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(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose

Cat No.:V75629 Purity: ≥98%
(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose is an analogue of purine nucleoside.
(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose
(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose Chemical Structure CAS No.: 6612-91-5
Product category: Nucleoside Antimetabolite/Analog
This product is for research use only, not for human use. We do not sell to patients.
Size Price Stock Qty
50mg
100mg
Other Sizes

Other Forms of (R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose:

  • 5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose
Official Supplier of:
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Top Publications Citing lnvivochem Products
Product Description
(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose is an analogue of purine nucleoside. Purine nucleoside analogues have broad-spectrum anticancer effect targeting indolent lymphoid malignancies. The anti-cancer mechanism in this process relies on inhibiting DNA synthesis and inducing apoptosis.
(R)-5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose is a protected carbohydrate derivative. It is a synthetic building block used in the chemical synthesis of various nucleoside analogs and other biologically active molecules. It is a research-grade compound used in medicinal chemistry for constructing more complex compounds, not as a therapeutic agent itself. The isopropylidene and benzoyl groups serve as protecting groups for the sugar hydroxyls.
Biological Activity I Assay Protocols (From Reference)
Targets
This compound is not a drug and does not have a specific pharmacological target. It is a synthetic intermediate. Its purpose is to be a precursor for the synthesis of nucleosides, which can then target enzymes like DNA polymerases or viral reverse transcriptases. The specific stereochemistry (R) and the alpha configuration define its use as a building block for specific analogs.
ln Vitro
In vitro activity is not applicable as this compound is not a drug. It is a chemical tool. Any in vitro activity would be associated with the final, deprotected nucleoside product synthesized from it. Its value lies in its chemical stability and orthogonal protecting groups, which allow for the selective modification of the sugar to create a library of compounds.
ln Vivo
In vivo activity is not applicable. This compound is not administered to animals. It is handled in a chemistry laboratory to synthesize other compounds that may subsequently be tested in animals. The final, deprotected nucleoside analogs made from this building block are the agents that would be evaluated for in vivo efficacy.
Enzyme Assay
Cell-free assays are not performed for this building block itself. Instead, if the final synthetic product is a nucleoside analog, it can be tested in a DNA polymerase activity assay. The DNA polymerase, DNA template, and deoxynucleotide triphosphates are incubated with the final analog (converted to its triphosphate form). The effect on DNA synthesis is measured by gel electrophoresis or scintillation counting.
Cell Assay
As a chemical intermediate, this compound is not used in cell-based assays. It is used in organic synthesis reactions. A typical protocol involves deprotecting the isopropylidene groups under acidic conditions or selectively removing the benzoyl group, followed by a glycosylation reaction to attach a nucleobase. Its purity is confirmed by TLC, HPLC, or NMR.
Animal Protocol
Animal studies are not performed with this building block. However, the nucleoside analogs that are synthesized from it can be used in animal models. For example, if a compound with antiviral activity is made, it can be tested in a mouse model of viral infection. This compound is not the final therapeutic; it is a precursor, so it has no direct in vivo protocol.
ADME/Pharmacokinetics
This compound is a building block for organic synthesis, not a drug; therefore, its ADME properties are not characterized. Its molecular formula is C18H22O6, and it has a molecular weight of 334.36. It is typically stored as a solid at -20degC, protected from moisture. Its physical properties (e.g., solubility in dichloromethane) are defined for use in chemical reactions.
Toxicity/Toxicokinetics
The literature does not contain toxicological data for this compound because it is a synthetic intermediate. It is handled with standard laboratory safety precautions (gloves, goggles, lab coat). As a solid, it is generally considered to be of low acute toxicity. However, it is not intended for human consumption and should be treated as a potential irritant.
References
[1]. Robak T, Robak P. Purine nucleoside analogs in the treatment of rarer chronic lymphoid leukemias. Curr Pharm Des. 2012;18(23):3373-88.
Additional Infomation
This compound is a key chiral building block in carbohydrate chemistry. The isopropylidene group is an acetonide that protects the 1,2-diol, while the benzoyl group protects the 5-OH. The "alpha" and "R" configurations are crucial for constructing nucleosides with specific stereochemistry. It is used in the synthesis of analogs of drugs like Sofosbuvir (for Hepatitis C) or other antiviral agents. Searched
These protocols are for reference only. InvivoChem does not independently validate these methods.
Physicochemical Properties
Molecular Formula
C15H18O6
Molecular Weight
294.30
Exact Mass
294.11
CAS #
6612-91-5
Related CAS #
5-O-Benzoyl-1,2-di-O-isopropylidene-alpha-D-xylofuranose;6022-96-4
PubChem CID
228800
Appearance
White to off-white solid powder
Density
1.253 g/cm3
Boiling Point
432ºC at 760 mmHg
Flash Point
159.2ºC
LogP
1.08
Hydrogen Bond Donor Count
1
Hydrogen Bond Acceptor Count
6
Rotatable Bond Count
4
Heavy Atom Count
21
Complexity
390
Defined Atom Stereocenter Count
0
SMILES
CC1(OC2C(C(OC2O1)COC(=O)C3=CC=CC=C3)O)C
InChi Key
WKRBIHIDJVMVGS-UHFFFAOYSA-N
InChi Code
InChI=1S/C15H18O6/c1-15(2)20-12-11(16)10(19-14(12)21-15)8-18-13(17)9-6-4-3-5-7-9/h3-7,10-12,14,16H,8H2,1-2H3
Chemical Name
(6-hydroxy-2,2-dimethyl-3a,5,6,6a-tetrahydrofuro[2,3-d][1,3]dioxol-5-yl)methyl benzoate
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)
DMSO: 100 mg/mL (339.79 mM)
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 3.3979 mL 16.9895 mL 33.9789 mL
5 mM 0.6796 mL 3.3979 mL 6.7958 mL
10 mM 0.3398 mL 1.6989 mL 3.3979 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
  • Calculate the Volume of solution required to dissolve a compound of known mass to a desired concentration
  • 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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