NP-MRD: Showing NP-Card for Gymnogrammene (NP0054658)

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Record Information

Version

2.0

Created at

2022-04-28 00:56:46 UTC

Updated at

2022-04-28 00:56:46 UTC

NP-MRD ID

NP0054658

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Gymnogrammene

Description

Gymnogrammene belongs to the class of organic compounds known as 2'-hydroxychalcones. These are organic compounds containing chalcone skeleton that carries a hydroxyl group at the 2'-position. Thus, gymnogrammene is considered to be a flavonoid. Gymnogrammene is found in Mimosa tenuiflora, Pityrogramma calomelanos , Pityrogramma chrysophylla , Pityrogramma ebenea, Pityrogramma tartarea, Populus sieboldii, Pterozonium brevifrons and Vitex quinata. Gymnogrammene was first documented in 2021 (PMID: 32338066). Based on a literature review very few articles have been published on Gymnogrammene.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 38 39  0  0  0  0  0  0  0  0999 V2000
    7.4428   -0.7322    0.0965 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4711   -1.6797    0.4893 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.1184   -1.3174    0.3845 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7418   -0.0897   -0.0815 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4095    0.2604   -0.1821 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4193   -0.5911    0.1740 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9630   -0.2852    0.0938 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4658    0.8311   -0.3259 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8053    1.4018   -0.5137 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6426    2.6541   -1.0033 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1767    1.0851   -0.3548 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1265    2.0740   -0.7132 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7276    3.3018   -1.1995 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4870    1.8795   -0.6020 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9810    0.6956   -0.1301 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3307    0.5227   -0.0276 O   0  0  0  0  0  0  0  0  0  0  0  0
   -6.9989   -0.6086    0.4285 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0965   -0.2622    0.2179 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7143   -0.0647    0.1050 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9180   -1.1085    0.4886 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.7966   -1.8523    0.6530 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1248   -2.2065    0.7554 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2965   -0.5334   -0.9939 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.4619   -1.0338    0.3378 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.2663    0.2445    0.6275 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.5312    0.6190   -0.3771 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1938    1.2356   -0.5545 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2860   -1.0455    0.4063 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3273    1.5440   -0.6249 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3480    4.0336   -1.4669 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1834    2.6623   -0.8871 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4015   -1.1717   -0.4520 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4120   -1.2885    1.0516 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.8473   -0.2482    1.0812 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4261   -1.2050    0.5920 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1952   -1.9992    0.8411 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0489   -2.5583    0.9464 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4536   -3.1635    1.1177 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
 11 12  2  0
 12 13  1  0
 12 14  1  0
 14 15  2  0
 15 16  1  0
 16 17  1  0
 15 18  1  0
 18 19  2  0
 19 20  1  0
  6 21  1  0
 21 22  2  0
 22  3  1  0
 19 11  1  0
  1 23  1  0
  1 24  1  0
  1 25  1  0
  4 26  1  0
  5 27  1  0
  7 28  1  0
  8 29  1  0
 13 30  1  0
 14 31  1  0
 17 32  1  0
 17 33  1  0
 17 34  1  0
 18 35  1  0
 20 36  1  0
 21 37  1  0
 22 38  1  0
M  END


  Mrv1652304282202562D          

 22 23  0  0  0  0            999 V2000
    2.8579   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -3.7125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -4.1250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -3.7125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -2.8875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -4.1250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -4.9500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724   -5.3625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -5.3625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -6.1875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -6.6000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -7.4250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -7.8375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0000   -7.4250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0000   -6.6000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -6.1875    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -7.8375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289   -7.4250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868   -4.1250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579   -1.6500    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434   -1.2375    0.0000 C   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
  4  8  1  0  0  0  0
  8  9  2  0  0  0  0
  8 10  1  0  0  0  0
 10 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  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
 15 18  1  0  0  0  0
 18 19  1  0  0  0  0
  3 20  1  0  0  0  0
  1 21  1  0  0  0  0
 21 22  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0054658

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC1=CC=C(\C=C\C(=O)C2=C(O)C=C(OC)C=C2O)C=C1

> <INCHI_IDENTIFIER>
InChI=1S/C17H16O5/c1-21-12-6-3-11(4-7-12)5-8-14(18)17-15(19)9-13(22-2)10-16(17)20/h3-10,19-20H,1-2H3/b8-5+

> <INCHI_KEY>
NXHNEWMDVUHUCV-VMPITWQZSA-N

> <FORMULA>
C17H16O5

> <MOLECULAR_WEIGHT>
300.31

> <EXACT_MASS>
300.099773615

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
31.67187606992589

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2E)-1-(2,6-dihydroxy-4-methoxyphenyl)-3-(4-methoxyphenyl)prop-2-en-1-one

> <ALOGPS_LOGP>
3.52

> <JCHEM_LOGP>
4.267852134333333

> <ALOGPS_LOGS>
-4.04

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
8.263324073394488

> <JCHEM_PKA_STRONGEST_ACIDIC>
6.958060994676153

> <JCHEM_PKA_STRONGEST_BASIC>
-4.539263646615809

> <JCHEM_POLAR_SURFACE_AREA>
75.99000000000001

> <JCHEM_REFRACTIVITY>
83.76520000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.74e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
gymnogrammene

