5-HYDROXYMETHYL-2'-DEOXYURIDINE

Base Information

• Chemical Name: 5-HYDROXYMETHYL-2'-DEOXYURIDINE
• CAS No.: 5116-24-5
• Molecular Formula: C₁₀H₁₄N₂O₆
• Molecular Weight: 258.231
• Hs Code.: 2934999090
• NSC Number: 749425
• Mol file: 5116-24-5.mol

Synonyms:Uridine,2'-deoxy-5-(hydroxymethyl)- (6CI,7CI,8CI); 2'-Deoxy-5-(hydroxymethyl)uridine;2'-Desoxy-5-hydroxymethyluridine; 5-(Hydroxymethyl)-2'-desoxyuridine;5-Hydroxymethyl-2'-deoxyuridine; 5-Hydroxymethyldeoxyuridine; a-Hydroxythymidine

Chemical Property of 5-HYDROXYMETHYL-2'-DEOXYURIDINE

Chemical Property:

• Melting Point: 176-179 °C
• Refractive Index: 1.5000 (estimate)
• Boiling Point: °Cat760mmHg
• PKA: 9.01±0.10(Predicted)
• Flash Point: °C
• PSA: 124.78000
• Density: 1.561g/cm³
• LogP: -2.33040
• Storage Temp.: −20°C
• Solubility.: DMSO (Slightly, Sonicated), Methanol (Slightly, Heated), Water (Slightly)
• XLogP3: -1.9
• Hydrogen Bond Donor Count: 4
• Hydrogen Bond Acceptor Count: 6
• Rotatable Bond Count: 3
• Exact Mass: 258.08518617
• Heavy Atom Count: 18
• Complexity: 396

Purity/Quality:

99% ^*data from raw suppliers

5-Hydroxymethyl-2’-deoxyuridine ^*data from reagent suppliers

Safty Information:

• Safety Statements: 24/25

MSDS Files:

SDS file from LookChem

Useful:

• Canonical SMILES: C1C(C(OC1N2C=C(C(=O)NC2=O)CO)CO)O
• Uses: 5-Hydroxymethyl-2’-deoxyuridine acts as a biomarker for the diagnosis for oxidative stress in humans. Used as a diagnostic to for propensitiy for the development of breast cancer.

Technology Process of 5-HYDROXYMETHYL-2'-DEOXYURIDINE

There total 54 articles about 5-HYDROXYMETHYL-2'-DEOXYURIDINE which guide to synthetic route it. The literature collected by LookChem mainly comes from the sharing of users and the free literature resources found by Internet computing technology. We keep the original model of the professional version of literature to make it easier and faster for users to retrieve and use. At the same time, we analyze and calculate the most feasible synthesis route with the highest yield for your reference as below:

synthetic route:

Reference yield: 90.0%

formaldehyd (50-00-0,30525-89-4,61233-19-0) + 2'-deoxyuridine (951-78-0,63844-76-8) → 2'-deoxy-5-(hydroxymethyl)uridine (5116-24-5,15425-01-1,143156-50-7)

Guidance literature:

With triethylamine; In water; at 60 ℃; for 144h;

DOI:10.1021/tx970186o

Reference yield: 85.0%

3',5'-bis(O-tert-butyldimethylsilyl)-5-hydroxymethyl-2'-deoxyuridine (354581-59-2) → 2'-deoxy-5-(hydroxymethyl)uridine (5116-24-5,15425-01-1,143156-50-7)

Guidance literature:

With tetrabutyl ammonium fluoride; In tetrahydrofuran;

DOI:10.1039/d0sc04161k

Reference yield: 45.0%

trans-(5R,6R)-6-hydroxy-5-(2,2,6,6-tetramethyl-4-oxo-1-piperidinyl-N-oxide)-5,6-dihydrothymidine (96221-62-4,96290-63-0) → 2'-deoxy-5-(hydroxymethyl)uridine (5116-24-5,15425-01-1,143156-50-7)

Guidance literature:

In water; at 30 ℃; for 48h;

DOI:10.1139/v85-002

upstream raw materials:

formaldehyd

2'-deoxyuridine

(5R,6R)-trans-(+)-5-bromo-6-hydroxy-5,6-dihydrothymidine

trans-(5S,6S)-6-hydroxy-5-(2,2,6,6-tetramethyl-4-oxo-1-piperidinyl-N-oxide)-5,6-dihydrothymidine

Downstream raw materials:

thymidine

5-acetoxymethyl-2’-deoxyuridine

5-(azidomethyl)-5'-azido-2',5'-dideoxyuridine

5-(azidomethyl)-1-((2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)-tetrahydrofuran-2-yl)pyrimidine-2,4(1H,3H)-dione

Refernces

Selective one-electron oxidation of duplex DNA oligomers: Reaction at thymines

10.1039/b717437c

The research investigates the one-electron oxidation of DNA duplex oligomers that do not contain guanine, focusing on the reactions at thymine bases. The purpose is to understand the mechanisms and products of oxidation in DNA sequences lacking guanine, which is typically the most reactive base in DNA oxidation. The study uses anthraquinone (AQ) as a photosensitizer linked to DNA oligomers to generate radical cations upon UVA irradiation. The key findings are that thymine, despite having a higher oxidation potential than adenine, is the primary site of oxidation reactions, leading to products such as thymidine glycols, 5-(hydroxymethyl)-2'-deoxyuridine, and 5-formyl-2'-deoxyuridine. 5-Hydroxymethyl-2'-deoxyuridine (5-HMdUrd) is formed through the reaction of the thymine radical cation with molecular oxygen (O2) after the initial deprotonation of the thymine methyl group. This process involves the formation of a transient 5-(2'-deoxyuridinyl)methyl radical, which is subsequently trapped by O2. 5-Formyl-2'-deoxyuridine (5-FormdUrd) is another product formed from the reaction of the thymine radical cation. Similar to 5-HMdUrd, its formation involves the initial deprotonation of the thymine methyl group, followed by reaction with molecular oxygen (O2). The research concludes that the reactivity of the thymine radical cation, rather than its stability, determines the oxidation products. The study also proposes a mechanism involving proton loss from the thymine methyl group or addition of H2O/O2 across the thymine double bond, which can initiate tandem reactions converting both thymines in a TT step to oxidation products. This work has implications for understanding oxidative damage in genomic DNA, particularly in sequences with few guanines.

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