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Version5.0
StatusExpected but not Quantified
Creation Date2012-09-11 17:30:33 UTC
Update Date2022-03-07 02:52:10 UTC
HMDB IDHMDB0029463
Secondary Accession Numbers
  • HMDB29463
Metabolite Identification
Common NameGentisein
DescriptionGentisein, also known as xanthone deriv, belongs to the class of organic compounds known as xanthones. These are polycyclic aromatic compounds containing a xanthene moiety conjugated to a ketone group at carbon 9. Xanthene is a tricyclic compound made up of two benzene rings linearly fused to each other through a pyran ring. Gentisein is a secondary metabolite. Secondary metabolites are metabolically or physiologically non-essential metabolites that may serve a role as defense or signalling molecules. In some cases they are simply molecules that arise from the incomplete metabolism of other secondary metabolites. Based on a literature review a significant number of articles have been published on Gentisein.
Structure
Data?1601275391
Synonyms
ValueSource
1,3,7-TrihydroxyxanthoneChEBI
1,3,7-Trihydroxy-9H-xanthen-9-oneHMDB
1,3,7-Trihydroxy-9H-xanthen-9-one, 9ciHMDB
1,3,7-Trihydroxy-xanthen-9-oneHMDB
Xanthone derivHMDB
1,3,7-Trihydroxy-xanthoneHMDB
Chemical FormulaC13H8O5
Average Molecular Weight244.1996
Monoisotopic Molecular Weight244.037173366
IUPAC Name1,3,7-trihydroxy-9H-xanthen-9-one
Traditional Namegentisein
CAS Registry Number529-49-7
SMILES
OC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C1
InChI Identifier
InChI=1S/C13H8O5/c14-6-1-2-10-8(3-6)13(17)12-9(16)4-7(15)5-11(12)18-10/h1-5,14-16H
InChI KeyJJUNZBRHHGLJQW-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as xanthones. These are polycyclic aromatic compounds containing a xanthene moiety conjugated to a ketone group at carbon 9. Xanthene is a tricyclic compound made up of two benzene rings linearly fused to each other through a pyran ring.
KingdomOrganic compounds
Super ClassOrganoheterocyclic compounds
ClassBenzopyrans
Sub Class1-benzopyrans
Direct ParentXanthones
Alternative Parents
Substituents
  • Xanthone
  • Chromone
  • 1-hydroxy-4-unsubstituted benzenoid
  • 1-hydroxy-2-unsubstituted benzenoid
  • Pyranone
  • Pyran
  • Benzenoid
  • Heteroaromatic compound
  • Vinylogous acid
  • Polyol
  • Oxacycle
  • Hydrocarbon derivative
  • Organic oxide
  • Organooxygen compound
  • Organic oxygen compound
  • Aromatic heteropolycyclic compound
Molecular FrameworkAromatic heteropolycyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
Disposition
ProcessNot Available
RoleNot Available
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting Point321 - 323 °CNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility0.53 g/LALOGPS
logP2.49ALOGPS
logP2.7ChemAxon
logS-2.7ALOGPS
pKa (Strongest Acidic)7.54ChemAxon
pKa (Strongest Basic)-3.8ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count4ChemAxon
Hydrogen Donor Count3ChemAxon
Polar Surface Area86.99 ŲChemAxon
Rotatable Bond Count0ChemAxon
Refractivity62.76 m³·mol⁻¹ChemAxon
Polarizability23.28 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+156.11431661259
DarkChem[M-H]-154.40331661259
DeepCCS[M+H]+156.04530932474
DeepCCS[M-H]-153.68730932474
DeepCCS[M-2H]-186.74830932474
DeepCCS[M+Na]+162.13830932474
AllCCS[M+H]+153.132859911
AllCCS[M+H-H2O]+149.132859911
AllCCS[M+NH4]+156.932859911
AllCCS[M+Na]+158.032859911
AllCCS[M-H]-153.332859911
AllCCS[M+Na-2H]-152.632859911
AllCCS[M+HCOO]-152.032859911

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
GentiseinOC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C14288.5Standard polar33892256
GentiseinOC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C12571.5Standard non polar33892256
GentiseinOC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C12698.0Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Gentisein,1TMS,isomer #1C[Si](C)(C)OC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C12809.4Semi standard non polar33892256
Gentisein,1TMS,isomer #2C[Si](C)(C)OC1=CC(O)=C2C(=O)C3=CC(O)=CC=C3OC2=C12788.5Semi standard non polar33892256
