NP-MRD: Showing NP-Card for (+)-Epoxysarcovagenine D (NP0072876)

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Record Information

Version

2.0

Created at

2022-04-28 18:09:31 UTC

Updated at

2022-04-28 18:09:31 UTC

NP-MRD ID

NP0072876

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(+)-Epoxysarcovagenine D

Description

(20S)-3beta-(Tigloylamino)-20-(methylamino)-16alpha,17alpha-epoxy-5alpha-pregna-2-ene-4-one belongs to the class of organic compounds known as oxosteroids. These are steroid derivatives carrying a C=O group attached to steroid skeleton. (+)-Epoxysarcovagenine D is found in Sarcococca coriacea. Based on a literature review very few articles have been published on (20S)-3beta-(Tigloylamino)-20-(methylamino)-16alpha,17alpha-epoxy-5alpha-pregna-2-ene-4-one.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652304282220092D          

 32 36  0  0  1  0            999 V2000
    5.0789    2.9813    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3982    2.2206    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8990    1.5637    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2182    0.8030    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0806    1.6676    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.7613    2.4283    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.2605    3.0852    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9429    2.5322    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4437    1.8754    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.7629    1.1147    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5814    1.0108    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6253    1.9793    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3060    2.7400    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.8052    3.3968    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6236    3.2930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4839    2.6715    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.2950    1.8684    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.0004    1.4406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3061    2.4335    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3298    3.4819    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.9546    4.0206    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4492    3.7537    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6033    4.5642    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9090    3.4632    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4421    3.1891    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.2166    2.1167    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.5359    1.3559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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  1  2  2  0  0  0  0
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  8 15  1  6  0  0  0
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 29 32  1  0  0  0  0
M  END

     RDKit          3D

 72 76  0  0  0  0  0  0  0  0999 V2000
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   -5.5740    0.5253    1.1547 C   0  0  2  0  0  0  0  0  0  0  0  0
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M  END


  Mrv1652304282220092D          

 32 36  0  0  1  0            999 V2000
    5.0789    2.9813    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    3.5814    1.0108    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    2.6236    3.2930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.2950    1.8684    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
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    0.9546    4.0206    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.9090    3.4632    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4421    3.1891    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    6.5359    1.3559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END
> <DATABASE_ID>
NP0072876

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CN[C@@H](C)[C@@]12O[C@@H]1C[C@H]1[C@@H]3CC[C@H]4C(=O)C(NC(=O)C(\C)=C\C)=CC[C@]4(C)[C@H]3CC[C@]21C

> <INCHI_IDENTIFIER>
InChI=1S/C27H40N2O3/c1-7-15(2)24(31)29-21-11-12-25(4)18-10-13-26(5)20(17(18)8-9-19(25)23(21)30)14-22-27(26,32-22)16(3)28-6/h7,11,16-20,22,28H,8-10,12-14H2,1-6H3,(H,29,31)/b15-7+/t16-,17+,18-,19-,20-,22+,25+,26-,27+/m0/s1

> <INCHI_KEY>
LVAFERHGCLNOLQ-RPOKZLQZSA-N

> <FORMULA>
C27H40N2O3

> <MOLECULAR_WEIGHT>
440.628

> <EXACT_MASS>
440.303893156

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
72

> <JCHEM_AVERAGE_POLARIZABILITY>
52.47164150728419

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2E)-N-[(1R,2S,4R,6R,7S,10S,11R,16R)-7,11-dimethyl-6-[(1S)-1-(methylamino)ethyl]-15-oxo-5-oxapentacyclo[8.8.0.0^{2,7}.0^{4,6}.0^{11,16}]octadec-13-en-14-yl]-2-methylbut-2-enamide

> <ALOGPS_LOGP>
4.36

> <JCHEM_LOGP>
3.929275094666669

> <ALOGPS_LOGS>
-5.55

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.093782916150506

> <JCHEM_PKA_STRONGEST_BASIC>
9.818107768877768

> <JCHEM_POLAR_SURFACE_AREA>
70.73

> <JCHEM_REFRACTIVITY>
127.35349999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.24e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2E)-N-[(1R,2S,4R,6R,7S,10S,11R,16R)-7,11-dimethyl-6-[(1S)-1-(methylamino)ethyl]-15-oxo-5-oxapentacyclo[8.8.0.0^{2,7}.0^{4,6}.0^{11,16}]octadec-13-en-14-yl]-2-methylbut-2-enamide

