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Record Information
Version2.0
Created at2022-04-27 22:49:26 UTC
Updated at2022-04-27 22:49:26 UTC
NP-MRD IDNP0051468
Secondary Accession NumbersNone
Natural Product Identification
Common Name(-)-Glycinol
Description3,6,9-Trihydroxypterocarpan, also known as glycinol, belongs to the class of organic compounds known as pterocarpans. These are benzo-pyrano-furano-benzene compounds, containing the 6H-[1]benzofuro[3,2-c]chromene skeleton. They are derivatives of isoflavonoids. Thus, 3,6,9-trihydroxypterocarpan is considered to be a flavonoid lipid molecule. (-)-Glycinol is found in Erythrina sandwicensis, Glycine max , Oxyrhynchus volubilis, Phaseolus coccineus , Pueraria montana, Pueraria montana var. lobata, Pueraria thunbergiana , Teramnus micans, Teramnus uncinatus and Vigna mungo . (-)-Glycinol was first documented in 1981 (PMID: 16661917). 3,6,9-Trihydroxypterocarpan is a very hydrophobic molecule, practically insoluble (in water), and relatively neutral (PMID: 16250441) (PMID: 16663042) (PMID: 19116342) (PMID: 19943626).
Structure
Thumb
Synonyms
ValueSource
(-)-GlycinolChEBI
(6AlphaS,11alphas)-3,6alpha,9-trihydroxypterocarpanChEBI
(6AS,11as)-3,6a,9-trihydroxypterocarpanChEBI
(6AS-cis)-6H-benzofuro(3,2-c)(1)benzopyran-3,6a,9(11ah)-triolChEBI
6H-Benzofuro[3,2-c][1]benzopyran-3,6a,9(11ah)-triolChEBI
GlycinolChEBI
(6AlphaS,11alphas)-3,6a,9-trihydroxypterocarpanGenerator
(6AlphaS,11alphas)-3,6α,9-trihydroxypterocarpanGenerator
3,6,9-TrihydroxypterocarpanMeSH
Chemical FormulaC15H12O5
Average Mass272.2560 Da
Monoisotopic Mass272.06847 Da
IUPAC Name(1S,10S)-8,17-dioxatetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadeca-2(7),3,5,11(16),12,14-hexaene-5,10,14-triol
Traditional Name(1S,10S)-8,17-dioxatetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadeca-2(7),3,5,11(16),12,14-hexaene-5,10,14-triol
CAS Registry NumberNot Available
SMILES
[H][C@@]12OC3=C(C=CC(O)=C3)[C@]1(O)COC1=C2C=CC(O)=C1
InChI Identifier
InChI=1S/C15H12O5/c16-8-1-3-10-12(5-8)19-7-15(18)11-4-2-9(17)6-13(11)20-14(10)15/h1-6,14,16-18H,7H2/t14-,15+/m0/s1
InChI KeyQMXOFBXZEKTJIK-LSDHHAIUSA-N
Experimental Spectra
Not Available
Predicted Spectra
Chemical Shift Submissions
Not Available
Species
Species of Origin
Chemical Taxonomy
Description Belongs to the class of organic compounds known as pterocarpans. These are benzo-pyrano-furano-benzene compounds, containing the 6H-[1]benzofuro[3,2-c]chromene skeleton. They are derivatives of isoflavonoids.
KingdomOrganic compounds
Super ClassPhenylpropanoids and polyketides
ClassIsoflavonoids
Sub ClassFuranoisoflavonoids
Direct ParentPterocarpans
Alternative Parents
Substituents
  • Pterocarpan
  • Isoflavanol
  • Isoflavan
  • Chromane
  • Benzopyran
  • 1-benzopyran
  • Coumaran
  • Benzofuran
  • 1-hydroxy-2-unsubstituted benzenoid
  • Alkyl aryl ether
  • Benzenoid
  • Tertiary alcohol
  • Oxacycle
  • Organoheterocyclic compound
  • Ether
  • Polyol
  • Alcohol
  • Organic oxygen compound
  • Hydrocarbon derivative
  • Organooxygen compound
  • Aromatic heteropolycyclic compound
Molecular FrameworkAromatic heteropolycyclic compounds
External Descriptors
Physical Properties
StateNot Available
Experimental Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
logP1.57ALOGPS
logP1.71ChemAxon
logS-2.5ALOGPS
pKa (Strongest Acidic)9.1ChemAxon
pKa (Strongest Basic)-4.1ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count5ChemAxon
Hydrogen Donor Count3ChemAxon
Polar Surface Area79.15 ŲChemAxon
Rotatable Bond Count0ChemAxon
Refractivity69.67 m³·mol⁻¹ChemAxon
Polarizability26.93 ųChemAxon
Number of Rings4ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
HMDB IDNot Available
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDNot Available
KNApSAcK IDC00002532
Chemspider IDNot Available
KEGG Compound IDC01263
BioCyc ID6AS11AS-36A9-TRIHYDROXYPTEROCARPAN
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound129648
PDB IDNot Available
ChEBI ID15649
Good Scents IDNot Available
References
General References
  1. Qi Y, Moco S, Boeren S, De Vos CH, Bovy A: [Isolation and identification of glycinol from Glycine max [L.] Merri]. Se Pu. 2005 Jul;23(4):353-7. [PubMed:16250441 ]
  2. Weinstein LI, Hahn MG, Albersheim P: Host-Pathogen Interactions : XVIII. ISOLATION AND BIOLOGICAL ACTIVITY OF GLYCINOL, A PTEROCARPAN PHYTOALEXIN SYNTHESIZED BY SOYBEANS. Plant Physiol. 1981 Aug;68(2):358-63. doi: 10.1104/pp.68.2.358. [PubMed:16661917 ]
  3. Weinstein LI, Albersheim P: Host-Pathogen Interactions : XXIII. The Mechanism of the Antibacterial Action of Glycinol, a Pterocarpan Phytoalexin Synthesized by Soybeans. Plant Physiol. 1983 Jun;72(2):557-63. doi: 10.1104/pp.72.2.557. [PubMed:16663042 ]
  4. Boue SM, Tilghman SL, Elliott S, Zimmerman MC, Williams KY, Payton-Stewart F, Miraflor AP, Howell MH, Shih BY, Carter-Wientjes CH, Segar C, Beckman BS, Wiese TE, Cleveland TE, McLachlan JA, Burow ME: Identification of the potent phytoestrogen glycinol in elicited soybean (Glycine max). Endocrinology. 2009 May;150(5):2446-53. doi: 10.1210/en.2008-1235. Epub 2008 Dec 30. [PubMed:19116342 ]
  5. Luniwal A, Khupse RS, Reese M, Fang L, Erhardt PW: Total syntheses of racemic and natural glycinol. J Nat Prod. 2009 Nov;72(11):2072-5. doi: 10.1021/np900509f. [PubMed:19943626 ]