# Targeted HDAC8 inhibition with non-hydroxamate [1,2,4]triazolo[4,3-a] quinoline compounds

**Authors:** N. V. M. Rao Bandaru, Ashna Fathima, Suryansh Sengar, Markus Schweipert, Kosana Sai Chaitanya, Muzaffar-Ur-Rehman Mohammed, Suraj T. Gore, Trinath Jamma, Vivek Sharma, Chandrasekhar Abbineni, Franz-Josef Meyer-Almes, Kondapalli Venkata Gowri Chandra Sekhar

PMC · DOI: 10.1038/s41598-026-38490-y · Scientific Reports · 2026-02-20

## TL;DR

Researchers developed new HDAC8 inhibitors that effectively target neuroblastoma cells without harming normal cells.

## Contribution

A novel series of non-hydroxamate [1,2,4]triazolo[4,3-a]quinoline compounds were designed as potent HDAC8 inhibitors.

## Key findings

- Compounds 9h and 9m showed strong efficacy in IMR-32 neuroblastoma cells but minimal effects on other cancer and normal cells.
- Molecular docking and dynamics simulations confirmed stable interactions within the HDAC8 active site.
- Increased SMC3 acetylation levels suggest effective HDAC8 inhibition without altering total SMC3 protein.

## Abstract

Histone deacetylase 8 (HDAC8) is a key enzyme involved in regulating gene expression and tumor development, positioning it as an attractive target for neuroblastoma. In this work, we designed and synthesized a novel series of substituted [1,2,4]Triazolo[4,3-a]quinoline derivatives to investigate their potential as HDAC8 inhibitors. Structural insights into their inhibitory activity were gained through molecular docking studies, highlighting critical interactions within the HDAC8 active site. To assess the stability of these interactions, molecular dynamics simulations were performed, confirming that the compounds maintained strong and stable binding within the HDAC8 enzyme. The most promising inhibitors 9h and 9m demonstrated significant efficacy in IMR-32 neuroblastoma cells, but had much weaker effects on the HCT116 and MCF7 cancer cell lines, as well as on the normal control cell line, HEK293. Further biological evaluations, including colony formation and cell migration assays, revealed their potential to inhibit the growth and spread of neuroblastoma tumor cells. Additional studies on cell cycle progression, apoptosis induction, and SMC3 acetylation indicated increased acetylation levels without altering total SMC3 protein levels, suggesting effective HDAC8 target engagement. In summary, comprehensive molecular modelling and biological assessments have demonstrated the strong potential of these non-hydroxamate-based HDAC8 inhibitors for treating neuroblastoma.

The online version contains supplementary material available at 10.1038/s41598-026-38490-y.

## Linked entities

- **Proteins:** HDAC8 (histone deacetylase 8), SMC3 (structural maintenance of chromosomes 3)
- **Chemicals:** [1,2,4]triazolo[4,3-a]quinoline (PubChem CID 67477)
- **Diseases:** neuroblastoma (MONDO:0005072)

