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HDAC1/6-IN-3

HDAC1/6-IN-3 is a potent HDAC inhibitor.
HDAC1/6-IN-3
HDAC1/6-IN-3 Chemical Structure CAS No.: 3038691-85-6
Product category: Caspase
This product is for research use only, not for human use. We do not sell to patients.
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Product Description
HDAC1/6-IN-3 is a potent HDAC inhibitor. It exhibits excellent inhibitory activity against both HDAC1 (IC50 = 1.1 nM) and HDAC6 (IC50 = 2.7 nM). HDAC1/6-IN-3 significantly arrests HepG2 cells in the G0/G1 phase and induces apoptosis and pyroptosis. HDAC1/6-IN-3 demonstrates significant antitumor activity in a HepG2 xenograft model. HDAC1/6-IN-3 can be used to study various cancers, including liver cancer, lung cancer, colon cancer, and breast cancer.
Biological Activity I Assay Protocols (From Reference)
ln Vitro
HDAC1/6-IN-3 (compound 15a) (72 h) showed excellent inhibitory activity against HepG2 (IC50 = 0.12 μM), PC9 (IC50 = 0.53 μM), HCT116 (IC50 = 1.12 μM) and MCF7 cells (IC50 = 3.12 μM) [1]. HDAC1/6-IN-3 (0.2–0.5 μM, 24 h) dose-dependently increased the levels of acetylated H3 and H4 in HepG2 cells [1]. HDAC1/6-IN-3 (0.2–0.5 μM, 10–14 days) dose-dependently inhibited colony formation in HepG2 cells [1]. HDAC1/6-IN-3 (0.2-0.5 μM, 24 h) induces G0/G1 phase arrest in HepG2 cells, which may be related to the downregulation of CDK4 and Cyclin D1 proteins [1]. HDAC1/6-IN-3 (0.2-0.5 μM, 48 h) enhances ROS generation and DNA damage accumulation, thereby inducing apoptosis in HepG2 cells [1]. HDAC1/6-IN-3 (0.2-0.5 μM, 24-48 h) triggers pyroptosis in HepG2 cells by cleaving GSDME with caspase-3 [1].
ln Vivo
HDAC1/6-IN-3 (compound 15a) (10 mg/kg, intraperitoneal injection, twice a week for 3 weeks) showed significant antitumor efficacy and acceptable safety in the HepG2 xenograft model [1].
Cell Assay
Cell cycle analysis [1]
Cell Types: HepG2 cells
Tested Concentrations: 0.2 and 0.5 μM
Incubation Duration: 24 hours
Experimental Results: The G0/G1 phase of HepG2 cells was significantly inhibited in a dose-dependent manner. The proportion of G2/M phase decreased from 25.34% to 22.85%, and the proportion of S phase decreased from 32.99% to 13.72%.
Apoptosis analysis [1]
Cell Types: HepG2 cells
Tested Concentrations: 0.2 and 0.5 μM
Incubation Duration: 48 hours
Experimental Results: 28.2% apoptosis was induced at 0.2 µM and 46.5% at 0.5 µM.
Immunofluorescence [1]
Cell Types: HepG2 cells
Tested Concentrations: 0.2 and 0.5 μM
Incubation Duration: 24 hours
Experimental Results: Dose-dependent increase in ROS levels. Dose-dependent formation of γH2AX foci was observed.
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Western Blot Analysis [1]
Cell Types: HepG2 cells
Tested Concentrations: 0.2 and 0.5 μM
Incubation Duration: 24 hours
Experimental Results: The levels of acetylated H3 and H4 increased in a dose-dependent manner. The expression of cyclin D1 and CDK4 was downregulated. The expression of chloride PARP and chloride caspase 3 was upregulated in a dose-dependent manner. This led to an increase in the levels of the N-terminal fragment of gasdermin E (GSDME) and caspase-3.

