# New pyrimidine derivatives as potential agents against hepatocellular carcinoma: design, synthesis, and in vitro and in vivo biological evaluations

**Authors:** Jeanluc Bertrand, Ignacio Montorfano, Ramón Pérez-Castro, Ricardo Valdés-Valdés, Jacqueline Romero, Thalía Delgado, Iván Brito, Juan F. Santibáñez, Alan R. Cabrera, María Paola Vieytes, Javier Echeverría, Cristian O. Salas, César Echeverría

PMC · DOI: 10.3389/fphar.2026.1745214 · Frontiers in Pharmacology · 2026-01-30

## TL;DR

Researchers designed and tested new pyrimidine compounds that show promise as safer and more effective treatments for liver cancer compared to existing drugs.

## Contribution

A new series of pyrimidine derivatives was synthesized and shown to have improved selectivity and reduced toxicity for treating hepatocellular carcinoma.

## Key findings

- Compound 6e demonstrated strong antitumor activity with an IC50 of 5.6 µM and higher selectivity for HCC cells.
- Compound 6e induced apoptosis in HepG2 cells through caspase activation and ROS accumulation.
- Compound 6e reduced tumor growth in a mouse xenograft model at a low dose of 1 mg/kg.

## Abstract

Sorafenib is a tyrosine kinase inhibitor (TKI) used to treat hepatocellular carcinoma (HCC), but this drug causes clinically significant toxicities in approximately 50% of patients. Given the high frequency and severity of these side effects, it is necessary to develop new, safer drugs to treat this cancer.

Novel 2,6,9-trisubstituted pyrimidine derivatives were synthesised and evaluated as potential antitumour agents for HCC.

Twelve compounds (6a–l) were obtained by a four-step synthetic procedure using a simple and efficient methodology in which two key reactions were promoted by microwave irradiation. Subsequently, compounds 6a–l were evaluated in vitro for cytotoxic activity against the HCC cell line HepG2 and other cell lines; in vivo in the HepG2 xenograft tumour model; and in silico (docking and dynamic simulations).

Compound 6e proved to be the most promising of this series (IC50 = 5.6 µM), as well as being more index selective than sorafenib and with lower cytotoxicity in Vero cells (18.92 µM). In addition, 6e was further evaluated in Huh-7 cells and demonstrated selectivity for HCC. Docking studies on the proposed targets, VEGFR-2 and B-raf, indicated that 6e could bind to them with binding energies and interaction patterns similar to those of sorafenib. The 6e interaction pattern at the VEGFR-2 binding site was corroborated by dynamic studies over 100 ns. A possible mechanism of 6e-induced HepG2 cell death was investigated. Experiments on caspases-3, -7, -8, -9, Apaf-1, Cyt-c, ERK1/2, and p53 showed that they were all activated, whereas Bcl-2 was inhibited by 6e in HepG2 cells. Furthermore, 6e induced the accumulation of reactive oxygen species (ROS) in HepG2 cells. These results suggest that apoptosis in HepG2 was caused by: (i) a caspase-dependent pathway and (ii) changes in the cellular levels of Bcl-2 family proteins and ROS. In addition, 6e attenuated the growth of HepG2 xenograft tumours in mice at a dose of 1 mg/kg for 3 weeks.

Based on these results, this pyrimidine derivative could be an interesting compound for the design of new agents against HCC.

## Linked entities

- **Genes:** KDR (kinase insert domain receptor) [NCBI Gene 3791], BRAF (B-Raf proto-oncogene, serine/threonine kinase) [NCBI Gene 673], APAF1 (apoptotic peptidase activating factor 1) [NCBI Gene 317], CytC (mitochondrial cytochrome C) [NCBI Gene 408270], erk1/2 (mitogen-activated protein kinase) [NCBI Gene 778596], TP53 (tumor protein p53) [NCBI Gene 7157], BCL2 (BCL2 apoptosis regulator) [NCBI Gene 596]
- **Chemicals:** Sorafenib (PubChem CID 216239)
- **Diseases:** hepatocellular carcinoma (MONDO:0007256), HCC (MONDO:0007256)
- **Species:** Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, BRAF (B-Raf proto-oncogene, serine/threonine kinase) [NCBI Gene 673] {aka B-RAF1, B-raf, BRAF-1, BRAF1, NS7, RAFB1}, TXK (TXK tyrosine kinase) [NCBI Gene 7294] {aka BTKL, PSCTK5, PTK4, RLK, TKL}, APAF1 (apoptotic peptidase activating factor 1) [NCBI Gene 317] {aka APAF-1, CED4}, KDR (kinase insert domain receptor) [NCBI Gene 3791] {aka CD309, FLK1, VEGFR, VEGFR2}, BCL2 (BCL2 apoptosis regulator) [NCBI Gene 596] {aka Bcl-2, PPP1R50}
- **Diseases:** cancer (MESH:D009369), HCC (MESH:D006528), cytotoxicity (MESH:D064420)
- **Chemicals:** pyrimidine (MESH:C030986), Sorafenib (MESH:D000077157), ROS (MESH:D017382), 2,6,9-trisubstituted pyrimidine (-)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]

## Full text

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## Figures

14 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12901390/full.md

## References

63 references — full list in the complete paper: https://tomesphere.com/paper/PMC12901390/full.md

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Source: https://tomesphere.com/paper/PMC12901390