NP-MRD: Showing NP-Card for (2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol (NP0202037)

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Record Information

Version

2.0

Created at

2022-09-04 21:10:44 UTC

Updated at

2022-09-04 21:10:44 UTC

NP-MRD ID

NP0202037

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol

Description

CHEMBL501986 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. (2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol is found in Acer pictum. Based on a literature review very few articles have been published on CHEMBL501986.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309042223102D          

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M  END

     RDKit          3D

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  Mrv1652309042223102D          

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  6  7  2  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 11 13  1  0  0  0  0
 13 14  2  0  0  0  0
  8 14  1  0  0  0  0
  5 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 18 17  1  6  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  6  0  0  0
 21 22  1  0  0  0  0
 23 22  1  6  0  0  0
 23 24  1  0  0  0  0
 24 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  1  0  0  0
 26 28  1  6  0  0  0
 28 29  1  0  0  0  0
 26 30  1  0  0  0  0
 23 30  1  0  0  0  0
 30 31  1  1  0  0  0
 20 32  1  0  0  0  0
 32 33  1  1  0  0  0
 32 34  1  0  0  0  0
 34 35  1  6  0  0  0
 34 36  1  0  0  0  0
 18 36  1  0  0  0  0
 36 37  1  1  0  0  0
 16 38  2  0  0  0  0
  3 38  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0202037

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC1=CC(\C=C\C2=CC=C(O)C=C2)=CC(O[C@@H]2O[C@H](CO[C@@H]3OC[C@](O)(CO)[C@H]3O)[C@@H](O)[C@H](O)[C@H]2O)=C1

> <INCHI_IDENTIFIER>
InChI=1S/C26H32O12/c1-34-17-8-15(3-2-14-4-6-16(28)7-5-14)9-18(10-17)37-24-22(31)21(30)20(29)19(38-24)11-35-25-23(32)26(33,12-27)13-36-25/h2-10,19-25,27-33H,11-13H2,1H3/b3-2+/t19-,20-,21+,22-,23+,24-,25-,26-/m1/s1

> <INCHI_KEY>
DFZIOIQWPPLYQS-BCXMIILDSA-N

> <FORMULA>
C26H32O12

> <MOLECULAR_WEIGHT>
536.53

> <EXACT_MASS>
536.18937647

> <JCHEM_ACCEPTOR_COUNT>
12

> <JCHEM_ATOM_COUNT>
70

> <JCHEM_AVERAGE_POLARIZABILITY>
53.62653930756956

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2R,3S,4S,5R,6S)-2-({[(2R,3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(E)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol

> <JCHEM_LOGP>
0.0037177890000005542

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
11.702384724536403

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.995281332488789

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1423790163389214

> <JCHEM_POLAR_SURFACE_AREA>
187.76

> <JCHEM_REFRACTIVITY>
130.75240000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
9