Animal Protocol
Animal/Disease Models:A HepG2-induced xenograft model was established in male BALB/c nude mice [1].
Doses: 10 mg/kg
Route of Administration: Intraperitoneal injection (ip), twice weekly for 3 weeks.
Experimental Results: Tumor growth was inhibited in a dose-dependent manner. A dose-dependent decrease in Ki67 immunostaining was observed. Increases in Ac-H3/H4, Cl-caspase3, and GSDME-N were induced in a dose-dependent manner.
References

[1]. Design and synthesis of thiazole-based hydroxamate histone deacetylase inhibitors with potent antitumor efficacy by inducing apoptosis, pyroptosis and cell cycle arrest. Sci Rep. 2025 Jul 9;15(1):24589.

These protocols are for reference only. InvivoChem does not independently validate these methods.
Physicochemical Properties
CAS #
3038691-85-6
Appearance
Typically exists as solids at room temperature
HS Tariff Code
2934.99.9001
Storage

Powder      -20°C    3 years

                     4°C     2 years

In solvent   -80°C    6 months

                  -20°C    1 month

Shipping Condition
Room temperature (This product is stable at ambient temperature for a few days during ordinary shipping and time spent in Customs)
Solubility Data
Solubility (In Vitro)
May dissolve in DMSO (in most cases), if not, try other solvents such as H2O, Ethanol, or DMF with a minute amount of products to avoid loss of samples
Solubility (In Vivo)
Note: Listed below are some common formulations that may be used to formulate products with low water solubility (e.g. < 1 mg/mL), you may test these formulations using a minute amount of products to avoid loss of samples.

Injection Formulations
(e.g. IP/IV/IM/SC)
Injection Formulation 1: DMSO : Tween 80: Saline = 10 : 5 : 85 (i.e. 100 μL DMSO stock solution 50 μL Tween 80 850 μL Saline)
*Preparation of saline: Dissolve 0.9 g of sodium chloride in 100 mL ddH ₂ O to obtain a clear solution.
Injection Formulation 2: DMSO : PEG300Tween 80 : Saline = 10 : 40 : 5 : 45 (i.e. 100 μL DMSO 400 μLPEG300 50 μL Tween 80 450 μL Saline)
Injection Formulation 3: DMSO : Corn oil = 10 : 90 (i.e. 100 μL DMSO 900 μL Corn oil)
Example: Take the Injection Formulation 3 (DMSO : Corn oil = 10 : 90) as an example, if 1 mL of 2.5 mg/mL working solution is to be prepared, you can take 100 μL 25 mg/mL DMSO stock solution and add to 900 μL corn oil, mix well to obtain a clear or suspension solution (2.5 mg/mL, ready for use in animals).
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Injection Formulation 4: DMSO : 20% SBE-β-CD in saline = 10 : 90 [i.e. 100 μL DMSO 900 μL (20% SBE-β-CD in saline)]
*Preparation of 20% SBE-β-CD in Saline (4°C,1 week): Dissolve 2 g SBE-β-CD in 10 mL saline to obtain a clear solution.
Injection Formulation 5: 2-Hydroxypropyl-β-cyclodextrin : Saline = 50 : 50 (i.e. 500 μL 2-Hydroxypropyl-β-cyclodextrin 500 μL Saline)
Injection Formulation 6: DMSO : PEG300 : castor oil : Saline = 5 : 10 : 20 : 65 (i.e. 50 μL DMSO 100 μLPEG300 200 μL castor oil 650 μL Saline)
Injection Formulation 7: Ethanol : Cremophor : Saline = 10: 10 : 80 (i.e. 100 μL Ethanol 100 μL Cremophor 800 μL Saline)
Injection Formulation 8: Dissolve in Cremophor/Ethanol (50 : 50), then diluted by Saline
Injection Formulation 9: EtOH : Corn oil = 10 : 90 (i.e. 100 μL EtOH 900 μL Corn oil)
Injection Formulation 10: EtOH : PEG300Tween 80 : Saline = 10 : 40 : 5 : 45 (i.e. 100 μL EtOH 400 μLPEG300 50 μL Tween 80 450 μL Saline)


