NP-MRD: Showing NP-Card for 1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate (NP0151371)

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Record Information

Version

2.0

Created at

2022-09-02 07:40:40 UTC

Updated at

2022-09-02 07:40:40 UTC

NP-MRD ID

NP0151371

Secondary Accession Numbers

None

Natural Product Identification

Common Name

1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate

Description

1,3-Dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl)-3-methylpent-2-enoate belongs to the class of organic compounds known as colensane and clerodane diterpenoids. These are diterpenoids with a structure based on the clerodane or the colensane skeleton. Clerodanes arise from labdanes by two methyl migrations. 1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate is found in Doris kerguelenensis. 1,3-Dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl)-3-methylpent-2-enoate is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004241510382D          

 27 28  0  0  0  0            999 V2000
   -5.2815    6.3289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1060    6.3001    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5432    6.9997    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.3677    6.9710    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7550    6.2425    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.1922    6.9422    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.3178    5.5429    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7051    4.8144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5296    4.7857    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.9668    5.4853    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5795    6.2137    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0167    6.9134    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4933    5.5717    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4358    4.7487    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7788    5.1592    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7788    4.3342    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0644    3.9217    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0644    3.0967    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3499    2.6842    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6354    3.0967    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3499    1.8592    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6354    1.4467    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6354    0.6217    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9210    0.2092    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9210    1.8592    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2065    1.4467    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3499    4.3342    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  5  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
  5 11  1  0  0  0  0
 11 12  2  0  0  0  0
  7 13  1  0  0  0  0
  2 13  1  0  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  2  0  0  0  0
 18 19  1  4  0  0  0
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 21 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  1  0  0  0  0
 22 25  1  0  0  0  0
 25 26  1  0  0  0  0
 17 27  1  0  0  0  0
M  END

     RDKit          3D

 65 66  0  0  0  0  0  0  0  0999 V2000
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    5.8403   -0.5574    0.9385 C   0  0  0  0  0  0  0  0  0  0  0  0
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    5.8968    1.8363    1.2213 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.7943   -1.7405    0.9223 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7803   -1.5690   -0.0614 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -0.0750    1.4693    1.9507 H   0  0  0  0  0  0  0  0  0  0  0  0
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    0.4971    1.7318   -0.5894 H   0  0  0  0  0  0  0  0  0  0  0  0
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 26 64  1  0
 27 65  1  0
M  END


  Mrv1533004241510382D          

 27 28  0  0  0  0            999 V2000
   -5.2815    6.3289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1060    6.3001    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5432    6.9997    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.3677    6.9710    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7550    6.2425    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.1922    6.9422    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.3178    5.5429    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7051    4.8144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5296    4.7857    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.9668    5.4853    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5795    6.2137    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0167    6.9134    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
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 25 26  1  0  0  0  0
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M  END
> <DATABASE_ID>
NP0151371

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1CCC2(C)C(CCCC2=C)C1(C)CCC(C)=CC(=O)OC(CO)CO

> <INCHI_IDENTIFIER>
InChI=1S/C23H38O4/c1-16(13-21(26)27-19(14-24)15-25)9-11-22(4)18(3)10-12-23(5)17(2)7-6-8-20(22)23/h13,18-20,24-25H,2,6-12,14-15H2,1,3-5H3

