å resolution

Structure of human Programmed cell death 1 ligand 1 (PD-L1) with low molecular mass inhibitor

Released:
DOI: 10.2210/pdb5j8o/pdb
PDB entry 5j8o coloured by chain, front view.
PDB entry 5j8o coloured by chain, side view.
PDB entry 5j8o coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for small molecule targeting of the programmed death ligand 1 (PD-L1).
Zak KM, Grudnik P, Guzik K, Zieba BJ, Musielak B, Dömling A, Dubin G, Holak TA
Oncotarget 7 30323-35 (2016)
PMID: 27083005

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192784 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Programmed cell death 1 ligand 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 124 amino acids
Theoretical weight: 14.13 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9NZQ7 (Residues: 18-134; Coverage: 43%)
Gene names: B7H1, CD274, PDCD1L1, PDCD1LG1, PDL1
Sequence domains: Immunoglobulin V-set domain
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand 6GZ 1 x 6GZ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Unit cell:
a: 34.313Å b: 55.182Å c: 141.773Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.244 0.241 0.305
Expression system: Escherichia coli

Quick links

Citations

26 review citations

Revisiting the PD-1 pathway.
Patsoukis et al. (2020)
25 more

20 mentions without citation

Development of the Inhibitors that Target the PD-1/PD-L1 Interaction-A Brief Look at Progress on Small Molecules, Peptides and Macrocycles.
Guzik et al. (2019)
19 more