NP-MRD: Showing NP-Card for 5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate (NP0167868)

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Record Information

Version

2.0

Created at

2022-09-03 03:33:08 UTC

Updated at

2022-09-03 03:33:08 UTC

NP-MRD ID

NP0167868

Secondary Accession Numbers

None

Natural Product Identification

Common Name

5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate

Description

Ligudentatone B belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units. 5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate is found in Ligularia dentata. Based on a literature review very few articles have been published on Ligudentatone B.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309032205332D          

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M  END

     RDKit          3D

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M  END


  Mrv1652309032205332D          

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 29 30  2  0  0  0  0
 29 31  1  0  0  0  0
 31 32  1  0  0  0  0
 31 33  2  0  0  0  0
 33 34  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0167868

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC(C)(C)C(O)CC(OC(=O)C(\C)=C/C)C(=C)[C@H]1C[C@H]2O[C@@]2(C)C(=O)[C@@H]1OC(=O)C(\C)=C/C

> <INCHI_IDENTIFIER>
InChI=1S/C26H38O8/c1-10-14(3)23(29)32-18(13-19(27)25(6,7)31-9)16(5)17-12-20-26(8,34-20)22(28)21(17)33-24(30)15(4)11-2/h10-11,17-21,27H,5,12-13H2,1-4,6-9H3/b14-10-,15-11-/t17-,18?,19?,20-,21-,26-/m1/s1

> <INCHI_KEY>
XPBNTGONBVFRDJ-GYVCQLPKSA-N

> <FORMULA>
C26H38O8

> <MOLECULAR_WEIGHT>
478.582

> <EXACT_MASS>
478.256668184

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
72

> <JCHEM_AVERAGE_POLARIZABILITY>
51.303582784677566

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
5-hydroxy-6-methoxy-6-methyl-2-[(1R,3R,4R,6R)-6-methyl-4-{[(2Z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2Z)-2-methylbut-2-enoate

> <ALOGPS_LOGP>
3.48

> <JCHEM_LOGP>
4.299214415666666

> <ALOGPS_LOGS>
-4.78

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.819313147396027

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.910259387438241

> <JCHEM_PKA_STRONGEST_BASIC>
-3.2730596526909768

> <JCHEM_POLAR_SURFACE_AREA>
111.66

> <JCHEM_REFRACTIVITY>
127.2281

> <JCHEM_ROTATABLE_BOND_COUNT>
12

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
7.88e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
5-hydroxy-6-methoxy-6-methyl-2-[(1R,3R,4R,6R)-6-methyl-4-{[(2Z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2Z)-2-methylbut-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 03-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   03-SEP-22         0                                  
HETATM    1  C   UNK     0      -2.667  -3.080   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -1.334  -3.850   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.000  -3.080   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.000  -1.540   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      -2.667  -1.540   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0      -1.334   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -2.874   0.770   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       0.206   0.770   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      -1.334   2.310   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       0.000   3.080   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0       1.334  -3.850   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0       2.667  -3.080   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       2.667  -1.540   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       4.001  -3.850   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       5.335  -3.080   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.001  -5.390   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.667  -6.160   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -1.334  -5.390   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       0.000  -6.160   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       0.000  -7.700   0.000  0.00  0.00           C+0
HETATM   22  O   UNK     0       0.000  -9.240   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0      -1.334  -8.470   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      -2.104  -9.804   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      -2.667  -7.700   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0      -4.001  -8.470   0.000  0.00  0.00           O+0
HETATM   27  C   UNK     0      -2.667  -6.160   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      -4.001  -5.390   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0      -5.335  -6.160   0.000  0.00  0.00           C+0
HETATM   30  O   UNK     0      -5.335  -7.700   0.000  0.00  0.00           O+0
HETATM   31  C   UNK     0      -6.668  -5.390   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      -6.668  -3.850   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -8.002  -6.160   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      -8.002  -7.700   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   19                                                  
CONECT    3    2    4   12                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8    9   10                                             
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    7   11                                                       
CONECT   11   10                                                            
CONECT   12    3   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15   18                                                       
CONECT   18   17                                                            
CONECT   19    2   20   27                                                  
CONECT   20   19   21                                                       
CONECT   21   20   22   23                                                  
CONECT   22   21   23                                                       
CONECT   23   22   21   24   25                                             
CONECT   24   23                                                            
CONECT   25   23   26   27                                                  
CONECT   26   25                                                            
CONECT   27   25   19   28                                                  
CONECT   28   27   29                                                       
CONECT   29   28   30   31                                                  
CONECT   30   29                                                            
CONECT   31   29   32   33                                                  
CONECT   32   31                                                            
CONECT   33   31   34                                                       
CONECT   34   33                                                            
MASTER        0    0    0    0    0    0    0    0   34    0   70    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₆H₃₈O₈

Average Mass

478.5820 Da

Monoisotopic Mass

478.25667 Da

IUPAC Name

5-hydroxy-6-methoxy-6-methyl-2-[(1R,3R,4R,6R)-6-methyl-4-{[(2Z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2Z)-2-methylbut-2-enoate

Traditional Name

5-hydroxy-6-methoxy-6-methyl-2-[(1R,3R,4R,6R)-6-methyl-4-{[(2Z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2Z)-2-methylbut-2-enoate

CAS Registry Number

Not Available

SMILES

COC(C)(C)C(O)CC(OC(=O)C(\C)=C/C)C(=C)[C@H]1C[C@H]2O[C@@]2(C)C(=O)[C@@H]1OC(=O)C(\C)=C/C

InChI Identifier

InChI=1S/C26H38O8/c1-10-14(3)23(29)32-18(13-19(27)25(6,7)31-9)16(5)17-12-20-26(8,34-20)22(28)21(17)33-24(30)15(4)11-2/h10-11,17-21,27H,5,12-13H2,1-4,6-9H3/b14-10-,15-11-/t17-,18?,19?,20-,21-,26-/m1/s1

InChI Key

XPBNTGONBVFRDJ-GYVCQLPKSA-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
Ligularia dentata	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Sesquiterpenoids

Alternative Parents

Substituents

Bisabolane sesquiterpenoid
Sesquiterpenoid
Alpha-acyloxy ketone
Oxepane
Fatty acid ester
Fatty acyl
Dicarboxylic acid or derivatives
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Secondary alcohol
Ketone
Carboxylic acid ester
Oxacycle
Organoheterocyclic compound
Ether
Oxirane
Dialkyl ether
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Alcohol
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic 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	3.48	ALOGPS
logP	4.3	ChemAxon
logS	-4.8	ALOGPS
pKa (Strongest Acidic)	13.91	ChemAxon
pKa (Strongest Basic)	-3.3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	111.66 Å²	ChemAxon
Rotatable Bond Count	12	ChemAxon
Refractivity	127.23 m³·mol⁻¹	ChemAxon
Polarizability	51.3 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	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

102427335

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate (NP0167868)

MOL for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

3D MOL for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

3D SDF for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

3D-SDF for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

PDB for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

3D PDB for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

SMILES for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

INCHI for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

Structure for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)

3D Structure for NP0167868 (5-hydroxy-6-methoxy-6-methyl-2-[(1r,3r,4r,6r)-6-methyl-4-{[(2z)-2-methylbut-2-enoyl]oxy}-5-oxo-7-oxabicyclo[4.1.0]heptan-3-yl]hept-1-en-3-yl (2z)-2-methylbut-2-enoate)