hm5dU – 5-hydroxymethyl-2'-deoxyuridine
Name | ||
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WID | hm5dU |
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Name | 5-hydroxymethyl-2'-deoxyuridine |
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Traditional name | 1-[4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-(hydroxymethyl)-3H-pyrimidine-2,4-dione | |
IUPAC name | 1-[4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-5-(hydroxymethyl)-1,2,3,4-tetrahydropyrimidine-2,4-dione | |
Cross references | ChEBI: 472579, PubChem: 85661900 | |
Classification | ||
Type | modified_deoxyribonucleoside |
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Structure | ||
Empirical formula (pH 7.5) | H14C10N2O6 | |
SMILES (pH 7.5) | C1C(C(OC1N2C=C(C(=O)NC2=O)CO)CO)O | |
Charge (pH 7.5) | 0 | |
Is hydrophobic | False |
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Molecular weight (Da) | 258.23 |
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van der Waals volume (pH 7.5; Å3 molecule‑1) |
214.52 | |
pI | 3.55 | |
logP | -2.40 | |
logD (pH 7.5) | -2.40 | |
Function | ||
Reaction participant |
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Comments | ||
Comments | 75 lesions per 10^6 bases [PUB_0479]; occurs in bacteriophage DNA [PUB_0477]; dT is completely replaced by hm5dU in some bacteriophage at the nucleotide precursor level, dCMP ==> dUMP ==> hm5dUMP ==> hm5dUTP, by dCMP deaminase, dUMP hydroxymethylase (not present in M. genitalium), deoxynucleotide monophosphate kinase, and nucleotide diphosphate kinase [PUB_0478]; | |
References |
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Metadata | ||
Created | 2012-10-01 15:07:00 | |
Last updated | 2012-10-01 15:12:15 |