NP-MRD: Showing NP-Card for (1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol (NP0250777)

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Record Information

Version

2.0

Created at

2022-09-07 13:44:28 UTC

Updated at

2022-09-07 13:44:29 UTC

NP-MRD ID

NP0250777

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol

Description

(1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol belongs to the class of organic compounds known as stilbenes. These are organic compounds containing a 1,2-diphenylethylene moiety. Stilbenes (C6-C2-C6 ) are derived from the common phenylpropene (C6-C3) skeleton building block. The introduction of one or more hydroxyl groups to a phenyl ring lead to stilbenoids. (1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol is found in Vitis vinifera. Based on a literature review very few articles have been published on (1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309072215442D          

 36 40  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309072215442D          

 36 40  0  0  1  0            999 V2000
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M  END
> <DATABASE_ID>
NP0250777

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CO[C@@H]([C@H]1[C@H]([C@@H](C2=C(O)C=C(O)C=C12)C1=CC(O)=CC(O)=C1)C1=CC=C(O)C=C1)C1=CC=C(O)C=C1

> <INCHI_IDENTIFIER>
InChI=1S/C29H26O7/c1-36-29(16-4-8-19(31)9-5-16)28-23-13-22(34)14-24(35)27(23)26(17-10-20(32)12-21(33)11-17)25(28)15-2-6-18(30)7-3-15/h2-14,25-26,28-35H,1H3/t25-,26-,28+,29+/m0/s1

> <INCHI_KEY>
XPDHVQUZVFHQNW-HFEYRCFBSA-N

> <FORMULA>
C29H26O7

> <MOLECULAR_WEIGHT>
486.52

> <EXACT_MASS>
486.167853177

> <JCHEM_ACCEPTOR_COUNT>
7

> <JCHEM_ATOM_COUNT>
62

> <JCHEM_AVERAGE_POLARIZABILITY>
50.46536908441891

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
6

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol

> <JCHEM_LOGP>
5.356846465666666

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.326828175741325

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.869231730999722

> <JCHEM_PKA_STRONGEST_BASIC>
-4.1587095134975876

> <JCHEM_POLAR_SURFACE_AREA>
130.61

> <JCHEM_REFRACTIVITY>
135.54609999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 07-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   07-SEP-22         0                                  
HETATM    1  C   UNK     0      -0.333   3.192   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0       0.143   1.728   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0       1.650   1.408   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       2.680   2.552   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       2.204   4.017   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.235   5.161   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.741   4.841   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0       5.772   5.985   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0       5.217   3.376   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       4.187   2.232   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.126  -0.057   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.590  -0.533   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.924   0.237   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.258  -0.533   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       7.591   0.237   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       6.258  -2.073   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.924  -2.843   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       4.924  -4.383   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0       3.590  -2.073   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       2.126  -2.549   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       1.650  -4.013   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       2.680  -5.158   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       2.204  -6.622   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0       3.235  -7.767   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0       0.698  -6.943   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      -0.333  -5.798   0.000  0.00  0.00           C+0
HETATM   27  O   UNK     0      -1.839  -6.118   0.000  0.00  0.00           O+0
HETATM   28  C   UNK     0       0.143  -4.334   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       1.220  -1.303   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      -0.320  -1.303   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -1.090  -2.637   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      -2.630  -2.637   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -3.400  -1.303   0.000  0.00  0.00           C+0
HETATM   34  O   UNK     0      -4.940  -1.303   0.000  0.00  0.00           O+0
HETATM   35  C   UNK     0      -2.630   0.031   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      -1.090   0.031   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4   11                                                  
CONECT    4    3    5   10                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10                                                       
CONECT   10    9    4                                                       
CONECT   11    3   12   29                                                  
CONECT   12   11   13   19                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14   17                                                       
CONECT   17   16   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17   12   20                                                  
CONECT   20   19   21   29                                                  
CONECT   21   20   22   28                                                  
CONECT   22   21   23                                                       
CONECT   23   22   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23   26                                                       
CONECT   26   25   27   28                                                  
CONECT   27   26                                                            
CONECT   28   26   21                                                       
CONECT   29   20   11   30                                                  
CONECT   30   29   31   36                                                  
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   34   35                                                  
CONECT   34   33                                                            
CONECT   35   33   36                                                       
CONECT   36   35   30                                                       
MASTER        0    0    0    0    0    0    0    0   36    0   80    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₉H₂₆O₇

Average Mass

486.5200 Da

Monoisotopic Mass

486.16785 Da

IUPAC Name

(1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol

Traditional Name

(1S,2S,3R)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(S)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1H-indene-4,6-diol

CAS Registry Number

Not Available

SMILES

CO[C@@H]([C@H]1[C@H]([C@@H](C2=C(O)C=C(O)C=C12)C1=CC(O)=CC(O)=C1)C1=CC=C(O)C=C1)C1=CC=C(O)C=C1

InChI Identifier

InChI=1S/C29H26O7/c1-36-29(16-4-8-19(31)9-5-16)28-23-13-22(34)14-24(35)27(23)26(17-10-20(32)12-21(33)11-17)25(28)15-2-6-18(30)7-3-15/h2-14,25-26,28-35H,1H3/t25-,26-,28+,29+/m0/s1

InChI Key

XPDHVQUZVFHQNW-HFEYRCFBSA-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
Vitis vinifera	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as stilbenes. These are organic compounds containing a 1,2-diphenylethylene moiety. Stilbenes (C6-C2-C6 ) are derived from the common phenylpropene (C6-C3) skeleton building block. The introduction of one or more hydroxyl groups to a phenyl ring lead to stilbenoids.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Stilbenes

Sub Class

Not Available

Direct Parent

Stilbenes

Alternative Parents

Substituents

Stilbene
Indane
Benzylether
Resorcinol
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Phenol
Benzenoid
Monocyclic benzene moiety
Ether
Dialkyl ether
Organic oxygen compound
Hydrocarbon derivative
Organooxygen compound
Aromatic homopolycyclic compound

Molecular Framework

Aromatic homopolycyclic 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	5.36	ChemAxon
pKa (Strongest Acidic)	8.87	ChemAxon
pKa (Strongest Basic)	-4.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	7	ChemAxon
Hydrogen Donor Count	6	ChemAxon
Polar Surface Area	130.61 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	135.55 m³·mol⁻¹	ChemAxon
Polarizability	50.47 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	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

162914511

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol (NP0250777)

MOL for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

3D MOL for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

3D SDF for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

3D-SDF for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

PDB for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

3D PDB for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

SMILES for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

INCHI for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

Structure for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)

3D Structure for NP0250777 ((1s,2s,3r)-3-(3,5-dihydroxyphenyl)-2-(4-hydroxyphenyl)-1-[(s)-(4-hydroxyphenyl)(methoxy)methyl]-2,3-dihydro-1h-indene-4,6-diol)