NP-MRD: Showing NP-Card for (-)-Seneganolide (NP0080882)

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Record Information

Version

2.0

Created at

2022-04-29 01:51:52 UTC

Updated at

2022-04-29 01:51:52 UTC

NP-MRD ID

NP0080882

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(-)-Seneganolide

Description

Seneganolide belongs to the class of organic compounds known as limonoids. These are highly oxygenated, modified terpenoids with a prototypical structure either containing or derived from a precursor with a 4,4,8-trimethyl-17-furanylsteroid skeleton. All naturally occurring citrus limonoids contain a furan ring attached to the D-ring, at C-17, as well as oxygen containing functional groups at C-3, C-4, C-7, C-16 and C-17. (-)-Seneganolide is found in Khaya senegalensis . Based on a literature review very few articles have been published on Seneganolide.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652304292203512D          

 34 40  0  0  1  0            999 V2000
    3.2695   -0.7673    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.2631    0.1261    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9380    0.5476    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6082    0.0807    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5576   -0.7427    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8868   -1.3750    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.0513   -2.2770    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9958   -2.5473    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.1182   -2.6556    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8591   -3.4389    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1652304292203512D          

 34 40  0  0  1  0            999 V2000
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M  END
> <DATABASE_ID>
NP0080882

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1(C)[C@@H]2CC(=O)OC[C@@]22[C@H]3CC[C@]4(C)[C@@H](CC(=O)O[C@H]4C4=COC=C4)[C@@]33C[C@@H](C1=O)[C@]2(O)O3

> <INCHI_IDENTIFIER>
InChI=1S/C26H30O8/c1-22(2)16-8-18(27)32-12-24(16)15-4-6-23(3)17(9-19(28)33-21(23)13-5-7-31-11-13)25(15)10-14(20(22)29)26(24,30)34-25/h5,7,11,14-17,21,30H,4,6,8-10,12H2,1-3H3/t14-,15+,16-,17+,21-,23+,24+,25+,26-/m0/s1

> <INCHI_KEY>
VIOKSDWKSSMHBF-MQELVVIJSA-N

> <FORMULA>
C26H30O8

> <MOLECULAR_WEIGHT>
470.518

> <EXACT_MASS>
470.194067926

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
64

> <JCHEM_AVERAGE_POLARIZABILITY>
47.70223315419484

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,2R,6R,7R,10R,11S,16S,19S,20S)-6-(furan-3-yl)-20-hydroxy-7,17,17-trimethyl-5,13,21-trioxahexacyclo[17.2.1.0^{1,10}.0^{2,7}.0^{11,16}.0^{11,20}]docosane-4,14,18-trione

> <ALOGPS_LOGP>
2.09

> <JCHEM_LOGP>
2.5369997333333334

> <ALOGPS_LOGS>
-3.46

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
7

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.611009580666796

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.210889187745053

> <JCHEM_PKA_STRONGEST_BASIC>
-2.875343762144512

> <JCHEM_POLAR_SURFACE_AREA>
112.27000000000001

> <JCHEM_REFRACTIVITY>
115.07860000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.65e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2R,6R,7R,10R,11S,16S,19S,20S)-6-(furan-3-yl)-20-hydroxy-7,17,17-trimethyl-5,13,21-trioxahexacyclo[17.2.1.0^{1,10}.0^{2,7}.0^{11,16}.0^{11,20}]docosane-4,14,18-trione

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 29-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   29-APR-22         0                                  
HETATM    1  C   UNK     0       6.103  -1.432   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.091   0.235   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       7.351   1.022   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       8.602   0.151   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       8.508  -1.386   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       7.255  -2.567   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       7.562  -4.250   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       5.592  -4.755   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       3.954  -4.957   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       3.470  -6.419   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       2.773  -3.831   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.112  -2.252   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.660  -1.998   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       5.367  -3.387   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       6.687  -4.346   0.000  0.00  0.00           O+0
HETATM   16  O   UNK     0       3.903  -3.867   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       4.921  -0.400   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       4.037   0.877   0.000  0.00  0.00           O+0
HETATM   19  C   UNK     0       2.553   0.536   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0       1.505   1.664   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0       2.091  -0.960   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       1.683  -4.919   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       1.260  -3.545   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       9.792  -2.237   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      11.170  -1.550   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0      12.454  -2.400   0.000  0.00  0.00           O+0
HETATM   27  O   UNK     0      11.264  -0.013   0.000  0.00  0.00           O+0
HETATM   28  C   UNK     0       9.980   0.838   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      10.075   2.375   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       8.886   3.354   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0       9.451   4.787   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0      10.988   4.693   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      11.374   3.202   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       8.714   1.687   0.000  0.00  0.00           C+0
CONECT    1    2    6   13                                                  
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5   28   34                                             
CONECT    5    4    6   24                                                  
CONECT    6    5    1    7   15                                             
CONECT    7    6    8                                                       
CONECT    8    7    9   14                                                  
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   22   23                                             
CONECT   12   11   13   21                                                  
CONECT   13   12    1   14   17                                             
CONECT   14   13    8   15   16                                             
CONECT   15   14    6                                                       
CONECT   16   14                                                            
CONECT   17   13   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   12                                                       
CONECT   22   11                                                            
CONECT   23   11                                                            
CONECT   24    5   25                                                       
CONECT   25   24   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25   28                                                       
CONECT   28   27    4   29                                                  
CONECT   29   28   30   33                                                  
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   29                                                       
CONECT   34    4                                                            
MASTER        0    0    0    0    0    0    0    0   34    0   80    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₆H₃₀O₈

