5-Aza-2'-deoxycytidine Chemical Properties

Melting point:

~200 °C (dec.)

alpha 

D22 +68.5° (30 min) +57.8° (6 hr) (c = 0.5 in water)

Boiling point:

370.01°C (rough estimate)

Density 

1.3771 (rough estimate)

refractive index 

1.6590 (estimate)

storage temp. 

Keep in dark place,Inert atmosphere,Store in freezer, under -20°C

solubility 

acetic acid/water (1:1): 50 mg/mL

form 

Powder

pka

14.02±0.60(Predicted)

color 

White to Off-white

Merck 

14,2853

BRN 

617982

Stability:

Stable. May be light or air sensitive. Incompatible with strong oxidizing agents.

InChIKey

XAUDJQYHKZQPEU-KVQBGUIXSA-N

CAS DataBase Reference

2353-33-5(CAS DataBase Reference)

EPA Substance Registry System

5-Aza-2'-deoxycytidine (2353-33-5)

Safety Information

Hazard Codes 

Xn,Xi,T

Risk Statements 

22-36/37/38-68-61

Safety Statements 

26-36-36/37

WGK Germany 

3

RTECS 

XZ3012000

F 

10-34

HS Code 

29349990

Toxicity

LD50 in mice (mg/kg): 190 i.p. (Momparler, 1985)

MSDS

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5-Aza-2'-deoxycytidine Usage And Synthesis

Indications and Usage

5-Aza-2’-deoxycytidine, also known as decitabine or 2'-deoxy-5-azacytidine, is a cell cycle S phase-specific drug used to treat myelodysplastic syndromes (MDS.)

Mechanisms of Action

Demethylating agents can regulate gene expression by activating tumor suppressor genes and enhancing the differentiation of genes, which help treat MDS. 5-Aza-2’-deoxycytidine is a natural andenosine analogue of 2′-deoxycytidine, known to the be strongest methylation specific inhibitor of DNA. After phosphorylation it can inhibit DNA methyltransferase, reducing DNA methylation, leading to demethylation of tumor cells, which can restore the normal functioning of genes, thus inhibiting tumor cell proliferation and preventing the occurrence of drug resistance. 5-Aza-2’-deoxycytidine inhibits DNA methylation in vitro, but does not affect its synthesis. Moreover, non-proliferating cells are not sensitive to it. 5-Aza-2’-deoxycytidine has anti-tumor activity and is characterized by a dual mechanism based on dose differences. At high concentrations it is cytoxic, while at low concentrations it is demethlyating.

Side Effects

• Neutropenia, thrombocytopenia, anemia, vomiting, fatigue, fever, cough, nausea, constipation, diarrhea, hyperglycemia, and heat induced neutrophil.
• Large doses may cause neurotoxicity, manifested as lethargy, aphasia, hemiplegia, etc., which disappears after stopping.

Category

toxic substance

Toxicity grading

high

Acute toxicity

Intravenous – mouse LD50: 22 mg/kg; peritoneal – mouse LD50: 190 mg/kg

Flammability Hazardous characteristics

Combustible; produces toxic nitrogen oxide fumes.

Storage characteristics

Ventilated, cold, and dry; store away from raw food materials.

Fire extinguishing agent

dry powder, foam, sand, carbon dioxide, water mist.

Description

Decitabine, 5-aza-2’-deoxycytidine, has been launched for the treatment of myelodysplastic syndromes (MDS). MDS are a set of hematologic disorders affecting the bone marrow that result in ineffective formation and development of blood cells. Furthermore, patients with MDS have a high risk of progressing to acute myeloid leukemia (AML). Traditional treatments include blood transfusions, hematopoietic growth factors, and prophylactic antibiotics, but these measures merely improve the quality of life with questionable effects on disease modification. While stem-cell transplantation is an aggressive, potentially curative approach, the advanced age or the other complicating health issues of most patients preclude them from considering this option. Recent advances in the underlying etiology of MDS, however, have led to the development of a new class of compounds known as ‘‘demethylating agents’’. Decitabine follows the successful introduction of the first DNA methyltransferase inhibitor azacitidine.

Chemical Properties

white crystalline powder

Originator

Pharmachemie (Netherlands)

Uses

Used as cancer treatment, in particular to inhibit the growth of pancreatic endocrine tumor cell lines.

Uses

Decitabine is a potent inhibitor of DNA methylation with IC50 of 438 nM and 4.38 nM in HL-60 and KG1a cells, respectively

Uses

5-Aza-2′-deoxycytidine has been used as a demethylating agent in breast cancer cell line, chromatin, DNA and promoter region of p16 gene.

Definition

ChEBI: 5-aza-2'-deoxycytidine is a 2'-deoxyribonucleoside.

brand name

Dacogen (Millot Laboratories, France).

General Description

Fine white crystalline powder. Used as a drug.

Air & Water Reactions

Probably light and air sensitive. Water soluble. Decomposes in aqueous solution at a rate that depends on pH: at pH 7 the drug is more stable than at pH 9, but is less stable than at pH 6. At pH 7 and 99°F, approximately 7% conversion occurs in 1 hour .

Reactivity Profile

5-Aza-2'-deoxycytidine is an aminoalcohol. Amines are chemical bases. They neutralize acids to form salts plus water. These acid-base reactions are exothermic. The amount of heat that is evolved per mole of amine in a neutralization is largely independent of the strength of the amine as a base. Amines may be incompatible with isocyanates, halogenated organics, peroxides, phenols (acidic), epoxides, anhydrides, and acid halides. Flammable gaseous hydrogen is generated by amines in combination with strong reducing agents, such as hydrides.

Fire Hazard

Flash point data for 5-Aza-2'-deoxycytidine are not available. 5-Aza-2'-deoxycytidine is probably combustible.

Biological Activity

Cytosine analog that once incorporated into DNA acts as a suicide substrate for DNA methyltransferase. Inhibits DNA methyltransferase and results in DNA hypomethylation and activation of silent genes. Chemotherapeutic agent; suppresses growth of human tumor cell lines. Demethylates differentiation-related genes; reverses embryonic stem cell differentiation.

Biochem/physiol Actions

Primary TargetDNA methyltransferase inhibitor

Clinical Use

Antineoplastic antimetabolite agent:
Treatment of acute myeloid leukaemia

Safety Profile

Poison by intravenous route.Human mutation data reported. When heated todecomposition it emits toxic fumes of NOx.

Synthesis

Silylated 5-aza-cytosine (28) was condensed with 9- fluorenylmethoxycarbonyl (Fmoc) protected 2-deoxy-1-chlororibose (27) with tin chloride (IV) in dichloroethane (Scheme 4). The coupled product 29 was de-protected with excess triethylamine in dry pyridine to give decitabine (IV) in 36% yield after separation from its corresponding |áisomer.

target

Telomerase | DNA Methyltransferase | p21

Drug interactions

Potentially hazardous interactions with other drugs
Antipsychotics: avoid with clozapine, increased risk of agranulocytosis.

Metabolism

The exact route of metabolism and elimination is unknown but thought to be through deamination by cytidine deaminase in the liver, kidney, intestinal epithelium and blood to form inactive metabolites.

storage

+4°C

References

1) Bender et al. (1998), Inhibition of DNA methylation by 5-aza-2′-deoxycytidine suppresses the growth of human tumor cell lines; Cancer Res., 58 95 2) El-Serafi et al. (2011), Epigenetic modifiers influence lineage commitment of human bone marrow stromal cells: Differential effects of 5-aza-deoxycytidine and trichostatin A; Differentiation, 81 35

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