Cytidine-5,6-d2 CAS No.: 2483831-93-0

Cytidine-5,6-d₂ | CAS No.: 2483831-93-0

Chemical Name: Cytidine-5,6-d₂
Molecular Formula: C₉H₁₁D₂N₃O₅
Molecular Weight: 247.22 g/mol
Isotopic Labeling: Deuterium (D₂) at positions 5 and 6 of the pyrimidine ring
Purity: ≥ 98% (isotopic and chemical purity confirmed by NMR and LC-MS)
Form: White to off-white crystalline solid
Storage Conditions: Store at –20°C, protected from moisture and light

Product Overview

Cytidine-5,6-d₂ is a stable isotope-labeled nucleoside in which two hydrogen atoms on the cytosine ring (positions 5 and 6) are replaced by deuterium. This isotopic substitution provides a precisely defined mass shift that makes Cytidine-5,6-d₂ an ideal internal standard for mass spectrometry-based quantification of cytidine and its metabolites in biological and biochemical studies.

At ResolveMass Laboratories Inc., we specialize in the synthesis of high-purity deuterium-labeled compounds designed to support advanced research in metabolomics, nucleic acid chemistry, drug metabolism, and isotope tracing. Cytidine-5,6-d₂ is part of our expanding portfolio of labeled nucleosides and nucleotide building blocks for analytical and R&D applications.

Chemical and Structural Information

Cytidine is a naturally occurring nucleoside composed of the base cytosine attached to a ribose sugar via a β-N1-glycosidic bond. It plays a crucial role in the biosynthesis of RNA, cellular signaling, and energy metabolism. In the Cytidine-5,6-d₂ analog, the incorporation of two deuterium atoms at the 5 and 6 positions of the pyrimidine ring does not alter its chemical reactivity or biological recognition but provides a distinct isotopic signature detectable by mass spectrometry.

This modification ensures minimal isotope exchange under physiological or analytical conditions, making it ideal for use as a stable isotope reference compound. The D₂-labeling pattern enhances mass resolution and provides precise differentiation from the unlabeled cytidine during LC-MS or GC-MS analysis.

Applications

1. Internal Standard in LC-MS and GC-MS Quantification

Cytidine-5,6-d₂ is widely used as an internal standard for the quantitative determination of cytidine and related metabolites such as:

• Uridine

• Cytosine

• CMP (cytidine monophosphate)

• CDP (cytidine diphosphate)

• CTP (cytidine triphosphate)

In bioanalytical assays, it corrects for variations in sample preparation, ionization efficiency, and instrument response—improving both accuracy and reproducibility of quantitative results.

2. Metabolomics and Stable Isotope Tracing

In cellular and metabolic studies, Cytidine-5,6-d₂ serves as a tracer molecule to monitor nucleotide metabolism pathways. Researchers can use it to:

• Track cytidine uptake and turnover rates in cells

• Study RNA biosynthesis and nucleoside salvage pathways

• Analyze cytidine pool dynamics during drug treatment or disease progression

The incorporation of deuterium provides a mass shift without altering biochemical behavior, enabling clear differentiation from endogenous unlabeled cytidine.

3. Pharmaceutical and Biochemical Research

Cytidine derivatives are central to the development of nucleoside analog drugs such as cytarabine and decitabine, used in antiviral and anticancer therapies. Cytidine-5,6-d₂ is valuable for:

• Pharmacokinetic and bioavailability studies of cytidine analogs

• Degradation and stability studies under various conditions

• Reference calibration standard for nucleoside analytical assays

Its isotopic labeling enhances the ability to distinguish synthetic cytidine analogs from natural cellular nucleosides during complex biological analyses.

4. Quality Control and Validation of Analytical Methods

Analytical laboratories and CROs employ Cytidine-5,6-d₂ for method validation, ensuring consistent instrument performance and quantitation accuracy. It is used in:

• System suitability testing for LC-MS systems

• Recovery and matrix effect studies

• Linearity and sensitivity evaluations for nucleoside quantification assays

Analytical Characterization

Each batch of Cytidine-5,6-d₂ undergoes rigorous analytical testing to ensure isotopic integrity and high chemical purity. Typical characterization includes:

• ¹H and ²H NMR Spectroscopy – to confirm deuterium incorporation at the 5,6 positions of the cytosine ring.

• LC-MS and HRMS – for molecular weight confirmation and isotopic purity quantification.

• HPLC Purity Testing – ensures >98% purity for consistent analytical performance.

• FTIR and Elemental Analysis – for complete compound verification.

A Certificate of Analysis (CoA) is provided with every shipment, detailing isotopic enrichment, chromatographic purity, and physical characteristics.

Advantages of Cytidine-5,6-d₂

• Precisely defined D₂ labeling enhances analytical differentiation

• Chemically and biologically equivalent to native cytidine

• Ideal internal standard for LC-MS and GC-MS quantification

• High isotopic and chemical purity, ensuring data reproducibility

• Stable under long-term storage and experimental conditions

• Compatible with a wide range of biological matrices

Ordering Information

• Catalogue Number: RM-CD2483831

• Pack Sizes: 10 mg | 25 mg | 100 mg (custom sizes available)

• Lead Time: 2–4 weeks (bulk and custom synthesis on request)

• Shipping: Ambient or cold-chain options available worldwide

Safety and Handling

Cytidine-5,6-d₂ is considered non-hazardous under normal laboratory handling procedures. Avoid contact with moisture and store under recommended conditions. Use standard laboratory protective equipment and dispose of waste in accordance with institutional guidelines.

About ResolveMass Laboratories Inc.

ResolveMass Laboratories Inc. is a trusted provider of stable isotope-labeled reference standards, impurity synthesis, and analytical CRO services. Our expertise in custom synthesis, deuterium labeling, and structural characterization supports advanced research in pharmaceuticals, biotechnology, and metabolomics.

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