NP-MRD: Showing NP-Card for (3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate (NP0304860)

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Record Information

Version

2.0

Created at

2022-09-10 20:14:49 UTC

Updated at

2022-09-10 20:14:49 UTC

NP-MRD ID

NP0304860

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate

Description

(3,4,5-Trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate belongs to the class of organic compounds known as stilbene glycosides. (3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate is found in Rheum undulatum. Stilbene glycosides are compounds structurally characterized by the presence of a carbohydrate moiety glycosidically linked to the stilbene skeleton (3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004231514442D          

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M  END

     RDKit          3D

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M  END


  Mrv1533004231514442D          

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   -8.5737   -9.0750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.8592   -8.6625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -7.1447   -9.0750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4302   -6.1875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4302   -5.3625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.1447   -4.9500    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  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
  7  6  1  4  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 11 13  2  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 21 22  2  0  0  0  0
 21 23  1  0  0  0  0
 23 24  2  0  0  0  0
 24 25  1  0  0  0  0
 25 26  1  0  0  0  0
 25 27  2  0  0  0  0
 27 28  1  0  0  0  0
 27 29  1  0  0  0  0
 29 30  1  0  0  0  0
 29 31  2  0  0  0  0
 23 31  1  0  0  0  0
 18 32  1  0  0  0  0
 32 33  1  0  0  0  0
 32 34  1  0  0  0  0
 34 35  1  0  0  0  0
 34 36  1  0  0  0  0
 16 36  1  0  0  0  0
 36 37  1  0  0  0  0
 14 38  2  0  0  0  0
  9 38  1  0  0  0  0
  6 39  1  0  0  0  0
 39 40  2  0  0  0  0
  3 40  1  0  0  0  0
 40 41  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0304860

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC1=CC=C(C=CC2=CC(O)=CC(OC3OC(COC(=O)C4=CC(O)=C(O)C(O)=C4)C(O)C(O)C3O)=C2)C=C1O

> <INCHI_IDENTIFIER>
InChI=1S/C28H28O13/c1-38-21-5-4-13(8-18(21)30)2-3-14-6-16(29)11-17(7-14)40-28-26(36)25(35)24(34)22(41-28)12-39-27(37)15-9-19(31)23(33)20(32)10-15/h2-11,22,24-26,28-36H,12H2,1H3