## Full-text entities

- **Genes:** HDAC9 (histone deacetylase 9) [NCBI Gene 9734] {aka HD7, HD7b, HD9, HDAC, HDAC7B, HDAC9B}, SMC3 (structural maintenance of chromosomes 3) [NCBI Gene 9126] {aka BAM, BMH, CDLS3, CSPG6, HCAP, SMC3L1}, TMPRSS11D (transmembrane serine protease 11D) [NCBI Gene 9407] {aka ASP, HAT}, ESRRA (estrogen related receptor alpha) [NCBI Gene 2101] {aka ERR1, ERRa, ERRalpha, ESRL1, NR3B1}, SIRT7 (sirtuin 7) [NCBI Gene 51547] {aka SIR2L7}, RNASE1 (ribonuclease A family member 1, pancreatic) [NCBI Gene 6035] {aka RAC1, RIB1, RNS1}, HDAC11 (histone deacetylase 11) [NCBI Gene 79885] {aka HD11}, ARID1A (AT-rich interaction domain 1A) [NCBI Gene 8289] {aka B120, BAF250, BAF250a, BM029, C1orf4, CSS2}, SIRT1 (sirtuin 1) [NCBI Gene 23411] {aka SIR2, SIR2L1, SIR2alpha}, HDAC8 (histone deacetylase 8) [NCBI Gene 55869] {aka CDA07, CDLS5, HD8, HDACL1, KDAC8, MRXS6}, HDAC6 (histone deacetylase 6) [NCBI Gene 10013] {aka CPBHM, HD6, JM21, KDAC6, PPP1R90}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, HDAC1 (histone deacetylase 1) [NCBI Gene 3065] {aka GON-10, HD1, KDAC1, RPD3, RPD3L1}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}
- **Diseases:** cytotoxic (MESH:D064420), leukemia (MESH:D007938), colon cancer (MESH:D015179), T-cell lymphoma (MESH:D016399), HCC (MESH:D006528), necrosis (MESH:D009336), breast cancer (MESH:D001943), multiple myeloma (MESH:D009101), lung cancer (MESH:D008175), cancer (MESH:D009369), neurodegenerative diseases (MESH:D019636), inflammatory diseases (MESH:D007249), acute myeloid leukemia (MESH:D015470), neuroblastoma (MESH:D009447)
- **Chemicals:** TFA (MESH:D014269), phenylalanine (MESH:D010649), oil (MESH:D009821), Na2SO4 (MESH:C012036), alpha amino acids (MESH:D000596), MTT (MESH:C070243), Hexane (MESH:D006586), Pluronic F-127 (MESH:D020442), 7-amino-4-methylcoumarin (MESH:C028743), penicillin (MESH:D010406), SAHA (MESH:D000077337), POCl3 (MESH:C013196), 8r (-), 2H (MESH:D003903), propidium iodide (MESH:D011419), Ethyl acetate (MESH:C007650), 1,4-dioxane (MESH:C025223), sodium bicarbonate (MESH:D017693), crystal violet (MESH:D005840), diethyl ether (MESH:D004986), DMSO (MESH:D004121), argon (MESH:D001128), acetate (MESH:D000085), KCl (MESH:D011189), PBS (MESH:D007854), NAD+ (MESH:D009243), PVDF (MESH:C024865), cyclopropyl carboxylic acid (MESH:C015766), H (MESH:D006859), DMF (MESH:D004126), DIPEA (MESH:C027070), piperazine (MESH:D000077489), triazole (MESH:D014230), quinoline (MESH:C037219), PCI-34051 (MESH:C529435), CO2 (MESH:D002245), EGTA (MESH:D004533), IPTG (MESH:D007544), hydroxamic acid (MESH:D006877), Compound B (MESH:D003345), Triton X (MESH:D017830), hydrazine (MESH:C029424), C (MESH:D002244), streptomycin (MESH:D013307), polyacrylamide (MESH:C016679), Xantphos (MESH:C519861), Ni (MESH:D009532), EDTA (MESH:D004492), CH2Cl2 (MESH:D008752), carboxylic acid (MESH:D002264), HCOOH (MESH:C030544), acids (MESH:D000143), Salt (MESH:D012492), PI (MESH:D010716), oxygen (MESH:D010100), quisinostat (MESH:C541788), Zinc (MESH:D015032), formazan (MESH:D005562), MgCl2 (MESH:D015636), metal (MESH:D008670)
- **Species:** Homo sapiens (human, species) [taxon 9606], Mus musculus (house mouse, species) [taxon 10090]
- **Cell lines:** HEK293 — Homo sapiens (Human), Transformed cell line (CVCL_0045), HEK-293 T — Homo sapiens (Human), Transformed cell line (CVCL_0063), IMR-32 — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_0346), MCF7 — Homo sapiens (Human), Invasive breast carcinoma of no special type, Cancer cell line (CVCL_0031), HCT-116 — Homo sapiens (Human), Colon carcinoma, Cancer cell line (CVCL_0291)

## Full text

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## Figures

11 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12929686/full.md

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Source: https://tomesphere.com/paper/PMC12929686