Clofarabine

Alias: C1 F-Ara-A; C1-F-Ara-A; Clofarabine; C1 F-Ara-A; trade names: Clofarex; Clolar. Abbreviation: CAFdA
Cat No.:V1451 Purity: ≥98%
Clofarabine(formerly C1 F-Ara-A;C1 F-Ara-A;CAFdA; trade names: Clofarex; Clolar)is an antimetabolite anticancer chemotherapeutic drug and a purine nucleoside approved for the treatment of relapsed or refractory acute lymphoblastic leukemia.
Clofarabine Chemical Structure CAS No.: 123318-82-1
Product category: DNA(RNA) Synthesis
This product is for research use only, not for human use. We do not sell to patients.
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25mg
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Purity & Quality Control Documentation

Purity: ≥98%

Product Description

Clofarabine(formerly C1 F-Ara-A; C1 F-Ara-A; CAFdA; trade names: Clofarex; Clolar) is an antimetabolite anticancer chemotherapeutic drug and a purine nucleoside approved for the treatment of relapsed or refractory acute lymphoblastic leukemia. It functions as both a substrate of Deoxycytidine Kinase (dCK) and an inhibitor of DNA synthesis. DNA polymerase-α and -ε are competed with by clofarabine triphosphate, which is produced when clofarabine is phosphorylated. DNA elongation and repair are hampered when clofarabine-monophosphate is incorporated into internal and terminal DNA sites at the same time. With an IC50 value of 65 nM, clofarabine triphosphate inhibits ribonucleotide reductase, reducing dCTP and dATP in the process. Through the nucleoside transporters hENT1, hENT2, and hCNT2, clofarabine is effectively incorporated into cells.

Biological Activity I Assay Protocols (From Reference)
Targets
Ribonucleotide reductase ( IC50 = 65 nM )
ln Vitro

Clofarabine is effectively transferred into cells by the concentrative nucleoside transporter hCNT253 as well as two facilitative or equilibrative nucleoside transporters, hENT1 and hENT2. After entering cells, cytosolic kinases phosphorylate clofarabine in a stepwise manner to its nucleotide analogues, clofarabine 5′-mono-, di-, and triphosphate; clofarabine triphosphate is the active form. Clofarabine 5′-mono-, di-, and triphosphate must be enzymatically converted back to their dephosphorylated nucleoside form by 5′-nucleotidase in order to be transported out of the cell. These compounds are not substrates for nucleoside transporters. With an IC50 of 65 nM, clofarabine triphosphate effectively inhibits ribonucleotide reductase, most likely through binding to the regulatory subunit's allosteric site. It has also been demonstrated that clofarabine directly affects mitochondria by changing the transmembrane potential and causing the cytosol to release caspase 9, cytochrome c, apoptotic-inducing factor (AIF), and apoptosis protease-activating factor 1 (APAF1). Strong in vitro growth inhibition and cytotoxic activity (IC50 values = 0.028–0.29 μM) are demonstrated by clofarabine in a range of solid tumor and leukemia cell lines. It has been demonstrated that clofarabine increases dCK activity in HL60 cells and increases ara-C mono-, di-, and triphosphate formation in K562 cells36.[1] In chronic lymphocytic leukemia (CLL) lymphocytes, clofarabine (10 μM) inhibits the repair that 4-hydroperoxycyclophosphamide (4-HC) started. In CLL lymphocytes, the inhibition peaks at intracellular concentrations of 5 μM. The combined effects of clofarabine (10 μM) and 4-hydroperoxycyclophosphamide (4-HC) result in more apoptotic cell death than the sum of their individual effects. The combination of clofarabine (1 μM) and ara-C (10 μM) causes synergistic cell death in K562 cells by biochemically modulating ara-CTP.[3]

ln Vivo
When clofarabine is injected intraperitoneally, it significantly inhibits the growth of numerous human tumor xenografts that are subcutaneously implanted in athymic nude or severely combined immune deficient mice.[1]
Cell Assay
Cell Line: NB4 cells
Concentration: 0.01-0.1 µM
Incubation Time: 48 hours
Result: Inhibited proliferation of NB4 cells in a concentration-depended manner.
Animal Protocol
Kunming mice (18-22 g, with equal numbers of male and female mice)
600, 480, 384, 307, 246 mg/kg
Injected intraperitoneally at 8:00 am, 12:00 noon, 8:00 pm and 12:00 midnight; 7 days continuous administration
References

[1]. Nat Rev Drug Discov . 2006 Oct;5(10):855-63.

[2]. Clin Cancer Res . 2001 Nov;7(11):3580-9.

[3]. Cancer Chemother Pharmacol . 2005 Apr;55(4):361-368.

