2. Epigenetics Metabolic Enzyme/Protease
  3. DNA Methyltransferase Endogenous Metabolite
  4. 5-Methyl-2'-deoxycytidine

5-Methyl-2'-deoxycytidine  (Synonyms: 5-Methyldeoxycytidine)

Cat. No.: HY-W012078 Purity: 99.87%
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5-Methyl-2'-deoxycytidine (5mdC) is an endogenous substrate of DNA methyltransferases (such as mammalian 5-C-MTase) and binds to DNA dependent on the formation of DNA stem-loop structures. 5-Methyl-2'-deoxycytidine guides de novo DNA methylation by acting as a methylation mark and activates the methylation of adjacent CpG sites in single-stranded DNA through cis action. 5-Methyl-2'-deoxycytidine regulates DNA methylation patterns by recruiting methyltransferases to specific chromatin regions, affecting chromatin condensation and gene expression. Its distribution in plant cells is related to cell proliferation and differentiation stages. The methylation level of 5-Methyl-2'-deoxycytidine is low in proliferating cells and high in differentiated cells.

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5-Methyl-2'-deoxycytidine Chemical Structure

5-Methyl-2'-deoxycytidine Chemical Structure

CAS No. : 838-07-3

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Based on 3 publication(s) in Google Scholar

Other Forms of 5-Methyl-2'-deoxycytidine:

5-Methyl-2'-deoxycytidine Related Antibodies

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Description

5-Methyl-2'-deoxycytidine (5mdC) is an endogenous substrate of DNA methyltransferases (such as mammalian 5-C-MTase) and binds to DNA dependent on the formation of DNA stem-loop structures. 5-Methyl-2'-deoxycytidine guides de novo DNA methylation by acting as a methylation mark and activates the methylation of adjacent CpG sites in single-stranded DNA through cis action. 5-Methyl-2'-deoxycytidine regulates DNA methylation patterns by recruiting methyltransferases to specific chromatin regions, affecting chromatin condensation and gene expression. Its distribution in plant cells is related to cell proliferation and differentiation stages. The methylation level of 5-Methyl-2'-deoxycytidine is low in proliferating cells and high in differentiated cells[1][2][3].

IC50 & Target

Human Endogenous Metabolite

 

In Vitro

In the in vitro DNA methyltransferase (5-C-MTase) activity assay, 5-Methyl-2'-deoxycytidine (0.5 μg; 30 min) can be recognized by the mouse enzyme as a substrate, and can enhance the methylation rate of adjacent CpG sites in single-stranded DNA through cis action. Its activation effect is related to the formation of stem-loop structure[1].
In the immunofluorescence staining experiment, the mouse monoclonal antibody anti-5dmC antibody with a 1:50 antibody dilution is used to incubate plant cells (tobacco anthers, onion root tips) for 1 h. The results shows that the nuclear distribution of 5-Methyl-2'-deoxycytidine is related to the chromatin condensation state, and the fluorescence intensity in differentiated cells is significantly higher than that in proliferating cells[2].

MedChemExpress (MCE) has not independently confirmed the accuracy of these methods. They are for reference only.

5-Methyl-2'-deoxycytidine Related Antibodies
Molecular Weight

241.25

Formula

C10H15N3O4
CAS No.
Appearance

Solid

Color

White to off-white

SMILES

OC[C@@H]1[C@@H](O)C[C@H](N2C(N=C(N)C(C)=C2)=O)O1
Structure Classification
Initial Source
Shipping

Room temperature in continental US; may vary elsewhere.
Storage

4°C, protect from light

*In solvent : -80°C, 6 months; -20°C, 1 month (protect from light)

Solvent & Solubility
In Vitro: 

DMSO : ≥ 100 mg/mL (414.51 mM; Hygroscopic DMSO has a significant impact on the solubility of product, please use newly opened DMSO)

H2O : 100 mg/mL (414.51 mM; Need ultrasonic)

*"≥" means soluble, but saturation unknown.

Preparing
Stock Solutions
Concentration Solvent Mass 1 mg 5 mg 10 mg
1 mM 4.1451 mL 20.7254 mL 41.4508 mL
5 mM 0.8290 mL 4.1451 mL 8.2902 mL
View the Complete Stock Solution Preparation Table

* Please refer to the solubility information to select the appropriate solvent. Once prepared, please aliquot and store the solution to prevent product inactivation from repeated freeze-thaw cycles.
Storage method and period of stock solution: -80°C, 6 months; -20°C, 1 month (protect from light). When stored at -80°C, please use it within 6 months. When stored at -20°C, please use it within 1 month.

* Note: If you choose water as the stock solution, please dilute it to the working solution, then filter and sterilize it with a 0.22 μm filter before use.

  • Molarity Calculator

  • Dilution Calculator

Mass (g) = Concentration (mol/L) × Volume (L) × Molecular Weight (g/mol)

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Concentration (start) × Volume (start) = Concentration (final) × Volume (final)

This equation is commonly abbreviated as: C1V1 = C2V2

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In Vivo:

Select the appropriate dissolution method based on your experimental animal and administration route.

