9QSM image
Deposition Date 2025-04-05
Release Date 2026-02-18
Last Version Date 2026-02-25
Entry Detail
PDB ID:
9QSM
Keywords:
Title:
small molecule inhibitor in complex with PD-L1
Biological Source:
Source Organism(s):
Homo sapiens (Taxon ID: 9606)
Expression System(s):
Method Details:
Experimental Method:
Resolution:
1.75 Å
R-Value Free:
0.27
R-Value Work:
0.24
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Programmed cell death 1 ligan
Gene (Uniprot):CD274
Chain IDs:A, B, C, D, E, F
Chain Length:128
Number of Molecules:6
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
N-terphenylpicolinamide derivatives designed to target PD-L1 increase activation and proliferation of T cells, and their cytotoxic properties toward cancer cells.
Eur J Med Chem 307 118652 118652 (2026)
PMID: 41691995 DOI: 10.1016/j.ejmech.2026.118652

Abstact

Programmed Cell Death Protein-1 (PD-1)/Programmed Cell Death-Ligand 1 (PD-L1) interaction has a crucial role in maintaining the immune system's self-tolerance by downregulating T cell activation. This mechanism is also used by several types of cancers. By overexpressing the PD-L1 protein, cancer cells can evade the immune response and, therefore, become invisible to the immune system. Herein, we present a detailed characterization of the activity of improved N-terphenylpicolinamides, a class of small molecular blockers targeting the PD-L1 protein disclosed in our recent patent and following patent applications. In our studies, we utilized a cell-based structure-activity relationship (SAR) analysis, which allowed us to discriminate the bioactivity of molecules beyond the detection limits of the protein-based HTRF assay. Our final molecules display high affinity to the molecular target and in vitro bioactivity approaching the activity of a positive control ARB-272572 molecule. An optimized molecule activates primary immune cells, leading to enhanced elimination of cancer cells, as we show in a newly developed co-culture setup. In addition, a co-crystal structure described here confirms the intended mode of binding of the small molecule to PD-L1. Our pharmacokinetics (PK) results rationalize the choice of a representative molecule for further in vivo testing.

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Primary Citation of related structures
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