> <INCHI_KEY>
VEDMLVJKGIUJRR-UHFFFAOYSA-N

> <FORMULA>
C23H38O4

> <MOLECULAR_WEIGHT>
378.553

> <EXACT_MASS>
378.277009704

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
65

> <JCHEM_AVERAGE_POLARIZABILITY>
44.60881732031005

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl)-3-methylpent-2-enoate

> <ALOGPS_LOGP>
4.20

> <JCHEM_LOGP>
4.538375419666666

> <ALOGPS_LOGS>
-4.58

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.979016716479098

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.277767825318492

> <JCHEM_PKA_STRONGEST_BASIC>
-2.983033833102266

> <JCHEM_POLAR_SURFACE_AREA>
66.76

> <JCHEM_REFRACTIVITY>
108.94509999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
9.96e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2H-naphthalen-1-yl)-3-methylpent-2-enoate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-APR-15         0                                  
HETATM    1  C   UNK     0      -9.859  11.814   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0     -11.398  11.760   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0     -12.214  13.066   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0     -13.753  13.012   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0     -14.476  11.653   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0     -15.292  12.959   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0     -13.660  10.347   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0     -14.383   8.987   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0     -15.922   8.933   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0     -16.738  10.239   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0     -16.015  11.599   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0     -16.831  12.905   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0     -12.121  10.400   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0     -12.013   8.864   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0     -10.787   9.630   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0     -10.787   8.090   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      -9.454   7.320   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      -9.454   5.780   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -8.120   5.010   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0      -6.786   5.780   0.000  0.00  0.00           O+0
HETATM   21  O   UNK     0      -8.120   3.470   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0      -6.786   2.700   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      -6.786   1.160   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      -5.452   0.390   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0      -5.452   3.470   0.000  0.00  0.00           C+0
HETATM   26  O   UNK     0      -4.119   2.700   0.000  0.00  0.00           O+0
HETATM   27  C   UNK     0      -8.120   8.090   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   13                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6    7   11                                             
CONECT    6    5                                                            
CONECT    7    5    8   13                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10    5   12                                                  
CONECT   12   11                                                            
CONECT   13    7    2   14   15                                             
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18   27                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22                                                       
CONECT   22   21   23   25                                                  
CONECT   23   22   24                                                       
CONECT   24   23                                                            
CONECT   25   22   26                                                       
CONECT   26   25                                                            
CONECT   27   17                                                            
MASTER        0    0    0    0    0    0    0    0   27    0   56    0
END

View in JSmol

Synonyms

Value	Source
1,3-Dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl)-3-methylpent-2-enoic acid	Generator

Chemical Formula

C₂₃H₃₈O₄

Average Mass

378.5530 Da

Monoisotopic Mass

378.27701 Da

IUPAC Name

1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-decahydronaphthalen-1-yl)-3-methylpent-2-enoate

Traditional Name

1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2H-naphthalen-1-yl)-3-methylpent-2-enoate

CAS Registry Number

Not Available

SMILES

CC1CCC2(C)C(CCCC2=C)C1(C)CCC(C)=CC(=O)OC(CO)CO

InChI Identifier

InChI=1S/C23H38O4/c1-16(13-21(26)27-19(14-24)15-25)9-11-22(4)18(3)10-12-23(5)17(2)7-6-8-20(22)23/h13,18-20,24-25H,2,6-12,14-15H2,1,3-5H3

InChI Key

VEDMLVJKGIUJRR-UHFFFAOYSA-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
Doris kerguelenensis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as colensane and clerodane diterpenoids. These are diterpenoids with a structure based on the clerodane or the colensane skeleton. Clerodanes arise from labdanes by two methyl migrations.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Diterpenoids

Direct Parent

Colensane and clerodane diterpenoids

Alternative Parents

Substituents

Clerodane diterpenoid
2-acyl-sn-glycerol
Monoacylglycerol
Monoradylglycerol
Fatty acid ester
Glycerolipid
Fatty acyl
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Carboxylic acid ester
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Organooxygen compound
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Carbonyl group
Alcohol
Primary alcohol
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic 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	4.2	ALOGPS
logP	4.54	ChemAxon
logS	-4.6	ALOGPS
pKa (Strongest Acidic)	14.28	ChemAxon
pKa (Strongest Basic)	-3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	66.76 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	108.95 m³·mol⁻¹	ChemAxon
Polarizability	44.61 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

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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate (NP0151371)

MOL for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

3D MOL for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

3D SDF for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

3D-SDF for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

PDB for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

3D PDB for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

SMILES for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

INCHI for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

Structure for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)

3D Structure for NP0151371 (1,3-dihydroxypropan-2-yl 5-(1,2,4a-trimethyl-5-methylidene-hexahydro-2h-naphthalen-1-yl)-3-methylpent-2-enoate)