> <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       5.335  -4.620   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.668  -5.390   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.668  -6.930   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.335  -7.700   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       4.001  -6.930   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.001  -5.390   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       2.667  -7.700   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       5.335  -9.240   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       6.668 -10.010   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       4.001 -10.010   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.001 -11.550   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       2.667 -12.320   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       2.667 -13.860   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       1.334 -14.630   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -0.000 -13.860   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      -0.000 -12.320   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       1.334 -11.550   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0      -1.334 -14.630   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0      -2.667 -13.860   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       8.002  -7.700   0.000  0.00  0.00           O+0
HETATM   21  O   UNK     0       5.335  -3.080   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0       4.001  -2.310   0.000  0.00  0.00           C+0
CONECT    1    2    6   21                                                  
CONECT    2    1    3                                                       
CONECT    3    2    4   20                                                  
CONECT    4    3    5    8                                                  
CONECT    5    4    6    7                                                  
CONECT    6    5    1                                                       
CONECT    7    5                                                            
CONECT    8    4    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13   17                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14   16   18                                                  
CONECT   16   15   17                                                       
CONECT   17   16   12                                                       
CONECT   18   15   19                                                       
CONECT   19   18                                                            
CONECT   20    3                                                            
CONECT   21    1   22                                                       
CONECT   22   21                                                            
MASTER        0    0    0    0    0    0    0    0   22    0   46    0
END

View in JSmol

Synonyms

Value	Source
1-(2,6-Dihydroxy-4-methoxyphenyl)-3-(4-methoxyphenyl)-2-propen-1-one	MeSH

Chemical Formula

C₁₇H₁₆O₅

Average Mass

300.3100 Da

Monoisotopic Mass

300.09977 Da

IUPAC Name

(2E)-1-(2,6-dihydroxy-4-methoxyphenyl)-3-(4-methoxyphenyl)prop-2-en-1-one

Traditional Name

gymnogrammene

CAS Registry Number

Not Available

SMILES

COC1=CC=C(\C=C\C(=O)C2=C(O)C=C(OC)C=C2O)C=C1

InChI Identifier

InChI=1S/C17H16O5/c1-21-12-6-3-11(4-7-12)5-8-14(18)17-15(19)9-13(22-2)10-16(17)20/h3-10,19-20H,1-2H3/b8-5+

InChI Key

NXHNEWMDVUHUCV-VMPITWQZSA-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
Mimosa tenuiflora	LOTUS Database	35616633
Pityrogramma calomelanos	Plant	KNApSAcK
Pityrogramma chrysophylla	Plant	KNApSAcK
Pityrogramma ebenea	LOTUS Database	35616633
Pityrogramma tartarea	Plant	KNApSAcK
Populus sieboldii	Plant	KNApSAcK
Pterozonium brevifrons	Plant	KNApSAcK
Vitex quinata	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 2'-hydroxychalcones. These are organic compounds containing chalcone skeleton that carries a hydroxyl group at the 2'-position.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Linear 1,3-diarylpropanoids

Sub Class

Chalcones and dihydrochalcones

Direct Parent

2'-Hydroxychalcones

Alternative Parents

Substituents

2'-hydroxychalcone
Cinnamylphenol
Methoxyphenol
Anisole
Benzoyl
Phenoxy compound
Phenol ether
Resorcinol
Styrene
Aryl ketone
Methoxybenzene
1-hydroxy-2-unsubstituted benzenoid
1-hydroxy-4-unsubstituted benzenoid
Alkyl aryl ether
Phenol
Monocyclic benzene moiety
Benzenoid
Vinylogous acid
Alpha,beta-unsaturated ketone
Enone
Acryloyl-group
Ketone
Ether
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Organooxygen compound
Aromatic homomonocyclic compound

Molecular Framework

Aromatic homomonocyclic compounds

External Descriptors

Chalcones and dihydrochalcones (LMPK12120311 )

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	3.52	ALOGPS
logP	4.27	ChemAxon
logS	-4	ALOGPS
pKa (Strongest Acidic)	6.96	ChemAxon
pKa (Strongest Basic)	-4.5	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	75.99 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	83.77 m³·mol⁻¹	ChemAxon
Polarizability	31.67 Å³	ChemAxon
Number of Rings	2	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

C00006955

Chemspider ID

4943048

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

6438580

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

G Veloso CA, Alencar D Figueiredo I, da Silva GR, Miranda de Melo JI, S da Silva M, Tavares JF, de A Cavalcante F, de O Costa VC: Flavonoids from Varronia dardani (Taroda) J.S. Mill (cordiaceae) and the evaluation of spasmolytic activity of its crude ethanolic extract. Nat Prod Res. 2021 Nov;35(21):4197-4201. doi: 10.1080/14786419.2020.1753737. Epub 2020 Apr 27. [PubMed:32338066 ]

Showing NP-Card for Gymnogrammene (NP0054658)

MOL for NP0054658 (Gymnogrammene)

3D MOL for NP0054658 (Gymnogrammene)

3D SDF for NP0054658 (Gymnogrammene)

3D-SDF for NP0054658 (Gymnogrammene)

PDB for NP0054658 (Gymnogrammene)

3D PDB for NP0054658 (Gymnogrammene)

SMILES for NP0054658 (Gymnogrammene)

INCHI for NP0054658 (Gymnogrammene)

Structure for NP0054658 (Gymnogrammene)

3D Structure for NP0054658 (Gymnogrammene)