Oral Formulations
Oral Formulation 1: Suspend in 0.5% CMC Na (carboxymethylcellulose sodium)
Oral Formulation 2: Suspend in 0.5% Carboxymethyl cellulose
Example: Take the Oral Formulation 1 (Suspend in 0.5% CMC Na) as an example, if 100 mL of 2.5 mg/mL working solution is to be prepared, you can first prepare 0.5% CMC Na solution by measuring 0.5 g CMC Na and dissolve it in 100 mL ddH2O to obtain a clear solution; then add 250 mg of the product to 100 mL 0.5% CMC Na solution, to make the suspension solution (2.5 mg/mL, ready for use in animals).
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Oral Formulation 3: Dissolved in PEG400
Oral Formulation 4: Suspend in 0.2% Carboxymethyl cellulose
Oral Formulation 5: Dissolve in 0.25% Tween 80 and 0.5% Carboxymethyl cellulose
Oral Formulation 6: Mixing with food powders


Note: Please be aware that the above formulations are for reference only. InvivoChem strongly recommends customers to read literature methods/protocols carefully before determining which formulation you should use for in vivo studies, as different compounds have different solubility properties and have to be formulated differently.

 (Please use freshly prepared in vivo formulations for optimal results.)
Calculator

Molarity Calculator allows you to calculate the mass, volume, and/or concentration required for a solution, as detailed below:

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An example of molarity calculation using the molarity calculator is shown below:
What is the mass of compound required to make a 10 mM stock solution in 5 ml of DMSO given that the molecular weight of the compound is 350.26 g/mol?
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  • Enter 10 in the Concentration box and choose the correct unit (mM)
  • Enter 5 in the Volume box and choose the correct unit (mL)
  • Click the “Calculate” button
  • The answer of 17.513 mg appears in the Mass box. In a similar way, you may calculate the volume and concentration.

Dilution Calculator allows you to calculate how to dilute a stock solution of known concentrations. For example, you may Enter C1, C2 & V2 to calculate V1, as detailed below:

What volume of a given 10 mM stock solution is required to make 25 ml of a 25 μM solution?
Using the equation C1V1 = C2V2, where C1=10 mM, C2=25 μM, V2=25 ml and V1 is the unknown:
  • Enter 10 into the Concentration (Start) box and choose the correct unit (mM)
  • Enter 25 into the Concentration (End) box and select the correct unit (mM)
  • Enter 25 into the Volume (End) box and choose the correct unit (mL)
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  • The answer of 62.5 μL (0.1 ml) appears in the Volume (Start) box
g/mol

Molecular Weight Calculator allows you to calculate the molar mass and elemental composition of a compound, as detailed below:

Note: Chemical formula is case sensitive: C12H18N3O4  c12h18n3o4
Instructions to calculate molar mass (molecular weight) of a chemical compound:
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Definitions of molecular mass, molecular weight, molar mass and molar weight:
  • Molecular mass (or molecular weight) is the mass of one molecule of a substance and is expressed in the unified atomic mass units (u). (1 u is equal to 1/12 the mass of one atom of carbon-12)
  • Molar mass (molar weight) is the mass of one mole of a substance and is expressed in g/mol.
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Reconstitution Calculator allows you to calculate the volume of solvent required to reconstitute your vial.

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In vivo Formulation Calculator (Clear solution)
Step 1: Enter information below (Recommended: An additional animal to make allowance for loss during the experiment)
Step 2: Enter in vivo formulation (This is only a calculator, not the exact formulation for a specific product. Please contact us first if there is no in vivo formulation in the solubility section.)
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Calculation results

Working concentration mg/mL;

Method for preparing DMSO stock solution mg drug pre-dissolved in μL DMSO (stock solution concentration mg/mL). Please contact us first if the concentration exceeds the DMSO solubility of the batch of drug.

Method for preparing in vivo formulation:Take μL DMSO stock solution, next add μL PEG300, mix and clarify, next addμL Tween 80, mix and clarify, next add μL ddH2O,mix and clarify.

(1) Please be sure that the solution is clear before the addition of next solvent. Dissolution methods like vortex, ultrasound or warming and heat may be used to aid dissolving.
             (2) Be sure to add the solvent(s) in order.

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