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(2R,3S,4S,5R,6S)-2-({[(2R,3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(E)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 04-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-22         0                                  
HETATM    1  C   UNK     0       3.304  -4.506   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0       2.678  -5.913   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0       1.147  -6.074   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.520  -7.481   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.011  -7.642   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -1.638  -9.049   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -0.733 -10.294   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -1.359 -11.701   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -0.454 -12.947   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -1.080 -14.354   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -2.612 -14.515   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -3.238 -15.922   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0      -3.517 -13.269   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -2.891 -11.862   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -1.917  -6.396   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      -1.290  -4.989   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      -2.195  -3.743   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0      -1.569  -2.336   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      -2.474  -1.090   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0      -1.848   0.317   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      -2.753   1.562   0.000  0.00  0.00           C+0
HETATM   22  O   UNK     0      -2.127   2.969   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0      -3.032   4.215   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      -4.572   4.215   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0      -5.048   5.680   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      -3.802   6.585   0.000  0.00  0.00           C+0
HETATM   27  O   UNK     0      -4.832   7.729   0.000  0.00  0.00           O+0
HETATM   28  C   UNK     0      -2.771   7.729   0.000  0.00  0.00           C+0
HETATM   29  O   UNK     0      -3.247   9.194   0.000  0.00  0.00           O+0
HETATM   30  C   UNK     0      -2.556   5.680   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0      -1.091   6.156   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0      -0.316   0.478   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0       0.310   1.884   0.000  0.00  0.00           O+0
HETATM   34  C   UNK     0       0.589  -0.768   0.000  0.00  0.00           C+0
HETATM   35  O   UNK     0       2.120  -0.607   0.000  0.00  0.00           O+0
HETATM   36  C   UNK     0      -0.037  -2.175   0.000  0.00  0.00           C+0
HETATM   37  O   UNK     0       0.868  -3.421   0.000  0.00  0.00           O+0
HETATM   38  C   UNK     0       0.241  -4.828   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4   38                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6   15                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   14                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14                                                       
CONECT   14   13    8                                                       
CONECT   15    5   16                                                       
CONECT   16   15   17   38                                                  
CONECT   17   16   18                                                       
CONECT   18   17   19   36                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21   32                                                  
CONECT   21   20   22                                                       
CONECT   22   21   23                                                       
CONECT   23   22   24   30                                                  
CONECT   24   23   25                                                       
CONECT   25   24   26                                                       
CONECT   26   25   27   28   30                                             
CONECT   27   26                                                            
CONECT   28   26   29                                                       
CONECT   29   28                                                            
CONECT   30   26   23   31                                                  
CONECT   31   30                                                            
CONECT   32   20   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32   35   36                                                  
CONECT   35   34                                                            
CONECT   36   34   18   37                                                  
CONECT   37   36                                                            
CONECT   38   16    3                                                       
MASTER        0    0    0    0    0    0    0    0   38    0   82    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₆H₃₂O₁₂

Average Mass

536.5300 Da

Monoisotopic Mass

536.18938 Da

IUPAC Name

(2R,3S,4S,5R,6S)-2-({[(2R,3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(E)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol

Traditional Name

(2R,3S,4S,5R,6S)-2-({[(2R,3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(E)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol

CAS Registry Number

Not Available

SMILES

COC1=CC(\C=C\C2=CC=C(O)C=C2)=CC(O[C@@H]2O[C@H](CO[C@@H]3OC[C@](O)(CO)[C@H]3O)[C@@H](O)[C@H](O)[C@H]2O)=C1

InChI Identifier

InChI=1S/C26H32O12/c1-34-17-8-15(3-2-14-4-6-16(28)7-5-14)9-18(10-17)37-24-22(31)21(30)20(29)19(38-24)11-35-25-23(32)26(33,12-27)13-36-25/h2-10,19-25,27-33H,11-13H2,1H3/b3-2+/t19-,20-,21+,22-,23+,24-,25-,26-/m1/s1

InChI Key

DFZIOIQWPPLYQS-BCXMIILDSA-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
Acer pictum subsp. Mono	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
Disaccharide
O-glycosyl compound
Glycosyl compound
Phenoxy compound
Anisole
Phenol ether
Methoxybenzene
Styrene
1-hydroxy-2-unsubstituted benzenoid
Alkyl aryl ether
Phenol
Oxane
Monocyclic benzene moiety
Benzenoid
Oxolane
Tertiary alcohol
Secondary alcohol
Acetal
Oxacycle
Organoheterocyclic compound
Ether
Polyol
Alcohol
Organic oxygen compound
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
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	0.0037	ChemAxon
pKa (Strongest Acidic)	9	ChemAxon
pKa (Strongest Basic)	-3.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	12	ChemAxon
Hydrogen Donor Count	7	ChemAxon
Polar Surface Area	187.76 Å²	ChemAxon
Rotatable Bond Count	9	ChemAxon
Refractivity	130.75 m³·mol⁻¹	ChemAxon
Polarizability	53.63 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

9630300

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11455450

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol (NP0202037)

MOL for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

3D MOL for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

3D SDF for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

3D-SDF for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

PDB for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

3D PDB for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

SMILES for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

INCHI for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

Structure for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)

3D Structure for NP0202037 ((2r,3s,4s,5r,6s)-2-({[(2r,3r,4r)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxy}methyl)-6-{3-[(1e)-2-(4-hydroxyphenyl)ethenyl]-5-methoxyphenoxy}oxane-3,4,5-triol)