Record Information
Version1.0
Creation date2010-04-08 22:09:29 UTC
Update date2019-11-26 03:04:37 UTC
Primary IDFDB011145
Secondary Accession NumbersNot Available
Chemical Information
FooDB NameD-Ribose
DescriptionD-Ribose belongs to the class of organic compounds known as pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms. D-Ribose is an extremely weak basic (essentially neutral) compound (based on its pKa). D-Ribose has been detected, but not quantified in, several different foods, such as garden onions, mung beans, dates, tarragons, and garden tomato. This could make D-ribose a potential biomarker for the consumption of these foods.
CAS Number613-83-2
Structure
Thumb
Synonyms
SynonymSource
(2R,3R,4R)-2,3,4,5-TetrahydroxypentanalChEBI
D-Ribo-2,3,4,5-tetrahydroxyvaleraldehydeChEBI
D-RiboseChEBI
D RiboseMeSH
RiboseMeSH
(-)-Ribosemanual
(3R,4S,5R)-5-(Hydroxymethyl)tetrahydrofuran-2,3,4-triolChEBI
alpha-D-RiboseHMDB
alpha-D-Ribose-5HMDB
alpha-delta-RiboseHMDB
alpha-delta-Ribose-5HMDB
D-(-)-Ribosebiospider
delta-(-)-RiboseHMDB
delta-Ribo-2,3,4,5-tetrahydroxyvaleraldehydeHMDB
delta-RiboseHMDB
Ribose, D-biospider
Predicted Properties
PropertyValueSource
Water Solubility380 g/LALOGPS
logP-2.3ALOGPS
logP-2.9ChemAxon
logS0.4ALOGPS
pKa (Strongest Acidic)12.33ChemAxon
pKa (Strongest Basic)-3ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count5ChemAxon
Hydrogen Donor Count4ChemAxon
Polar Surface Area97.99 ŲChemAxon
Rotatable Bond Count4ChemAxon
Refractivity31.38 m³·mol⁻¹ChemAxon
Polarizability13.39 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Chemical FormulaC5H10O5
IUPAC name(2R,3R,4R)-2,3,4,5-tetrahydroxypentanal
InChI IdentifierInChI=1S/C5H10O5/c6-1-3(8)5(10)4(9)2-7/h1,3-5,7-10H,2H2/t3-,4+,5-/m0/s1
InChI KeyPYMYPHUHKUWMLA-LMVFSUKVSA-N
Isomeric SMILESOC[C@@H](O)[C@@H](O)[C@@H](O)C=O
Average Molecular Weight150.1299
Monoisotopic Molecular Weight150.05282343
Classification
Description Belongs to the class of organic compounds known as pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms.
KingdomOrganic compounds
Super ClassOrganic oxygen compounds
ClassOrganooxygen compounds
Sub ClassCarbohydrates and carbohydrate conjugates
Direct ParentPentoses
Alternative Parents
Substituents
  • Pentose monosaccharide
  • Beta-hydroxy aldehyde
  • Alpha-hydroxyaldehyde
  • Secondary alcohol
  • Polyol
  • Organic oxide
  • Hydrocarbon derivative
  • Short-chain aldehyde
  • Primary alcohol
  • Carbonyl group
  • Aldehyde
  • Alcohol
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Ontology
OntologyNo ontology term
Physico-Chemical Properties - Experimental
Physico-Chemical Properties - Experimental
PropertyValueReference
Physical stateSolid
Physical DescriptionNot Available
Mass CompositionC 40.00%; H 6.71%; O 53.28%DFC
Melting PointMp 95° (87°)DFC
Boiling PointNot Available
Experimental Water SolubilityNot Available
Experimental logP-2.32HANSCH,C ET AL. (1995)
Experimental pKapKa1 12.22 (25°)DFC
Isoelectric pointNot Available
ChargeNot Available
Optical Rotation[a]D -21.5 -> -19.5 (H2O)DFC
Spectroscopic UV DataNot Available
DensityNot Available
Refractive IndexNot Available
Spectra
Spectra
EI-MS/GC-MS
TypeDescriptionSplash KeyView
GC-MSD-Ribose, 1 MEOX; 4 TMS, GC-MS Spectrumsplash10-0udi-1920000000-2a376699e06455c76ff7Spectrum
GC-MSD-Ribose, 1 MEOX; 4 TMS, GC-MS Spectrumsplash10-0uxr-0941000000-7b9d79f55ddb22a39810Spectrum
MS/MS
TypeDescriptionSplash KeyView
Predicted MS/MSPredicted LC-MS/MS Spectrum - 10V, Positivesplash10-0udi-1900000000-02fa5cc31ab8dbb905f4Spectrum
Predicted MS/MSPredicted LC-MS/MS Spectrum - 20V, Positivesplash10-0a4i-9300000000-488a7d403a017dcbe690Spectrum
Predicted MS/MSPredicted LC-MS/MS Spectrum - 40V, Positivesplash10-0a4i-9000000000-286fb77ba9fa6970f4f9Spectrum
Predicted MS/MSPredicted LC-MS/MS Spectrum - 10V, Negativesplash10-052n-9400000000-d8f5d2f2fe2dafe1333cSpectrum
Predicted MS/MSPredicted LC-MS/MS Spectrum - 20V, Negativesplash10-0a4i-9200000000-a80cc1426d1e82c189c8Spectrum
Predicted MS/MSPredicted LC-MS/MS Spectrum - 40V, Negativesplash10-0a4i-9000000000-f3bbaf16dcf20d55da29Spectrum
NMRNot Available
ChemSpider ID5575
ChEMBL IDCHEMBL444125
KEGG Compound IDC00121
Pubchem Compound ID5779
Pubchem Substance IDNot Available
ChEBI ID47014
Phenol-Explorer IDNot Available
DrugBank IDNot Available
HMDB IDHMDB00283
CRC / DFC (Dictionary of Food Compounds) IDHDJ31-U:GBM16-J
EAFUS ID3305
Dr. Duke IDRIBOSE
BIGG ID33936
KNApSAcK IDC00034198
HET ID1GQT
Food Biomarker OntologyNot Available
VMH IDNot Available
Flavornet IDNot Available
GoodScent IDNot Available
SuperScent IDNot Available
Wikipedia IDRibose
Phenol-Explorer Metabolite IDNot Available
Duplicate IDSNot Available
Old DFC IDSNot Available
Associated Foods
FoodContent Range AverageReference
FoodReference
Biological Effects and Interactions
Health Effects / BioactivitiesNot Available
Enzymes
NameGene NameUniProt ID
RibokinaseRBKSQ9H477
Pathways
NameSMPDB LinkKEGG Link
Pentose Phosphate PathwaySMP00031 map00030
MetabolismNot Available
BiosynthesisNot Available
Organoleptic Properties
FlavoursNot Available
Files
MSDSshow
References
Synthesis ReferenceNot Available
General ReferenceNot Available
Content Reference— Duke, James. 'Dr. Duke's Phytochemical and Ethnobotanical Databases. United States Department of Agriculture.' Agricultural Research Service, Accessed April 27 (2004).
— Shinbo, Y., et al. 'KNApSAcK: a comprehensive species-metabolite relationship database.' Plant Metabolomics. Springer Berlin Heidelberg, 2006. 165-181.