These protocols are for reference only. InvivoChem does not independently validate these methods.
Physicochemical Properties
Molecular Formula
C10H11CLFN5O3
Molecular Weight
303.68
Exact Mass
303.05
Elemental Analysis
C, 39.55; H, 3.65; Cl, 11.67; F, 6.26; N, 23.06; O, 15.81
CAS #
123318-82-1
Related CAS #
123318-82-1
Appearance
Solid powder
SMILES
C1=NC2=C(N=C(N=C2N1[C@H]3[C@H]([C@@H]([C@H](O3)CO)O)F)Cl)N
InChi Key
WDDPHFBMKLOVOX-AYQXTPAHSA-N
InChi Code
InChI=1S/C10H11ClFN5O3/c11-10-15-7(13)5-8(16-10)17(2-14-5)9-4(12)6(19)3(1-18)20-9/h2-4,6,9,18-19H,1H2,(H2,13,15,16)/t3-,4+,6-,9-/m1/s1
Chemical Name
(2R,3R,4S,5R)-5-(6-amino-2-chloropurin-9-yl)-4-fluoro-2-(hydroxymethyl)oxolan-3-ol
Synonyms
C1 F-Ara-A; C1-F-Ara-A; Clofarabine; C1 F-Ara-A; trade names: Clofarex; Clolar. Abbreviation: CAFdA
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: 60 mg/mL (~197.6 mM)
Water: <1 mg/mL
Ethanol: <1 mg/mL
Solubility (In Vivo)
Solubility in Formulation 1: ≥ 2.08 mg/mL (6.85 mM) (saturation unknown) in 10% DMSO + 40% PEG300 + 5% Tween80 + 45% Saline (add these co-solvents sequentially from left to right, and one by one), clear solution.
For example, if 1 mL of working solution is to be prepared, you can add 100 μL of 20.8 mg/mL clear DMSO stock solution to 400 μL PEG300 and mix evenly; then add 50 μL Tween-80 to the above solution and mix evenly; then add 450 μL normal saline to adjust the volume to 1 mL.
Preparation of saline: Dissolve 0.9 g of sodium chloride in 100 mL ddH₂ O to obtain a clear solution.

Solubility in Formulation 2: ≥ 2.08 mg/mL (6.85 mM) (saturation unknown) in 10% DMSO + 90% (20% SBE-β-CD in Saline) (add these co-solvents sequentially from left to right, and one by one), clear solution.
For example, if 1 mL of working solution is to be prepared, you can add 100 μL of 20.8 mg/mL clear DMSO stock solution to 900 μL of 20% SBE-β-CD physiological saline solution and mix evenly.
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.

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Solubility in Formulation 3: ≥ 2.08 mg/mL (6.85 mM) (saturation unknown) in 10% DMSO + 90% Corn Oil (add these co-solvents sequentially from left to right, and one by one), clear solution.
For example, if 1 mL of working solution is to be prepared, you can add 100 μL of 20.8 mg/mL clear DMSO stock solution to 900 μL of corn oil and mix evenly.


 (Please use freshly prepared in vivo formulations for optimal results.)
Preparing Stock Solutions 1 mg 5 mg 10 mg
1 mM 3.2929 mL 16.4647 mL 32.9294 mL
5 mM 0.6586 mL 3.2929 mL 6.5859 mL
10 mM 0.3293 mL 1.6465 mL 3.2929 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

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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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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:
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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:
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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.

Clinical Trial Information
NCT Number Recruitment interventions Conditions Sponsor/Collaborators Start Date Phases
NCT01228331 Active
Recruiting
Drug: Amsacrine
Drug: Clofarabine
Leukemia Universitätsklinikum Hamburg-
Eppendorf
October 2010 Phase 2
Phase 3
NCT01701986 Active
Recruiting
Drug: Busulfan
Drug: Clofarabine
Refractory B-Cell Non-Hodgkin
Lymphoma
Refractory Hodgkin Lymphoma
M.D. Anderson Cancer Center October 25, 2012 Phase 1
Phase 2
NCT02085408 Active
Recruiting
Drug: Daunorubicin
Drug: Cytarabine
Adult Pure Erythroid Leukemia
(M6b)
Adult Erythroleukemia
(M6a)
ECOG-ACRIN Cancer Research Group February 4, 2011 Phase 3
NCT02425904 Active
Recruiting
Drug: Clofarabine Langerhans Cell Histiocytosis Dana-Farber Cancer Institute May 2015 Phase 2
NCT01885689 Active
Recruiting
Drug: clofarabine
Drug: melphalan
Chronic Myelomonocytic Leukemia
Myelodysplastic Syndrome
City of Hope Medical Center February 10, 2014 Phase 2
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