NP-MRD: Showing NP-Card for 1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one (NP0157175)

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Record Information

Version

2.0

Created at

2022-09-02 14:30:01 UTC

Updated at

2022-09-02 14:30:01 UTC

NP-MRD ID

NP0157175

Secondary Accession Numbers

None

Natural Product Identification

Common Name

1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one

Description

Terminamine D belongs to the class of organic compounds known as 16-hydroxysteroids. These are steroids carrying a hydroxyl group at the 16-position of the steroid backbone. 1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one is found in Pachysandra terminalis. Based on a literature review very few articles have been published on Terminamine D.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309022216302D          

 34 38  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309022216302D          

 34 38  0  0  1  0            999 V2000
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    1.7781   -3.3239    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2463   -2.6932    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.4342   -2.8384    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.1539   -3.6143    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3813   -3.0299    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2361   -3.8420    0.0000 O   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
  2  4  2  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  7  6  1  6  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  1  0  0  0
 10 12  1  0  0  0  0
 12 13  1  1  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  1  0  0  0
 15 17  1  0  0  0  0
 17 18  1  1  0  0  0
 18 19  1  6  0  0  0
 18 20  1  0  0  0  0
 20 21  1  0  0  0  0
 20 22  1  0  0  0  0
 17 23  1  0  0  0  0
 23 24  1  1  0  0  0
 23 25  1  0  0  0  0
 26 25  1  1  0  0  0
 15 26  1  0  0  0  0
 26 27  1  0  0  0  0
 12 27  1  0  0  0  0
 27 28  1  6  0  0  0
 28 29  1  0  0  0  0
 30 29  1  1  0  0  0
 10 30  1  0  0  0  0
 30 31  1  0  0  0  0
  7 31  1  0  0  0  0
 31 32  1  1  0  0  0
  6 33  1  0  0  0  0
  4 33  1  0  0  0  0
 33 34  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0157175

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@H]([C@H]1[C@@H](O)C[C@H]2[C@@H]3CC[C@H]4[C@@H](O)[C@@H](CC[C@]4(C)[C@H]3CC[C@]12C)N1CC(=C(C)C)C1=O)N(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C29H48N2O3/c1-16(2)19-15-31(27(19)34)23-11-13-28(4)20-10-12-29(5)22(18(20)8-9-21(28)26(23)33)14-24(32)25(29)17(3)30(6)7/h17-18,20-26,32-33H,8-15H2,1-7H3/t17-,18+,20-,21-,22-,23+,24-,25-,26+,28+,29-/m0/s1

> <INCHI_KEY>
VSNSBSZXWOFUMA-VAYDHFJYSA-N

> <FORMULA>
C29H48N2O3

> <MOLECULAR_WEIGHT>
472.714

> <EXACT_MASS>
472.366493414

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
82

> <JCHEM_AVERAGE_POLARIZABILITY>
57.24029543565287

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
1-[(1S,2R,5R,6R,7R,10R,11S,13S,14S,15S)-14-[(1S)-1-(dimethylamino)ethyl]-6,13-dihydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-5-yl]-3-(propan-2-ylidene)azetidin-2-one

