6FMC image
Deposition Date 2018-01-30
Release Date 2018-10-17
Last Version Date 2024-10-23
Entry Detail
PDB ID:
6FMC
Title:
Neuropilin1-b1 domain in complex with EG01377, 0.9 Angstrom structure
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
0.90 Å
R-Value Free:
0.13
R-Value Work:
0.10
R-Value Observed:
0.11
Space Group:
P 41
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Neuropilin-1
Gene (Uniprot):NRP1
Chain IDs:A
Chain Length:158
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Small Molecule Neuropilin-1 Antagonists Combine Antiangiogenic and Antitumor Activity with Immune Modulation through Reduction of Transforming Growth Factor Beta (TGF beta ) Production in Regulatory T-Cells.
J. Med. Chem. 61 4135 4154 (2018)
PMID: 29648813 DOI: 10.1021/acs.jmedchem.8b00210

Abstact

We report the design, synthesis, and biological evaluation of some potent small-molecule neuropilin-1 (NRP1) antagonists. NRP1 is implicated in the immune response to tumors, particularly in Treg cell fragility, required for PD1 checkpoint blockade. The design of these compounds was based on a previously identified compound EG00229. The design of these molecules was informed and supported by X-ray crystal structures. Compound 1 (EG01377) was identified as having properties suitable for further investigation. Compound 1 was then tested in several in vitro assays and was shown to have antiangiogenic, antimigratory, and antitumor effects. Remarkably, 1 was shown to be selective for NRP1 over the closely related protein NRP2. In purified Nrp1+, FoxP3+, and CD25+ populations of Tregs from mice, 1 was able to block a glioma-conditioned medium-induced increase in TGFβ production. This comprehensive characterization of a small-molecule NRP1 antagonist provides the basis for future in vivo studies.

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Primary Citation of related structures