Average Mass

470.5180 Da

Monoisotopic Mass

470.19407 Da

IUPAC Name

(1S,2R,6R,7R,10R,11S,16S,19S,20S)-6-(furan-3-yl)-20-hydroxy-7,17,17-trimethyl-5,13,21-trioxahexacyclo[17.2.1.0^{1,10}.0^{2,7}.0^{11,16}.0^{11,20}]docosane-4,14,18-trione

Traditional Name

(1S,2R,6R,7R,10R,11S,16S,19S,20S)-6-(furan-3-yl)-20-hydroxy-7,17,17-trimethyl-5,13,21-trioxahexacyclo[17.2.1.0^{1,10}.0^{2,7}.0^{11,16}.0^{11,20}]docosane-4,14,18-trione

CAS Registry Number

Not Available

SMILES

CC1(C)[C@@H]2CC(=O)OC[C@@]22[C@H]3CC[C@]4(C)[C@@H](CC(=O)O[C@H]4C4=COC=C4)[C@@]33C[C@@H](C1=O)[C@]2(O)O3

InChI Identifier

InChI=1S/C26H30O8/c1-22(2)16-8-18(27)32-12-24(16)15-4-6-23(3)17(9-19(28)33-21(23)13-5-7-31-11-13)25(15)10-14(20(22)29)26(24,30)34-25/h5,7,11,14-17,21,30H,4,6,8-10,12H2,1-3H3/t14-,15+,16-,17+,21-,23+,24+,25+,26-/m0/s1

InChI Key

VIOKSDWKSSMHBF-MQELVVIJSA-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
Khaya senegalensis	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as limonoids. These are highly oxygenated, modified terpenoids with a prototypical structure either containing or derived from a precursor with a 4,4,8-trimethyl-17-furanylsteroid skeleton. All naturally occurring citrus limonoids contain a furan ring attached to the D-ring, at C-17, as well as oxygen containing functional groups at C-3, C-4, C-7, C-16 and C-17.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Triterpenoids

Direct Parent

Limonoids

Alternative Parents

Substituents

Limonoid skeleton
Mexicanolide
Naphthopyran
Naphthalene
Delta valerolactone
Delta_valerolactone
Dicarboxylic acid or derivatives
Oxane
Pyran
Tetrahydrofuran
Cyclic alcohol
Furan
Heteroaromatic compound
Carboxylic acid ester
Hemiacetal
Ketone
Lactone
Carboxylic acid derivative
Oxacycle
Organoheterocyclic compound
Organic oxygen compound
Carbonyl group
Organic oxide
Organooxygen compound
Hydrocarbon derivative
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	2.09	ALOGPS
logP	2.54	ChemAxon
logS	-3.5	ALOGPS
pKa (Strongest Acidic)	11.21	ChemAxon
pKa (Strongest Basic)	-2.9	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	112.27 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	115.08 m³·mol⁻¹	ChemAxon
Polarizability	47.7 Å³	ChemAxon
Number of Rings	7	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

C00045545

Chemspider ID

8871029

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10695684

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for (-)-Seneganolide (NP0080882)

MOL for NP0080882 ((-)-Seneganolide)

3D MOL for NP0080882 ((-)-Seneganolide)

3D SDF for NP0080882 ((-)-Seneganolide)

3D-SDF for NP0080882 ((-)-Seneganolide)

PDB for NP0080882 ((-)-Seneganolide)

3D PDB for NP0080882 ((-)-Seneganolide)

SMILES for NP0080882 ((-)-Seneganolide)

INCHI for NP0080882 ((-)-Seneganolide)

Structure for NP0080882 ((-)-Seneganolide)

3D Structure for NP0080882 ((-)-Seneganolide)