> <INCHI_KEY>
HEOKFDGOFROELJ-UHFFFAOYSA-N

> <FORMULA>
C28H28O13

> <MOLECULAR_WEIGHT>
572.519

> <EXACT_MASS>
572.152990962

> <JCHEM_ACCEPTOR_COUNT>
12

> <JCHEM_ATOM_COUNT>
69

> <JCHEM_AVERAGE_POLARIZABILITY>
55.06872064362304

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
8

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate

> <ALOGPS_LOGP>
2.30

> <JCHEM_LOGP>
2.5612554110000003

> <ALOGPS_LOGS>
-3.45

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.234189866896054

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.074926354426726

> <JCHEM_PKA_STRONGEST_BASIC>
-3.649110481414241

> <JCHEM_POLAR_SURFACE_AREA>
215.82999999999996

> <JCHEM_REFRACTIVITY>
141.8278

> <JCHEM_ROTATABLE_BOND_COUNT>
9

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
2.01e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 23-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-APR-15         0                                  
HETATM    1  C   UNK     0     -12.003  -6.930   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0     -10.669  -7.700   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0     -10.669  -9.240   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -9.336 -10.010   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -9.336 -11.550   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0     -10.669 -12.320   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0     -10.669 -13.860   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0     -12.003 -14.630   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0     -12.003 -16.170   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0     -10.669 -16.940   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0     -10.669 -18.480   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -9.336 -19.250   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0     -12.003 -19.250   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0     -13.337 -18.480   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0     -14.670 -19.250   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0     -16.004 -18.480   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0     -17.338 -19.250   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0     -18.672 -18.480   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0     -20.005 -19.250   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0     -21.339 -18.480   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0     -22.673 -19.250   0.000  0.00  0.00           C+0
HETATM   22  O   UNK     0     -24.006 -18.480   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0     -22.673 -20.790   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0     -21.339 -21.560   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0     -21.339 -23.100   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0     -20.005 -23.870   0.000  0.00  0.00           O+0
HETATM   27  C   UNK     0     -22.673 -23.870   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0     -22.673 -25.410   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0     -24.006 -23.100   0.000  0.00  0.00           C+0
HETATM   30  O   UNK     0     -25.340 -23.870   0.000  0.00  0.00           O+0
HETATM   31  C   UNK     0     -24.006 -21.560   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0     -18.672 -16.940   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0     -20.005 -16.170   0.000  0.00  0.00           O+0
HETATM   34  C   UNK     0     -17.338 -16.170   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0     -17.338 -14.630   0.000  0.00  0.00           O+0
HETATM   36  C   UNK     0     -16.004 -16.940   0.000  0.00  0.00           C+0
HETATM   37  O   UNK     0     -14.670 -16.170   0.000  0.00  0.00           O+0
HETATM   38  C   UNK     0     -13.337 -16.940   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0     -12.003 -11.550   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0     -12.003 -10.010   0.000  0.00  0.00           C+0
HETATM   41  O   UNK     0     -13.337  -9.240   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4   40                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7   39                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   38                                                  
CONECT   10    9   11                                                       
CONECT   11   10   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14                                                       
CONECT   14   13   15   38                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17   36                                                  
CONECT   17   16   18                                                       
CONECT   18   17   19   32                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   22   23                                                  
CONECT   22   21                                                            
CONECT   23   21   24   31                                                  
CONECT   24   23   25                                                       
CONECT   25   24   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30   31                                                  
CONECT   30   29                                                            
CONECT   31   29   23                                                       
CONECT   32   18   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32   35   36                                                  
CONECT   35   34                                                            
CONECT   36   34   16   37                                                  
CONECT   37   36                                                            
CONECT   38   14    9                                                       
CONECT   39    6   40                                                       
CONECT   40   39    3   41                                                  
CONECT   41   40                                                            
MASTER        0    0    0    0    0    0    0    0   41    0   88    0
END

View in JSmol

Synonyms

Value	Source
(3,4,5-Trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoic acid	Generator

Chemical Formula

C₂₈H₂₈O₁₃

Average Mass

572.5190 Da

Monoisotopic Mass

572.15299 Da

IUPAC Name

(3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate

Traditional Name

(3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate

CAS Registry Number

Not Available

SMILES

COC1=CC=C(C=CC2=CC(O)=CC(OC3OC(COC(=O)C4=CC(O)=C(O)C(O)=C4)C(O)C(O)C3O)=C2)C=C1O

InChI Identifier

InChI=1S/C28H28O13/c1-38-21-5-4-13(8-18(21)30)2-3-14-6-16(29)11-17(7-14)40-28-26(36)25(35)24(34)22(41-28)12-39-27(37)15-9-19(31)23(33)20(32)10-15/h2-11,22,24-26,28-36H,12H2,1H3

InChI Key

HEOKFDGOFROELJ-UHFFFAOYSA-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, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, 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
Rheum undulatum	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as stilbene glycosides. Stilbene glycosides are compounds structurally characterized by the presence of a carbohydrate moiety glycosidically linked to the stilbene skeleton.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Stilbenes

Sub Class

Stilbene glycosides

Direct Parent

Stilbene glycosides

Alternative Parents

Substituents

Stilbene glycoside
Phenolic glycoside
Galloyl ester
Gallic acid or derivatives
P-hydroxybenzoic acid alkyl ester
M-hydroxybenzoic acid ester
P-hydroxybenzoic acid ester
Glycosyl compound
O-glycosyl compound
Benzoate ester
Methoxyphenol
Benzenetriol
Benzoic acid or derivatives
Pyrogallol derivative
Anisole
Phenoxy compound
Benzoyl
Phenol ether
Methoxybenzene
Styrene
Phenol
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Alkyl aryl ether
Benzenoid
Oxane
Monocyclic benzene moiety
Monosaccharide
Secondary alcohol
Carboxylic acid ester
Acetal
Organoheterocyclic compound
Oxacycle
Polyol
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Ether
Hydrocarbon derivative
Organic oxide
Organooxygen compound
Organic oxygen compound
Alcohol
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic 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	2.3	ALOGPS
logP	2.56	ChemAxon
logS	-3.4	ALOGPS
pKa (Strongest Acidic)	8.07	ChemAxon
pKa (Strongest Basic)	-3.6	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	12	ChemAxon
Hydrogen Donor Count	8	ChemAxon
Polar Surface Area	215.83 Å²	ChemAxon
Rotatable Bond Count	9	ChemAxon
Refractivity	141.83 m³·mol⁻¹	ChemAxon
Polarizability	55.07 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate (NP0304860)

MOL for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

3D MOL for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

3D SDF for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

3D-SDF for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

PDB for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

3D PDB for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

SMILES for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

INCHI for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

Structure for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)

3D Structure for NP0304860 ((3,4,5-trihydroxy-6-{3-hydroxy-5-[2-(3-hydroxy-4-methoxyphenyl)ethenyl]phenoxy}oxan-2-yl)methyl 3,4,5-trihydroxybenzoate)