Record Information
Version 1.0
Update Date 1/22/2018 11:54:54 AM
Metabolite IDPAMDB120017
Identification
Name: 5,6-dihydrothymine
Description:A pyrimidone obtained by formal addition of hydrogen across the 5,6-position of thymine.
Structure
Thumb
Synonyms:
  • 5,6-Dihydro-5-methyluracil
  • 5,6-Dihydrothymine
  • 5,6-dihydrothymine
  • 5-Methyl-5,6-dihydrouracil
  • Dihydrothymine
Chemical Formula: C5H8N2O2
Average Molecular Weight: 128.13
Monoisotopic Molecular Weight: 128.05858
InChI Key: NBAKTGXDIBVZOO-UHFFFAOYSA-N
InChI:InChI=1S/C5H8N2O2/c1-3-2-6-5(9)7-4(3)8/h3H,2H2,1H3,(H2,6,7,8,9)
CAS number: 696-04-8
IUPAC Name:5,6-dihydrothymine
Traditional IUPAC Name: dihydrothymine
SMILES:CC1(C(NC(=O)NC1)=O)
Chemical Taxonomy
Taxonomy DescriptionThis compound belongs to the class of chemical entities known as ureides. These are compounds containing an ureide group with the general structure R1-CO-NH-CO-N(R)2R3, formally derived by the acylation of urea. They can be subdivided in N-acyl or N,N'-diacyl ureas.
Kingdom Chemical entities
Super ClassOrganic compounds
Class Organic acids and derivatives
Sub ClassOrganic carbonic acids and derivatives
Direct Parent Ureides
Alternative Parents
Substituents
  • Ureide
  • 5,6-dihydropyrimidine
  • Hydropyrimidine
  • Azacycle
  • Organoheterocyclic compound
  • Organic 1,3-dipolar compound
  • Propargyl-type 1,3-dipolar organic compound
  • Organic nitrogen compound
  • Organic oxygen compound
  • Organopnictogen compound
  • Hydrocarbon derivative
  • Organooxygen compound
  • Organonitrogen compound
  • Aliphatic heteromonocyclic compound
Molecular Framework Aliphatic heteromonocyclic compounds
External Descriptors
Physical Properties
State: Solid
Charge:0
Melting point: Not Available
Experimental Properties:
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
Water Solubility18.7 mg/mLALOGPS
logP-0.8ALOGPS
logP-0.67ChemAxon
logS-0.84ALOGPS
pKa (Strongest Acidic)11.7ChemAxon
pKa (Strongest Basic)-7.4ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count2ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area58.2 Å2ChemAxon
Rotatable Bond Count0ChemAxon
Refractivity30.32 m3·mol-1ChemAxon
Polarizability12.03 Å3ChemAxon
Number of Rings1ChemAxon
Bioavailability1ChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleYesChemAxon
Biological Properties
Cellular Locations: Not Available
Reactions:
Pathways:
Spectra
Spectra:
Spectrum TypeDescriptionSplash Key
GC-MSGC-MS Spectrum - GC-MS (1 TMS)splash10-000i-5900000000-0b84b9786838d29e07abView in MoNA
GC-MSGC-MS Spectrum - GC-MS (2 TMS)splash10-0zmi-8980000000-d75d30c6e5fdb4643aa5View in MoNA
LC-MS/MSLC-MS/MS Spectrum - Quattro_QQQ 10V, Positive (Annotated)splash10-004i-8900000000-db662635cbae4d48204bView in MoNA
LC-MS/MSLC-MS/MS Spectrum - Quattro_QQQ 25V, Positive (Annotated)splash10-0006-9000000000-c3960ffe99d74c617000View in MoNA
LC-MS/MSLC-MS/MS Spectrum - Quattro_QQQ 40V, Positive (Annotated)splash10-0006-9000000000-9a6c2715f931ff084157View in MoNA
MSMass Spectrum (Electron Ionization)splash10-004l-9200000000-873ae62dcdf602237ec1View in MoNA
1D NMR1H NMR SpectrumNot Available
1D NMR1H NMR SpectrumNot Available
1D NMR13C NMR SpectrumNot Available
2D NMR[1H,13C] 2D NMR SpectrumNot Available
References
References:
  • Hofmann U, Schwab M, Seefried S, Marx C, Zanger UM, Eichelbaum M, Mürdter TE (2003)Sensitive method for the quantification of urinary pyrimidine metabolites in healthy adults by gas chromatography-tandem mass spectrometry. Journal of chromatography. B, Analytical technologies in the biomedical and life sciences 791, Pubmed: 12798197
  • Tainaka K, Fujitsuka M, Takada T, Kawai K, Majima T (2010)Sequence dependence of excess electron transfer in DNA. The journal of physical chemistry. B 114, Pubmed: 20509700
  • Hubbard K, Ide H, Erlanger BF, Wallace SS (1989)Characterization of antibodies to dihydrothymine, a radiolysis product of DNA. Biochemistry 28, Pubmed: 2669952
Synthesis Reference: Yamane, Tetsuo; Wyluda, Benjamin J.; Shulman, Robert G. Dihydrothymine from ultraviolet-irradiated DNA. Proceedings of the National Academy of Sciences of the United States of America (1967), 58(2), 439-42.
Material Safety Data Sheet (MSDS) Download (PDF)
External Links:
ResourceLink
METABOLIGHTSMTBLC27468
HMDBHMDB00079
CHEMSPIDER14083692
PUBCHEM93556
CHEBI27468
LIGAND-CPDC00906