For the following dissolution methods, please ensure to first prepare a clear stock solution using an In Vitro approach and then sequentially add co-solvents:
To ensure reliable experimental results, the clarified stock solution can be appropriately stored based on storage conditions. As for the working solution for in vivo experiments, it is recommended to prepare freshly and use it on the same day.
The percentages shown for the solvents indicate their volumetric ratio in the final prepared solution. If precipitation or phase separation occurs during preparation, heat and/or sonication can be used to aid dissolution.

  • Protocol 1

    Add each solvent one by one:  10% DMSO    40% PEG300    5% Tween-80    45% Saline

    Solubility: ≥ 2.5 mg/mL (10.36 mM); Clear solution

    This protocol yields a clear solution of ≥ 2.5 mg/mL (saturation unknown).

    Taking 1 mL working solution as an example, add 100 μL DMSO stock solution (25.0 mg/mL) to 400 μL PEG300, and mix evenly; then add 50 μL Tween-80 and mix evenly; then add 450 μL Saline to adjust the volume to 1 mL.

    Preparation of Saline: Dissolve 0.9 g sodium chloride in ddH₂O and dilute to 100 mL to obtain a clear Saline solution.
  • Protocol 2

    Add each solvent one by one:  10% DMSO    90% (20% SBE-β-CD in Saline)

    Solubility: ≥ 2.5 mg/mL (10.36 mM); Clear solution

    This protocol yields a clear solution of ≥ 2.5 mg/mL (saturation unknown).

    Taking 1 mL working solution as an example, add 100 μL DMSO stock solution (25.0 mg/mL) to 900 μL 20% SBE-β-CD in Saline, and mix evenly.

    Preparation of 20% SBE-β-CD in Saline (4°C, storage for one week): 2 g SBE-β-CD powder is dissolved in 10 mL Saline, completely dissolve until clear.

For the following dissolution methods, please prepare the working solution directly. It is recommended to prepare fresh solutions and use them promptly within a short period of time.
The percentages shown for the solvents indicate their volumetric ratio in the final prepared solution. If precipitation or phase separation occurs during preparation, heat and/or sonication can be used to aid dissolution.

  • Protocol 1

    Add each solvent one by one:  PBS

    Solubility: 100 mg/mL (414.51 mM); Clear solution; Need ultrasonic

In Vivo Dissolution Calculator
Please enter the basic information of animal experiments:

Dosage

mg/kg

Animal weight
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g

Dosing volume
(per animal)

μL

Number of animals

Recommended: Prepare an additional quantity of animals to account for potential losses during experiments.
Calculation results:
Working solution concentration: mg/mL
This product has good water solubility, please refer to the measured solubility data in water/PBS/Saline for details.
The concentration of the stock solution you require exceeds the measured solubility. The following solution is for reference only.If necessary, please contact MedChemExpress (MCE).
Purity & Documentation

Purity: 99.87%

SDS (393 KB)

COA (252 KB) HNMR (124 KB) RP-HPLC (318 KB)

Handling Instructions (2659 KB)
References

Complete Stock Solution Preparation Table

* Please refer to the solubility information to select the appropriate solvent. Once prepared, please aliquot and store the solution to prevent product inactivation from repeated freeze-thaw cycles.
Storage method and period of stock solution: -80°C, 6 months; -20°C, 1 month (protect from light). When stored at -80°C, please use it within 6 months. When stored at -20°C, please use it within 1 month.

Optional Solvent Concentration Solvent Mass 1 mg 5 mg 10 mg 25 mg
DMSO / H2O 1 mM 4.1451 mL 20.7254 mL 41.4508 mL 103.6269 mL
5 mM 0.8290 mL 4.1451 mL 8.2902 mL 20.7254 mL
10 mM 0.4145 mL 2.0725 mL 4.1451 mL 10.3627 mL
15 mM 0.2763 mL 1.3817 mL 2.7634 mL 6.9085 mL
20 mM 0.2073 mL 1.0363 mL 2.0725 mL 5.1813 mL
25 mM 0.1658 mL 0.8290 mL 1.6580 mL 4.1451 mL
30 mM 0.1382 mL 0.6908 mL 1.3817 mL 3.4542 mL
40 mM 0.1036 mL 0.5181 mL 1.0363 mL 2.5907 mL
50 mM 0.0829 mL 0.4145 mL 0.8290 mL 2.0725 mL
60 mM 0.0691 mL 0.3454 mL 0.6908 mL 1.7271 mL
80 mM 0.0518 mL 0.2591 mL 0.5181 mL 1.2953 mL
100 mM 0.0415 mL 0.2073 mL 0.4145 mL 1.0363 mL

* Note: If you choose water as the stock solution, please dilute it to the working solution, then filter and sterilize it with a 0.22 μm filter before use.

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5-Methyl-2'-deoxycytidine Related Classifications

Help & FAQs
  • Do most proteins show cross-species activity?

    Species cross-reactivity must be investigated individually for each product. Many human cytokines will produce a nice response in mouse cell lines, and many mouse proteins will show activity on human cells. Other proteins may have a lower specific activity when used in the opposite species.

Keywords:

5-Methyl-2'-deoxycytidine838-07-35-MethyldeoxycytidineDNA MethyltransferaseEndogenous MetaboliteDNMTsDNA MTasesInhibitorinhibitorinhibit

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