Gentisein,1TMS,isomer #3C[Si](C)(C)OC1=CC(O)=CC2=C1C(=O)C1=CC(O)=CC=C1O22755.8Semi standard non polar33892256
Gentisein,2TMS,isomer #1C[Si](C)(C)OC1=CC(O)=C2C(=O)C3=CC(O[Si](C)(C)C)=CC=C3OC2=C12842.1Semi standard non polar33892256
Gentisein,2TMS,isomer #2C[Si](C)(C)OC1=CC=C2OC3=CC(O)=CC(O[Si](C)(C)C)=C3C(=O)C2=C12795.8Semi standard non polar33892256
Gentisein,2TMS,isomer #3C[Si](C)(C)OC1=CC(O[Si](C)(C)C)=C2C(=O)C3=CC(O)=CC=C3OC2=C12813.2Semi standard non polar33892256
Gentisein,3TMS,isomer #1C[Si](C)(C)OC1=CC(O[Si](C)(C)C)=C2C(=O)C3=CC(O[Si](C)(C)C)=CC=C3OC2=C12857.3Semi standard non polar33892256
Gentisein,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)OC1=CC=C2OC3=CC(O)=CC(O)=C3C(=O)C2=C13036.5Semi standard non polar33892256
Gentisein,1TBDMS,isomer #2CC(C)(C)[Si](C)(C)OC1=CC(O)=C2C(=O)C3=CC(O)=CC=C3OC2=C13041.6Semi standard non polar33892256
Gentisein,1TBDMS,isomer #3CC(C)(C)[Si](C)(C)OC1=CC(O)=CC2=C1C(=O)C1=CC(O)=CC=C1O23015.1Semi standard non polar33892256
Gentisein,2TBDMS,isomer #1CC(C)(C)[Si](C)(C)OC1=CC(O)=C2C(=O)C3=CC(O[Si](C)(C)C(C)(C)C)=CC=C3OC2=C13292.4Semi standard non polar33892256
Gentisein,2TBDMS,isomer #2CC(C)(C)[Si](C)(C)OC1=CC=C2OC3=CC(O)=CC(O[Si](C)(C)C(C)(C)C)=C3C(=O)C2=C13247.7Semi standard non polar33892256
Gentisein,2TBDMS,isomer #3CC(C)(C)[Si](C)(C)OC1=CC(O[Si](C)(C)C(C)(C)C)=C2C(=O)C3=CC(O)=CC=C3OC2=C13284.7Semi standard non polar33892256
Gentisein,3TBDMS,isomer #1CC(C)(C)[Si](C)(C)OC1=CC(O[Si](C)(C)C(C)(C)C)=C2C(=O)C3=CC(O[Si](C)(C)C(C)(C)C)=CC=C3OC2=C13541.4Semi standard non polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - Gentisein GC-MS (Non-derivatized) - 70eV, Positivesplash10-0fr6-0390000000-b08cd65092c7da1906552017-09-01Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Gentisein GC-MS (3 TMS) - 70eV, Positivesplash10-00ds-6209400000-15b97fd8747668fc15382017-10-06Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Gentisein GC-MS (Non-derivatized) - 70eV, PositiveNot Available2021-10-12Wishart LabView Spectrum

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 10V, Positive-QTOFsplash10-0002-0090000000-c0438723fffbec08dc292016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 20V, Positive-QTOFsplash10-0002-0090000000-eadef615280a124da6772016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 40V, Positive-QTOFsplash10-004i-2490000000-7249d7b2ec50b9e7de692016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 10V, Negative-QTOFsplash10-0006-0090000000-32e1f65672dbbc366f462016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 20V, Negative-QTOFsplash10-0006-0090000000-bfc86c5529e7480203af2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 40V, Negative-QTOFsplash10-0frf-3590000000-21fea4ab2dc19a33c18f2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 10V, Negative-QTOFsplash10-0006-0090000000-9b916dc13378b55526632021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 20V, Negative-QTOFsplash10-0006-0090000000-9b916dc13378b55526632021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 40V, Negative-QTOFsplash10-0zfr-4890000000-f33161dcb8704bab65152021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 10V, Positive-QTOFsplash10-0002-0090000000-375ead9ffd42ab31b4052021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 20V, Positive-QTOFsplash10-0002-0090000000-375ead9ffd42ab31b4052021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Gentisein 40V, Positive-QTOFsplash10-014i-3980000000-37e149a1e400513096be2021-09-25Wishart LabView Spectrum
Biological Properties
Cellular Locations
  • Cytoplasm
  • Extracellular
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDFDB000584
KNApSAcK IDC00002953
Chemspider ID4444954
KEGG Compound IDC10065
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound5281635
PDB IDNot Available
ChEBI ID5323
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. (). Yannai, Shmuel. (2004) Dictionary of food compounds with CD-ROM: Additives, flavors, and ingredients. Boca Raton: Chapman & Hall/CRC.. .