NP-MRD: Showing NP-Card for (3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one (NP0211232)

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Record Information

Version

2.0

Created at

2022-09-05 09:24:50 UTC

Updated at

2022-09-05 09:24:50 UTC

NP-MRD ID

NP0211232

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one

Description

Diphysin belongs to the class of organic compounds known as neoflavans. These are neoflavonoids with a structure based on a 3,4-dihydro-4-aryl-2H-1-benzopyran skeleton. (3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one is found in Diphysa robinioides and Ormocarpum kirkii. (3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one was first documented in 2019 (PMID: 30836216). Based on a literature review very few articles have been published on Diphysin.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309052211242D          

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M  END

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  Mrv1652309052211242D          

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 16 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18 19  2  0  0  0  0
 13 19  1  0  0  0  0
 12 20  1  0  0  0  0
  2 20  1  0  0  0  0
 20 21  1  6  0  0  0
 21 22  1  6  0  0  0
 22 23  2  0  0  0  0
 22 24  1  0  0  0  0
 24 25  1  0  0  0  0
 25 26  2  0  0  0  0
 26 27  1  0  0  0  0
 27 28  1  0  0  0  0
 27 29  2  0  0  0  0
 29 30  1  0  0  0  0
 30 31  1  0  0  0  0
 30 32  2  0  0  0  0
 25 32  1  0  0  0  0
 32 33  1  0  0  0  0
 21 33  1  0  0  0  0
 33 34  1  6  0  0  0
 34 35  2  0  0  0  0
 35 36  1  0  0  0  0
 36 37  2  0  0  0  0
 37 38  1  0  0  0  0
 37 39  1  0  0  0  0
 39 40  2  0  0  0  0
 34 40  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0211232

> <DATABASE_NAME>
NP-MRD

> <SMILES>
OC1=CC=C(C=C1)[C@@H]1[C@H]([C@H]2[C@@H](C3=CC=C(O)C=C3)C3=C(O)C=C(O)C=C3OC2=O)C(=O)OC2=CC(O)=CC(O)=C12

> <INCHI_IDENTIFIER>
InChI=1S/C30H22O10/c31-15-5-1-13(2-6-15)23-25-19(35)9-17(33)11-21(25)39-29(37)27(23)28-24(14-3-7-16(32)8-4-14)26-20(36)10-18(34)12-22(26)40-30(28)38/h1-12,23-24,27-28,31-36H/t23-,24-,27+,28+/m0/s1

> <INCHI_KEY>
WCAMADNGWUBZMH-KBJUPQRZSA-N

> <FORMULA>
C30H22O10

> <MOLECULAR_WEIGHT>
542.496

> <EXACT_MASS>
542.121296908

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
62

> <JCHEM_AVERAGE_POLARIZABILITY>
52.811345201913625

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
6

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3R,4S)-3-[(3R,4S)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-2H-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-2-one

> <JCHEM_LOGP>
4.525702449999999

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
6

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
8.766425833131315

> <JCHEM_PKA_STRONGEST_ACIDIC>
8.264324937005526

> <JCHEM_PKA_STRONGEST_BASIC>
-5.729041307217213

> <JCHEM_POLAR_SURFACE_AREA>
173.98

> <JCHEM_REFRACTIVITY>
140.22799999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(3R,4S)-3-[(3R,4S)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 05-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   05-SEP-22         0                                  
HETATM    1  O   UNK     0       0.626  -6.027   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       0.000  -4.620   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0      -1.334  -5.390   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0      -2.667  -4.620   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -4.001  -5.390   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -5.335  -4.620   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0      -6.668  -5.390   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0      -5.335  -3.080   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -4.001  -2.310   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      -4.001  -0.770   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0      -2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      -1.334  -2.310   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -2.667  -0.000   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -2.667   1.540   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      -1.334   2.310   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      -1.334   3.850   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       0.000  -0.000   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       0.000  -3.080   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       1.334  -2.310   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       0.707   0.637   0.000  0.00  0.00           O+0
HETATM   24  O   UNK     0       2.667   0.000   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0       4.001  -0.770   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       5.335   0.000   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       6.668  -0.770   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0       8.002  -0.000   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0       6.668  -2.310   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0       5.335  -4.620   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       2.667  -4.620   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       4.001  -5.390   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0       4.001  -6.930   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0       2.667  -7.700   0.000  0.00  0.00           C+0
HETATM   38  O   UNK     0       2.667  -9.240   0.000  0.00  0.00           O+0
HETATM   39  C   UNK     0       1.334  -6.930   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0       1.334  -5.390   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   20                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   11                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9    4   12                                                  
CONECT   12   11   13   20                                                  
CONECT   13   12   14   19                                                  
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19                                                       
CONECT   19   18   13                                                       
CONECT   20   12    2   21                                                  
CONECT   21   20   22   33                                                  
CONECT   22   21   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   25                                                       
CONECT   25   24   26   32                                                  
CONECT   26   25   27                                                       
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30                                                       
CONECT   30   29   31   32                                                  
CONECT   31   30                                                            
CONECT   32   30   25   33                                                  
CONECT   33   32   21   34                                                  
CONECT   34   33   35   40                                                  
CONECT   35   34   36                                                       
CONECT   36   35   37                                                       
CONECT   37   36   38   39                                                  
CONECT   38   37                                                            
CONECT   39   37   40                                                       
CONECT   40   39   34                                                       
MASTER        0    0    0    0    0    0    0    0   40    0   90    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₃₀H₂₂O₁₀

