# Design, synthesis and anti-breast cancer activity evaluation of 6,7-dihydro-5H-pyrrolo[3,4-d]pyrimidine-based PARP1/ATR dual inhibitors

**Authors:** Meng-Lan He, Zong-Hao Wang, Xia Yao, Lu-Lu Ye, Bo-Qun Du, Chen-Chen Wang, Yong-Hao Chen, Xiao-Xian Wang, Hui Luo, Yuan Gao, Xiang-Yang Ye

PMC · DOI: 10.1080/14756366.2026.2627053 · Journal of Enzyme Inhibition and Medicinal Chemistry · 2026-02-16

## TL;DR

This paper introduces a new compound that inhibits two proteins involved in breast cancer, showing strong anti-cancer effects in lab tests.

## Contribution

A novel dual PARP1/ATR inhibitor compound with superior anti-breast cancer activity compared to existing treatments is developed.

## Key findings

- Compound 38a potently inhibits PARP1 and ATR with IC50 < 20 nM.
- 38a shows strong antitumor effects in breast cancer cell lines MDA-MB-231 and MDA-MB-468.
- 38a outperforms the combination of Niraparib and AZD6738 in cell cycle arrest and DNA repair suppression.

## Abstract

PARP1 inhibitors are FDA-approved for BRCA1/2-mutated breast cancer but show limited efficacy in wild-type cancers and face resistance issues. To overcome these, we designed novel 6,7-dihydro-5H-pyrrolo[3,4-d]pyrimidine-based compounds integrating PARP1 inhibitor pharmacophores with the ATR inhibitor AZD6738 scaffold. Substituent modifications influenced PARP1 and ATR selectivity, yielding dual inhibitors or selective PARP1 inhibitors. Compound 38a, the lead candidate, exhibited potent dual inhibition (IC50 < 20 nM) and strong antitumor effects in MDA-MB-231 (IC50 < 0.048 μM) and MDA-MB-468 (IC50: 0.01 μM) cell lines in vitro. Mechanistically, 38a arrested cell cycle progression, induced apoptosis, inhibited colony formation and migration, and suppressed DNA damage repair pathways, outperforming combined Niraparib and AZD6738. These findings underscore the therapeutic potential of PARP1/ATR dual inhibitors for breast cancer and support further investigation.

## Linked entities

- **Genes:** BRCA1 (BRCA1 DNA repair associated) [NCBI Gene 672], BRCA2 (BRCA2 DNA repair associated) [NCBI Gene 675]
- **Proteins:** PARP1 (poly(ADP-ribose) polymerase 1), ATR (ATR checkpoint kinase)
- **Chemicals:** Niraparib (PubChem CID 24958200), AZD6738 (PubChem CID 54761306)
- **Diseases:** breast cancer (MONDO:0004989)