> <ALOGPS_LOGP>
3.17

> <JCHEM_LOGP>
3.101358536333333

> <ALOGPS_LOGS>
-4.18

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA>
14.97834796187282

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.202128610785596

> <JCHEM_PKA_STRONGEST_BASIC>
9.77055270649919

> <JCHEM_POLAR_SURFACE_AREA>
64.00999999999999

> <JCHEM_REFRACTIVITY>
136.98850000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
3.10e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
1-[(1S,2R,5R,6R,7R,10R,11S,13S,14S,15S)-14-[(1S)-1-(dimethylamino)ethyl]-6,13-dihydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-5-yl]-3-(propan-2-ylidene)azetidin-2-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 02-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   02-SEP-22         0                                  
HETATM    1  C   UNK     0      -5.881  -6.495   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -5.358  -5.047   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -6.351  -3.869   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -3.842  -4.775   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -2.962  -3.512   0.000  0.00  0.00           C+0
HETATM    6  N   UNK     0      -1.698  -4.392   0.000  0.00  0.00           N+0
HETATM    7  C   UNK     0      -0.182  -4.121   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.341  -2.673   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.857  -2.402   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.850  -3.579   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       3.373  -2.131   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       4.366  -3.308   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.889  -1.859   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       6.405  -1.588   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       7.398  -2.766   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       8.069  -1.380   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       8.937  -2.816   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       9.882  -1.600   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       9.302  -0.173   0.000  0.00  0.00           C+0
HETATM   20  N   UNK     0      11.407  -1.811   0.000  0.00  0.00           N+0
HETATM   21  C   UNK     0      12.353  -0.595   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      11.988  -3.237   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       9.365  -4.295   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      10.813  -4.818   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0       8.090  -5.159   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       6.874  -4.214   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       5.358  -4.485   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       4.835  -5.934   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       3.319  -6.205   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       2.326  -5.027   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       0.810  -5.298   0.000  0.00  0.00           C+0
HETATM   32  O   UNK     0       0.287  -6.747   0.000  0.00  0.00           O+0
HETATM   33  C   UNK     0      -2.579  -5.656   0.000  0.00  0.00           C+0
HETATM   34  O   UNK     0      -2.307  -7.172   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5   33                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   33                                                  
CONECT    7    6    8   31                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11   12   30                                             
CONECT   11   10                                                            
CONECT   12   10   13   27                                                  
CONECT   13   12   14                                                       
CONECT   14   13   15                                                       
CONECT   15   14   16   17   26                                             
CONECT   16   15                                                            
CONECT   17   15   18   23                                                  
CONECT   18   17   19   20                                                  
CONECT   19   18                                                            
CONECT   20   18   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20                                                            
CONECT   23   17   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23   26                                                       
CONECT   26   25   15   27                                                  
CONECT   27   26   12   28                                                  
CONECT   28   27   29                                                       
CONECT   29   28   30                                                       
CONECT   30   29   10   31                                                  
CONECT   31   30    7   32                                                  
CONECT   32   31                                                            
CONECT   33    6    4   34                                                  
CONECT   34   33                                                            
MASTER        0    0    0    0    0    0    0    0   34    0   76    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₉H₄₈N₂O₃

Average Mass

472.7140 Da

Monoisotopic Mass

472.36649 Da

IUPAC Name

1-[(1S,2R,5R,6R,7R,10R,11S,13S,14S,15S)-14-[(1S)-1-(dimethylamino)ethyl]-6,13-dihydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-5-yl]-3-(propan-2-ylidene)azetidin-2-one

Traditional Name

1-[(1S,2R,5R,6R,7R,10R,11S,13S,14S,15S)-14-[(1S)-1-(dimethylamino)ethyl]-6,13-dihydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-5-yl]-3-(propan-2-ylidene)azetidin-2-one

CAS Registry Number

Not Available

SMILES

C[C@@H]([C@H]1[C@@H](O)C[C@H]2[C@@H]3CC[C@H]4[C@@H](O)[C@@H](CC[C@]4(C)[C@H]3CC[C@]12C)N1CC(=C(C)C)C1=O)N(C)C

InChI Identifier

InChI=1S/C29H48N2O3/c1-16(2)19-15-31(27(19)34)23-11-13-28(4)20-10-12-29(5)22(18(20)8-9-21(28)26(23)33)14-24(32)25(29)17(3)30(6)7/h17-18,20-26,32-33H,8-15H2,1-7H3/t17-,18+,20-,21-,22-,23+,24-,25-,26+,28+,29-/m0/s1

InChI Key

VSNSBSZXWOFUMA-VAYDHFJYSA-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
Pachysandra terminalis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 16-hydroxysteroids. These are steroids carrying a hydroxyl group at the 16-position of the steroid backbone.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Hydroxysteroids

Direct Parent

16-hydroxysteroids

Alternative Parents

Substituents

22-azasteroid
Pregnane-skeleton
Pregnane-type alkaloid
Steroidal alkaloid
16-beta-hydroxysteroid
16-hydroxysteroid
Azasteroid
Alkaloid or derivatives
Tertiary carboxylic acid amide
Beta-lactam
Cyclic alcohol
Tertiary aliphatic amine
Lactam
Tertiary amine
Azetidine
Amino acid or derivatives
Carboxamide group
Secondary alcohol
Azacycle
Carboxylic acid derivative
Organoheterocyclic compound
Alcohol
Carbonyl group
Hydrocarbon derivative
Organic oxide
Organopnictogen compound
Organic oxygen compound
Organic nitrogen compound
Amine
Organooxygen compound
Organonitrogen compound
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	3.17	ALOGPS
logP	3.1	ChemAxon
logS	-4.2	ALOGPS
pKa (Strongest Acidic)	14.2	ChemAxon
pKa (Strongest Basic)	9.77	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	64.01 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	136.99 m³·mol⁻¹	ChemAxon
Polarizability	57.24 Å³	ChemAxon
Number of Rings	5	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

C00053814

Chemspider ID

28526482

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

70697322

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one (NP0157175)

MOL for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

3D MOL for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

3D SDF for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

3D-SDF for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

PDB for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

3D PDB for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

SMILES for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

INCHI for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

Structure for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)

3D Structure for NP0157175 (1-[(1s,2s,3as,3br,5ar,6r,7r,9ar,9bs,11as)-1-[(1s)-1-(dimethylamino)ethyl]-2,6-dihydroxy-9a,11a-dimethyl-tetradecahydro-1h-cyclopenta[a]phenanthren-7-yl]-3-(propan-2-ylidene)azetidin-2-one)