NP-MRD: Showing NP-Card for 3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan (NP0056733)

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Record Information

Version

1.0

Created at

2022-04-28 02:24:52 UTC

Updated at

2022-04-28 02:24:52 UTC

NP-MRD ID

NP0056733

Secondary Accession Numbers

None

Natural Product Identification

Common Name

3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan

Description

(1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0²,¹⁰.0⁴,⁸.0¹³,¹⁸]Icosa-2,4(8),9,13(18),14,16-hexaene-1,3,16-triol 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. 3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan is found in Trifolium pratense . Based on a literature review very few articles have been published on (1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0²,¹⁰.0⁴,⁸.0¹³,¹⁸]Icosa-2,4(8),9,13(18),14,16-hexaene-1,3,16-triol.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 35 39  0  0  0  0  0  0  0  0999 V2000
   -6.2479    0.0835    0.5801 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8784    0.2004    0.2763 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2840    1.4461    0.1891 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9259    1.5728   -0.1117 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2001    0.4290   -0.3177 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7565   -0.8281   -0.2394 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1030   -0.9339    0.0596 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9682   -1.9744   -0.4596 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5366   -1.8989   -0.5372 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1334   -0.6521    0.1476 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6189   -0.6198    1.4541 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2727   -0.2591    0.0712 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2705    1.1218   -0.0297 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4458    1.8446   -0.1161 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6650    1.1585   -0.1010 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6417   -0.2144   -0.0003 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4752   -0.9476    0.0868 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4301   -2.3162    0.1880 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.9697   -0.6653   -0.0060 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.7286    0.4098   -0.5772 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9823    1.5375   -0.1661 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0712    1.5703   -0.0248 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7748    0.5073   -0.6350 C   0  0  2  0  0  0  0  0  0  0  0  0
   -6.9098    0.0772   -0.2052 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8958    2.3262    0.3596 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5034    2.5594   -0.1700 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5539   -1.9200    0.1243 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2065   -1.8836   -1.5977 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0796   -2.7921   -0.0748 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0837   -0.1880    2.0054 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4911    2.9217   -0.1959 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2989   -2.8660    0.2030 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7585    0.3997   -0.1807 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.6881    0.3826   -1.6859 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5541    0.4111   -1.7095 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  2  0
  5 23  1  0
 23 22  1  0
 22 13  1  0
 13 12  2  0
 12 17  1  0
 17 18  1  0
 17 16  2  0
 16 19  1  0
 19 20  1  0
 20 21  1  0
 21 15  1  0
 15 14  2  0
 12 10  1  0
 10 11  1  1
 10  9  1  0
  9  8  1  0
  8  6  1  0
  6  7  2  0
  7  2  1  0
  6  5  1  0
 10 23  1  0
 14 13  1  0
 15 16  1  0
  1 24  1  0
  3 25  1  0
  4 26  1  0
 23 35  1  6
 18 32  1  0
 20 33  1  0
 20 34  1  0
 14 31  1  0
 11 30  1  0
  9 28  1  0
  9 29  1  0
  7 27  1  0
M  END


  Mrv1652304282204242D          

 23 27  0  0  1  0            999 V2000
    7.0888    1.4656    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.7270    2.2070    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9040    2.2644    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4428    1.5803    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8046    0.8389    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6276    0.7815    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3435    0.1548    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.5205    0.2122    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1586    0.9536    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.6198    1.6377    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.1117    2.2877    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.3366    2.0053    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3655    1.1808    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6660    0.7435    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9375    1.1306    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9085    1.9551    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6080    2.3925    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1154    2.1824    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.6542    1.4983    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1623    0.8483    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.6950   -0.0810    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.6285    0.3215    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.9118    1.4082    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  1  6  1  0  0  0  0
  5  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  4 10  1  0  0  0  0
 10 11  1  6  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
  9 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  2  0  0  0  0
 12 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 15 20  1  0  0  0  0
 14 21  1  0  0  0  0
  9 22  1  6  0  0  0
  1 23  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0056733

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC1=CC=C2[C@H]3OC4=C(C(O)=C5OCOC5=C4)[C@]3(O)COC2=C1

> <INCHI_IDENTIFIER>
InChI=1S/C16H12O7/c17-7-1-2-8-9(3-7)20-5-16(19)12-10(23-15(8)16)4-11-14(13(12)18)22-6-21-11/h1-4,15,17-19H,5-6H2/t15-,16-/m1/s1

> <INCHI_KEY>
KVZNRXOMVOCEBF-HZPDHXFCSA-N

> <FORMULA>
C16H12O7

> <MOLECULAR_WEIGHT>
316.265

> <EXACT_MASS>
316.058302726

> <JCHEM_ACCEPTOR_COUNT>
7

> <JCHEM_ATOM_COUNT>
35

> <JCHEM_AVERAGE_POLARIZABILITY>
30.891064362530358

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0^{2,10}.0^{4,8}.0^{13,18}]icosa-2(10),3,8,13,15,17-hexaene-1,3,16-triol

