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Puromycin-d3 (CL13900-d3)

Cat No.:V76579 Purity: ≥98%
Puromycin-d3 is the deuterated form of Puromycin.
Puromycin-d3 (CL13900-d3)
Puromycin-d3 (CL13900-d3) Chemical Structure Product category: Bacterial
This product is for research use only, not for human use. We do not sell to patients.
Size Price Stock Qty
1mg
5mg
10mg
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Product Description
Puromycin-d3 is the deuterated form of Puromycin. Puromycin is an aminoglycoside antibiotic extracted from the bacterium Streptomyces sp. It is a protein synthesis inhibitor.
Puromycin-d3 (CL13900-d3) is the deuterium-labeled form of the aminonucleoside antibiotic Puromycin, containing three deuterium atoms. This stable isotope-labeled compound is primarily used as an internal standard in LC-MS/MS assays for the precise quantification of Puromycin and its metabolites in biological samples during pharmacokinetic and drug metabolism studies. Puromycin is an aminoglycoside antibiotic that inhibits protein synthesis.
Biological Activity I Assay Protocols (From Reference)
Targets
Aminoglycoside
Puromycin-d3 targets the ribosome. The non-deuterated parent, Puromycin, specifically inhibits peptidyl transferase activity in both prokaryotic and eukaryotic ribosomes by mimicking the 3'-end of aminoacyl-tRNA. It is incorporated into the growing polypeptide chain, causing premature chain termination and disrupting protein synthesis. The deuterium labeling does not alter the mechanism of action but serves as an internal standard for quantification.
ln Vitro
Drug compounds have included stable heavy isotopes of carbon, hydrogen, and other elements, mostly as tracers for quantification throughout the drug development process. Due to its potential to alter the pharmacokinetic and metabolic characteristics of medications, deuteration has drawn attention[1].
Puromycin dihydrochloride (the non-deuterated parent) is a potent inhibitor of protein synthesis. The deuterated version is not used for biological activity assessment; it is used as an analytical standard. Stable heavy isotopes have been incorporated into drug molecules, largely as tracers for quantitation during the drug development process. Puromycin-d3 can be used as an internal standard for LC-MS/MS quantitation.
ln Vivo
Puromycin-d3 is not administered in vivo for therapeutic purposes. Its non-deuterated parent, Puromycin, is an antibiotic that inhibits protein synthesis. The compound is used in research as a selection agent for cells expressing the puromycin resistance gene. Puromycin-d3 serves as an analytical standard for PK studies of Puromycin in animal models, allowing accurate quantification of the parent drug in biological matrices.
Enzyme Assay
Puromycin-d3 is not used in an enzyme binding assay; it is an internal standard for LC-MS/MS. A stock solution is prepared in methanol (1 mg/mL). For LC-MS/MS analysis, a fixed concentration of Puromycin-d3 (e.g., 10-100 ng/mL) is added to each biological sample (e.g., plasma, cell lysate). Samples are extracted and injected onto an LC-MS/MS system. Puromycin is detected in positive ion mode (MRM). The d3 internal standard has a mass shift of +3 Da.
Cell Assay
Puromycin-d3 is not used in typical cell-based assays. The non-deuterated parent, puromycin, is used as a selection agent. Cells expressing the pac gene are cultured in medium containing puromycin (0.5-10 ug/mL). Resistant cells survive and proliferate. The optimal selection concentration is determined by kill curve experiments. Selection efficiency is confirmed by staining with crystal violet. The deuterated version is not used in these assays.
Animal Protocol
Puromycin-d3 is used as an internal standard for PK studies of puromycin. A typical protocol: Male SD rats are administered an intravenous or intraperitoneal dose of puromycin dihydrochloride (1-10 mg/kg). Blood samples are collected at various time points. A fixed concentration of Puromycin-d3 is added to each plasma sample. Samples are processed and analyzed by LC-MS/MS. PK parameters are calculated using non-compartmental analysis.
ADME/Pharmacokinetics
Puromycin-d3 has a molecular weight of 474.53 and the molecular formula C22H26D3N7O5. It is a solid with white to off-white color. The product should be stored at -20degC, sealed and protected from moisture. Stable heavy isotopes have been incorporated into drug molecules, largely as tracers for quantitation during the drug development process.
Toxicity/Toxicokinetics
No specific toxicity data for the deuterated version are available. The non-deuterated parent, puromycin, is toxic and inhibits protein synthesis in both prokaryotic and eukaryotic cells. It causes cell death in rapidly dividing cells and is not suitable for in vivo therapeutic use. As an analytical standard, the deuterated version is used in trace amounts and does not pose additional safety risks beyond standard chemical handling.
References

[1]. Impact of Deuterium Substitution on the Pharmacokinetics of Pharmaceuticals. Ann Pharmacother. 2019;53(2):211-216.

[2]. Puromycin inhibition of protein synthesis: incorporation of puromycin intopeptide chains. Proc Natl Acad Sci U S A. 1964 Apr;51:585-92.

[3]. Specific bonding of puromycin to full-length protein at the C-terminus. Nucleic Acids Res. 2000 Mar 1;28(5):1176-82.

[4]. SUnSET, a nonradioactive method to monitor protein synthesis. Nat Methods. 2009 Apr;6(4):275-7.

Additional Infomation
Puromycin-d3 (CL13900-d3) is a research-grade stable isotope-labeled compound used as an internal standard for LC-MS/MS quantification of Puromycin. The parent compound, Puromycin, is an aminoglycoside antibiotic that inhibits protein synthesis. This product is for research use only and is not for human therapeutic applications.
These protocols are for reference only. InvivoChem does not independently validate these methods.
Physicochemical Properties
Molecular Formula
C22H26D3N7O5
Molecular Weight
474.53
Appearance
White to off-white solid powder
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.)
Preparing Stock Solutions 1 mg 5 mg 10 mg
1 mM 2.1073 mL 10.5367 mL 21.0735 mL
5 mM 0.4215 mL 2.1073 mL 4.2147 mL
10 mM 0.2107 mL 1.0537 mL 2.1073 mL

*Note: Please select an appropriate solvent for the preparation of stock solution based on your experiment needs. For most products, DMSO can be used for preparing stock solutions (e.g. 5 mM, 10 mM, or 20 mM concentration); some products with high aqueous solubility may be dissolved in water directly. Solubility information is available at the above Solubility Data section. Once the stock solution is prepared, aliquot it to routine usage volumes and store at -20°C or -80°C. Avoid repeated freeze and thaw cycles.

Calculator

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

  • Calculate the Mass of a compound required to prepare a solution of known volume and concentration
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  • Calculate the Concentration of a solution resulting from a known mass of compound in a specific volume
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?
  • Enter 350.26 in the Molecular Weight (MW) box
  • 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)
  • Click the “Calculate” button
  • 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:
  • To calculate molar mass of a chemical compound, please enter the chemical/molecular formula and click the “Calculate’ button.
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.

  • Enter the mass of the reagent and the desired reconstitution concentration as well as the correct units
  • Click the “Calculate” button
  • The answer appears in the Volume (to add to vial) box
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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