Modified Nucleosides
5-Hydroxymethyl-2'-deoxyuridine
Quick view. We supply 5-Hydroxymethyl-2'-deoxyuridine as a specialty product for nucleic acid chemistry and oligonucleotide research workflows. CAS 5116-24-5. Catalog target purity: Specification on request.
Product profile
5-Hydroxymethyl-2'-deoxyuridine is classified as nucleoside or protected nucleoside intermediate (Formula C10H14N2O6; molecular weight 258.23).
5-Hydroxymethyl-2'-deoxyuridine can serve as a starting material, protected intermediate or analytical comparator in nucleoside and nucleotide route development.
For 5-Hydroxymethyl-2'-deoxyuridine, reported solubility: DMSO (Slightly, Sonicated), Methanol (Slightly, Heated), Water (Slightly). Storage: Sealed in dry,2-8°C.
Names and search terms
Confirmed or normalized name variants
- 5-HMdU
- HMdUdr
- α-Hydroxythymidine
- 5-HYDROXYMETHYL-2'-D
- 5-hydroxymethyl-2'-dU
- Thymidine, α-hydroxy-
- alpha-hydroxythymidine
- 5-hydroxymethyldeoxyuridine
Useful catalog search terms
- CAS 5116-24-5
- Nucleoside or protected nucleoside intermediate
- fluorescent label
- Modified Nucleosides
Physicochemical data
| Key chemistry motifs | fluorescent label |
|---|---|
| InChI | InChI=1S/C10H14N2O6/c13-3-5-2-12(10(17)11-9(5)16)8-1-6(15)7(4-14)18-8/h,6-8,13-15H,1,3-4H2,(H,11,16,17)/t6-,7+,8+/m0/s |
| InChIKey | IPAVKOYJGUMINP-XLPZGREQSA-N |
| SMILES | C1[C@@H]([C@H](O[C@H]1N2C=C(C(=O)NC2=O)CO)CO)O |
| Melting point | 176-179 °C |
| Boiling point | 401.48°C (rough estimate) |
| Density | 1.3598 (rough estimate) |
| pKa | 9.01±0.10(Predicted) |
| Form | Solid |
| Color | White to Off-White |
Release documentation
The current specification defines the analytical method and acceptance criteria; the released lot result is reported on the CoA.
Additional HPLC, MS or NMR documentation can be agreed during technical review where available.
Additional application examples
- Typical work includes protection/deprotection studies, phosphorylation or phosphitylation route scouting and impurity identification.
- The material can support medicinal-chemistry analog preparation and process-development feasibility studies.
Product-specific evaluation notes
Potential advantages
- Fluorescent labels enable non-radioactive detection and can reduce downstream staining or secondary-label steps.
Method limitations
- Dye-labeled nucleotides or amidites are bulkier than native monomers; incorporation efficiency, label density, photobleaching and light exposure should be controlled.
These points describe 5-Hydroxymethyl-2'-deoxyuridine or its named chemical feature. Broader product-family guidance is maintained on the category page.
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Frequently asked questions
Can the package size for 5-Hydroxymethyl-2'-deoxyuridine be customized?
Yes. Share the initial quantity, expected future scale, delivery timeline and packaging preference for review.
What information should be included in a quote request?
Quote catalog number BX-MN-0573 and CAS 5116-24-5, the intended research workflow, required quantity and any additional HPLC, MS or NMR documentation needed.
Product-relevant literature
The publications below discuss 5-Hydroxymethyl-2'-deoxyuridine or the named structural feature represented by this product.