## Full-text entities

- **Genes:** BCL2 (BCL2 apoptosis regulator) [NCBI Gene 596] {aka Bcl-2, PPP1R50}, MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}, PARP2 (poly(ADP-ribose) polymerase 2) [NCBI Gene 10038] {aka ADPRT2, ADPRTL2, ADPRTL3, ARTD2, PARP-2, pADPRT-2}, CHEK1 (checkpoint kinase 1) [NCBI Gene 1111] {aka CHK1, OZEMA21}, PRKDC (protein kinase, DNA-activated, catalytic subunit) [NCBI Gene 5591] {aka DNA-PKC, DNA-PKcs, DNAPK, DNAPKc, DNPK1, HYRC}, PIK3CA (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha) [NCBI Gene 5290] {aka CCM4, CLAPO, CLOVE, CWS5, HMH, MCAP}, H3P16 (H3 histone pseudogene 16) [NCBI Gene 644914] {aka H3.6, H3F3AP6, p21}, BRCA1 (BRCA1 DNA repair associated) [NCBI Gene 672] {aka BRCAI, BRCC1, BROVCA1, FANCS, IRIS, PNCA4}, RNASE1 (ribonuclease A family member 1, pancreatic) [NCBI Gene 6035] {aka RAC1, RIB1, RNS1}, BRD4 (bromodomain containing 4) [NCBI Gene 23476] {aka CAP, CDLS6, FSHRG4, HUNK1, HUNKI, MCAP}, BAX (BCL2 associated X, apoptosis regulator) [NCBI Gene 581] {aka BCL2L4}, ATM (ATM serine/threonine kinase) [NCBI Gene 472] {aka AT1, ATA, ATC, ATD, ATDC, ATE}, PARP1 (poly(ADP-ribose) polymerase 1) [NCBI Gene 142] {aka ADPRT, ADPRT 1, ADPRT1, ARTD1, PARP, PARP-1}, TIPARP (TCDD inducible poly(ADP-ribose) polymerase) [NCBI Gene 25976] {aka ARTD14, PARP7, pART14}, PARP12 (poly(ADP-ribose) polymerase family member 12) [NCBI Gene 64761] {aka ARTD12, MST109, MSTP109, ZC3H1, ZC3HDC1}, BLNK (B cell linker) [NCBI Gene 29760] {aka AGM4, BASH, BLNK-S, LY57, SLP-65, SLP65}, CASP3 (caspase 3) [NCBI Gene 836] {aka CPP32, CPP32B, SCA-1}, ATR (ATR checkpoint kinase) [NCBI Gene 545] {aka FCTCS, FRP1, MEC1, SCKL, SCKL1}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}
- **Diseases:** breast and ovarian cancers (MESH:D061325), ATM deficiency (MESH:D007153), Cytotoxicity (MESH:D064420), DDR (MESH:D049914), Breast cancer (MESH:D001943), TNBC (MESH:D064726), cancers (MESH:D009369), mutated (OMIM:613563)
- **Chemicals:** penicillin (MESH:D010406), Pamiparib (MESH:C000707927), silica (MESH:D012822), Fluzoparib (MESH:C000722917), benzyl bromide (MESH:C038682), K2CO3 (MESH:C037593), 18e (-), 2H (MESH:D003903), PI (MESH:D011419), 1,4-dioxane (MESH:C025223), NaHCO3 (MESH:D017693), Alexa Fluor 488 (MESH:C000711379), Elimusertib (MESH:C000711582), amine (MESH:D000588), Amino acid (MESH:D000596), Asp (MESH:D001224), Na2SO4 (MESH:C012036), THF (MESH:C018674), DIPEA (MESH:C027070), Olaparib (MESH:C531550), paraformaldehyde (MESH:C003043), Niraparib (MESH:C545685), LiOH (MESH:C028467), ATRi (MESH:C069225), morpholine (MESH:C037574), CO2 (MESH:D002245), DMSO (MESH:D004121), DAPI (MESH:C007293), Talazoparib (MESH:C586365), H (MESH:D006859), PVDF (MESH:C024865), PBS (MESH:D007854), Tween 20 (MESH:D011136), Berzosertib (MESH:C000598331), EDCI (MESH:D005022), Veliparib (MESH:C521013), NH3 (MESH:D000641), acid (MESH:D000143), methanol (MESH:D000432), 3H (MESH:D014316), silica gel (MESH:D058428), AZD6738 (MESH:C000611951), C (MESH:D002244), streptomycin (MESH:D013307), Triton X-100 (MESH:D017830), ester (MESH:D004952), CH3CN (MESH:C032159), CH2Cl2 (MESH:D008752), K3PO4 (MESH:C013216), carboxylic acid (MESH:D002264), nitrogen (MESH:D009584), HOBT (MESH:C011852), petroleum ether (MESH:C004544), Rucaparib (MESH:C531549), H2O (MESH:D014867), Pd (MESH:D010165), amide (MESH:D000577), HATU (MESH:C472082), 13C (MESH:C000615229), NaOH (MESH:D012972)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Mutations:** P0012S
- **Cell lines:** MDA-MB-231 — Homo sapiens (Human), Breast adenocarcinoma, Cancer cell line (CVCL_0062), MDA-MB-468 — Homo sapiens (Human), Breast adenocarcinoma, Cancer cell line (CVCL_0419)

## Full text

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## Figures

13 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12912221/full.md

## References

34 references — full list in the complete paper: https://tomesphere.com/paper/PMC12912221/full.md

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Source: https://tomesphere.com/paper/PMC12912221