> <ALOGPS_LOGP>
1.42

> <JCHEM_LOGP>
1.3313824260000002

> <ALOGPS_LOGS>
-2.00

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
10.138276682266342

> <JCHEM_PKA_STRONGEST_ACIDIC>
9.32366968348205

> <JCHEM_PKA_STRONGEST_BASIC>
-3.9500079124665133

> <JCHEM_POLAR_SURFACE_AREA>
97.61000000000001

> <JCHEM_REFRACTIVITY>
75.43360000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.13e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0^{2,10}.0^{4,8}.0^{13,18}]icosa-2(10),3,8,13,15,17-hexaene-1,3,16-triol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 28-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-22         0                                  
HETATM    1  C   UNK     0      13.232   2.736   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      12.557   4.120   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      11.021   4.227   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      10.160   2.950   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      10.835   1.566   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      12.372   1.459   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       9.974   0.289   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       8.438   0.396   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       7.763   1.780   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       8.624   3.057   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       7.675   4.270   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       6.228   3.743   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.282   2.204   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       4.977   1.388   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       3.617   2.111   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       3.563   3.650   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.868   4.466   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       2.082   4.074   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0       1.221   2.797   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       2.170   1.583   0.000  0.00  0.00           O+0
HETATM   21  O   UNK     0       5.031  -0.151   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0       6.773   0.600   0.000  0.00  0.00           O+0
HETATM   23  O   UNK     0      14.769   2.629   0.000  0.00  0.00           O+0
CONECT    1    2    6   23                                                  
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5   10                                                  
CONECT    5    4    6    7                                                  
CONECT    6    5    1                                                       
CONECT    7    5    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   13   22                                             
CONECT   10    9    4   11                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13   17                                                  
CONECT   13   12    9   14                                                  
CONECT   14   13   15   21                                                  
CONECT   15   14   16   20                                                  
CONECT   16   15   17   18                                                  
CONECT   17   16   12                                                       
CONECT   18   16   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   15                                                       
CONECT   21   14                                                            
CONECT   22    9                                                            
CONECT   23    1                                                            
MASTER        0    0    0    0    0    0    0    0   23    0   54    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₆H₁₂O₇

Average Mass

316.2650 Da

Monoisotopic Mass

316.05830 Da

IUPAC Name

(1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0^{2,10}.0^{4,8}.0^{13,18}]icosa-2(10),3,8,13,15,17-hexaene-1,3,16-triol

Traditional Name

(1S,12R)-5,7,11,19-tetraoxapentacyclo[10.8.0.0^{2,10}.0^{4,8}.0^{13,18}]icosa-2(10),3,8,13,15,17-hexaene-1,3,16-triol

CAS Registry Number

Not Available

SMILES

OC1=CC=C2[C@H]3OC4=C(C(O)=C5OCOC5=C4)[C@]3(O)COC2=C1

InChI Identifier

InChI=1S/C16H12O7/c17-7-1-2-8-9(3-7)20-5-16(19)12-10(23-15(8)16)4-11-14(13(12)18)22-6-21-11/h1-4,15,17-19H,5-6H2/t15-,16-/m1/s1

InChI Key

KVZNRXOMVOCEBF-HZPDHXFCSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Trifolium pratense	Plant	KNApSAcK

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.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Isoflavonoids

Sub Class

Furanoisoflavonoids

Direct Parent

Pterocarpans

Alternative Parents

Substituents

Pterocarpan
Isoflavanol
Isoflavan
1-benzopyran
Benzopyran
Chromane
Coumaran
Benzofuran
Benzodioxole
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Alkyl aryl ether
Benzenoid
Tertiary alcohol
Oxacycle
Organoheterocyclic compound
Polyol
Ether
Acetal
Organic oxygen compound
Hydrocarbon derivative
Organooxygen compound
Alcohol
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	1.42	ALOGPS
logP	1.33	ChemAxon
logS	-2	ALOGPS
pKa (Strongest Acidic)	9.32	ChemAxon
pKa (Strongest Basic)	-4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	7	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	97.61 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	75.43 m³·mol⁻¹	ChemAxon
Polarizability	30.89 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

163083930

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for 3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan (NP0056733)

MOL for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

3D MOL for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

3D SDF for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

3D-SDF for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

PDB for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

3D PDB for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

SMILES for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

INCHI for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

Structure for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)

3D Structure for NP0056733 (3,6a,7-Trihydroxy-8,9-methylenedioxypterocarpan)