# Scaffold Hopping-Guided Design of Novel PIM-1 Inhibitors with Anticancer Activities

**Authors:** Yabing Xin, Qian Wu, Yitong Gao, Can Xiao, Qidong You, Zhengyu Jiang, Mengchen Lu

PMC · DOI: 10.3390/molecules31040753 · Molecules · 2026-02-23

## TL;DR

Researchers designed new PIM-1 kinase inhibitors that show strong anticancer activity and drug-like properties.

## Contribution

A scaffold-hopping strategy led to the development of a novel PIM-1 inhibitor with potent activity and favorable stability.

## Key findings

- Compound C2 inhibits PIM-1 kinase with an IC50 of 33.02 ± 1.31 nM.
- Compound C2 effectively inhibits MM.1S cell proliferation with an IC50 of 1.87 μM.
- Compound C2 shows good stability in simulated gastrointestinal fluids and rat plasma.

## Abstract

PIM kinases, as members of the serine/threonine kinase family, regulate key cellular processes such as proliferation, apoptosis, and metabolism by phosphorylating multiple substrates, making them important therapeutic targets for cancer treatment. In this study, we reported a series of structurally novel PIM-1 kinase inhibitors based on a scaffold-hopping strategy. After multiple rounds of structural optimization, the highly active compound C2 was obtained, exhibiting an IC50 of 33.02 ± 1.31 nM against PIM-1 kinase. Molecular docking results revealed that compound C2 stably bound to the hydrophobic cavity of the PIM-1 protein and formed hydrogen bond interactions with polar residues in the hinge region, thereby effectively inhibiting kinase activity. In vitro antitumor assessment demonstrated significant proliferation inhibition of the hematological tumor cell line MM.1S (IC50 = 1.87 μM), comparable to the positive control SGI-1776 (IC50 = 1.71 μM). In addition, compound C2 possessed favorable drug-like properties and excellent stability in simulated gastrointestinal fluids and rat plasma. This study provides promising lead compounds for the development of novel PIM-1-targeted anticancer drugs, which can be further optimized.

## Linked entities

- **Chemicals:** SGI-1776 (PubChem CID 24795070)
- **Diseases:** cancer (MONDO:0004992), hematological tumor (MONDO:0044881)

## Full-text entities

- **Genes:** PIM1 (Pim-1 proto-oncogene, serine/threonine kinase) [NCBI Gene 5292] {aka PIM}, FLT3 (fms related receptor tyrosine kinase 3) [NCBI Gene 2322] {aka CD135, FLK-2, FLK2, STK1}, STK3 (serine/threonine kinase 3) [NCBI Gene 6788] {aka KRS1, MST2}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, CYP4F3 (cytochrome P450 family 4 subfamily F member 3) [NCBI Gene 4051] {aka CPF3, CYP4F, CYPIVF3, LTB4H}, PPIG (peptidylprolyl isomerase G) [NCBI Gene 9360] {aka CARS-Cyp, CYP, SCAF10, SRCyp}, KCNH2 (potassium voltage-gated channel subfamily H member 2) [NCBI Gene 3757] {aka ERG-1, ERG1, H-ERG, HERG, HERG1, Kv11.1}, Pim1 (Pim-1 proto-oncogene, serine/threonine kinase) [NCBI Gene 24649], PIM3 (Pim-3 proto-oncogene, serine/threonine kinase) [NCBI Gene 415116] {aka pim-3}, Taok2 (TAO kinase 2) [NCBI Gene 64666] {aka Tao2}, Pim1 (Pim1, proto-oncogene, serine/threonine kinase) [NCBI Gene 18712] {aka Pim-1}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, PIM2 (Pim-2 proto-oncogene, serine/threonine kinase) [NCBI Gene 11040], MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}
- **Diseases:** tumorigenesis (MESH:D063646), cardiotoxicity (MESH:D066126), AML (MESH:D015470), hematologic malignancies (MESH:D019337), injury to (MESH:D014947), prostate cancer (MESH:D011471), pancreatic cancer (MESH:D010190), multiple myeloma (MESH:D009101), Cancer (MESH:D009369), lymphoma (MESH:D008223), breast cancer (MESH:D001943), hepatocellular carcinoma (MESH:D006528), Diffuse Large B-Cell Lymphoma (MESH:D016403), metastasis (MESH:D009362), deaths (MESH:D003643), leukemia (MESH:D007938), colorectal cancer (MESH:D015179), toxicity (MESH:D064420)
- **Chemicals:** H2O (MESH:D014867), benzene (MESH:D001554), Fe (MESH:D007501), petroleum ether (MESH:C004544), alkanes (MESH:D000473), HCl (MESH:D006851), brine (MESH:C017082), Acetic Acid (MESH:D019342), EtOH (MESH:D000431), HATU (MESH:C472082), NaOH (MESH:D012972), 13C (MESH:C000615229), silica gel (MESH:D058428), MgCl2 (MESH:D015636), 3H (MESH:D014316), methanol (MESH:D000432), phosphate (MESH:D010710), quinazolinone (MESH:D052999), Pyrroloquinoline (MESH:C410406), TBAF (MESH:C009405), oxygen (MESH:D010100), NH3 (MESH:D000641), DMA (MESH:C405765), K3PO4 (MESH:C013216), CH2Cl2 (MESH:D008752), nitrogen (MESH:D009584), TMS (MESH:C073196), NH4Cl (MESH:D000643), ester (MESH:D004952), acetonitrile (MESH:C032159), ATP (MESH:D000255), piperidine (MESH:C032727), B2 (MESH:C023970), C2 (MESH:C023714), CO2 (MESH:D002245), LiOH (MESH:C028467), SGI-1776 (MESH:C545188), DIPEA (MESH:C027070), THF (MESH:C018674), piperazine (MESH:D000077489), DMF (MESH:D004126), I (MESH:D007455), H (MESH:D006859), DMSO (MESH:D004121), HNO3 (MESH:D017942), pyrrolidone (MESH:D011760), H2SO4 (MESH:C033158), argon (MESH:D001128), C1 (MESH:C400149), 2-(7-azabenzotriazol-1-yl)-N, N, N', N'-tetramethyluronium hexafluorophosphate (-), 2H (MESH:D003903), NaHCO3 (MESH:D017693), dioxane (MESH:C025223), ethyl acetate (MESH:C007650), silica (MESH:D012822), Na (MESH:D012964), pyrimidinone (MESH:D011744), Na2SO4 (MESH:C012036), NADPH (MESH:D009249), chlorine (MESH:D002713)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Rattus norvegicus (brown rat, species) [taxon 10116], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** proline residue at position 123
- **Cell lines:** RPMI 8226 — Homo sapiens (Human), Plasma cell myeloma, Cancer cell line (CVCL_0014), MM.1S — Homo sapiens (Human), Plasma cell myeloma, Cancer cell line (CVCL_8792), MOLM-13 — Homo sapiens (Human), Adult acute monocytic leukemia, Cancer cell line (CVCL_2119), MV4-11 — Homo sapiens (Human), Childhood acute monocytic leukemia, Cancer cell line (CVCL_0064), KMS-12 — Homo sapiens (Human), Plasma cell myeloma, Cancer cell line (CVCL_1334)

## Full text

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## Figures

31 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12943290/full.md

## References

42 references — full list in the complete paper: https://tomesphere.com/paper/PMC12943290/full.md

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Source: https://tomesphere.com/paper/PMC12943290