Average Mass

542.4960 Da

Monoisotopic Mass

542.12130 Da

IUPAC Name

(3R,4S)-3-[(3R,4S)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-2H-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-2-one

Traditional Name

(3R,4S)-3-[(3R,4S)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one

CAS Registry Number

Not Available

SMILES

OC1=CC=C(C=C1)[C@@H]1[C@H]([C@H]2[C@@H](C3=CC=C(O)C=C3)C3=C(O)C=C(O)C=C3OC2=O)C(=O)OC2=CC(O)=CC(O)=C12

InChI Identifier

InChI=1S/C30H22O10/c31-15-5-1-13(2-6-15)23-25-19(35)9-17(33)11-21(25)39-29(37)27(23)28-24(14-3-7-16(32)8-4-14)26-20(36)10-18(34)12-22(26)40-30(28)38/h1-12,23-24,27-28,31-36H/t23-,24-,27+,28+/m0/s1

InChI Key

WCAMADNGWUBZMH-KBJUPQRZSA-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
Diphysa robinioides	LOTUS Database	35616633
Ormocarpum kirkii	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as neoflavans. These are neoflavonoids with a structure based on a 3,4-dihydro-4-aryl-2H-1-benzopyran skeleton.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Neoflavonoids

Sub Class

Neoflavans

Direct Parent

Neoflavans

Alternative Parents

Substituents

Neoflavan
3,4-dihydrocoumarin
Chromane
1-benzopyran
Benzopyran
1-hydroxy-4-unsubstituted benzenoid
1-hydroxy-2-unsubstituted benzenoid
Phenol
Monocyclic benzene moiety
Benzenoid
Dicarboxylic acid or derivatives
Lactone
Carboxylic acid ester
Oxacycle
Organoheterocyclic compound
Carboxylic acid derivative
Organic oxygen compound
Carbonyl group
Organooxygen compound
Hydrocarbon derivative
Organic oxide
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	4.53	ChemAxon
pKa (Strongest Acidic)	8.26	ChemAxon
pKa (Strongest Basic)	-5.7	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	6	ChemAxon
Polar Surface Area	173.98 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	140.23 m³·mol⁻¹	ChemAxon
Polarizability	52.81 Å³	ChemAxon
Number of Rings	6	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

C00006584

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

133556276

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Adem FA, Mbaveng AT, Kuete V, Heydenreich M, Ndakala A, Irungu B, Yenesew A, Efferth T: Cytotoxicity of isoflavones and biflavonoids from Ormocarpum kirkii towards multi-factorial drug resistant cancer. Phytomedicine. 2019 May;58:152853. doi: 10.1016/j.phymed.2019.152853. Epub 2019 Jan 30. [PubMed:30836216 ]
LOTUS database [Link]

Showing NP-Card for (3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one (NP0211232)

MOL for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

3D MOL for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

3D SDF for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

3D-SDF for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

PDB for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

3D PDB for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

SMILES for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

INCHI for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

Structure for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)

3D Structure for NP0211232 ((3r,4s)-3-[(3r,4s)-5,7-dihydroxy-4-(4-hydroxyphenyl)-2-oxo-3,4-dihydro-1-benzopyran-3-yl]-5,7-dihydroxy-4-(4-hydroxyphenyl)-3,4-dihydro-1-benzopyran-2-one)