> <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       9.481   5.565   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      10.077   4.145   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       9.145   2.919   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       9.741   1.499   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       7.617   3.113   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       7.021   4.533   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       7.953   5.759   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       5.493   4.727   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.562   3.501   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       5.157   2.081   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       6.685   1.887   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.034   3.695   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       2.438   5.115   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.370   6.341   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.897   6.147   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       0.903   4.987   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       0.551   3.488   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       1.867   2.689   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      -0.571   4.543   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0       0.616   6.500   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       1.782   7.505   0.000  0.00  0.00           C+0
HETATM   22  N   UNK     0      -0.838   7.007   0.000  0.00  0.00           N+0
HETATM   23  C   UNK     0      -1.126   8.520   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       1.697   6.465   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       6.425   5.953   0.000  0.00  0.00           C+0
HETATM   26  N   UNK     0      11.604   3.951   0.000  0.00  0.00           N+0
HETATM   27  C   UNK     0      12.200   2.531   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      11.268   1.305   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0      13.728   2.337   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      14.324   0.917   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      15.852   0.723   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      14.660   3.563   0.000  0.00  0.00           C+0
CONECT    1    2    7                                                       
CONECT    2    1    3   26                                                  
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6   11                                                  
CONECT    6    5    7    8   25                                             
CONECT    7    6    1                                                       
CONECT    8    6    9   15                                                  
CONECT    9    8   10   12                                                  
CONECT   10    9   11                                                       
CONECT   11   10    5                                                       
CONECT   12    9   13   18                                                  
CONECT   13   12   14   16   24                                             
CONECT   14   13   15                                                       
CONECT   15   14    8                                                       
CONECT   16   13   17   19   20                                             
CONECT   17   16   18   19                                                  
CONECT   18   17   12                                                       
CONECT   19   17   16                                                       
CONECT   20   16   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22                                                            
CONECT   24   13                                                            
CONECT   25    6                                                            
CONECT   26    2   27                                                       
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30   32                                                  
CONECT   30   29   31                                                       
CONECT   31   30                                                            
CONECT   32   29                                                            
MASTER        0    0    0    0    0    0    0    0   32    0   72    0
END

View in JSmol

Synonyms

Value	Source
(20S)-3b-(Tigloylamino)-20-(methylamino)-16a,17a-epoxy-5a-pregna-2-ene-4-one	Generator
(20S)-3Β-(tigloylamino)-20-(methylamino)-16α,17α-epoxy-5α-pregna-2-ene-4-one	Generator

Chemical Formula

C₂₇H₄₀N₂O₃

Average Mass

440.6280 Da

Monoisotopic Mass

440.30389 Da

IUPAC Name

(2E)-N-[(1R,2S,4R,6R,7S,10S,11R,16R)-7,11-dimethyl-6-[(1S)-1-(methylamino)ethyl]-15-oxo-5-oxapentacyclo[8.8.0.0^{2,7}.0^{4,6}.0^{11,16}]octadec-13-en-14-yl]-2-methylbut-2-enamide

Traditional Name

(2E)-N-[(1R,2S,4R,6R,7S,10S,11R,16R)-7,11-dimethyl-6-[(1S)-1-(methylamino)ethyl]-15-oxo-5-oxapentacyclo[8.8.0.0^{2,7}.0^{4,6}.0^{11,16}]octadec-13-en-14-yl]-2-methylbut-2-enamide

CAS Registry Number

Not Available

SMILES

CN[C@@H](C)[C@@]12O[C@@H]1C[C@H]1[C@@H]3CC[C@H]4C(=O)C(NC(=O)C(\C)=C\C)=CC[C@]4(C)[C@H]3CC[C@]21C

InChI Identifier

InChI=1S/C27H40N2O3/c1-7-15(2)24(31)29-21-11-12-25(4)18-10-13-26(5)20(17(18)8-9-19(25)23(21)30)14-22-27(26,32-22)16(3)28-6/h7,11,16-20,22,28H,8-10,12-14H2,1-6H3,(H,29,31)/b15-7+/t16-,17+,18-,19-,20-,22+,25+,26-,27+/m0/s1

InChI Key

LVAFERHGCLNOLQ-RPOKZLQZSA-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
Sarcococca coriacea	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as oxosteroids. These are steroid derivatives carrying a C=O group attached to steroid skeleton.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Oxosteroids

Direct Parent

Oxosteroids

Alternative Parents

Substituents

22-azasteroid
Pregnane-skeleton
Pregnane-type alkaloid
Steroidal alkaloid
4-oxosteroid
Oxosteroid
Azasteroid
Naphthopyran
Naphthalene
Alkaloid or derivatives
Cyclohexenone
N-acyl-amine
Oxane
Pyran
Carboxamide group
Ketone
Amino acid or derivatives
Secondary carboxylic acid amide
Carboxylic acid derivative
Dialkyl ether
Secondary aliphatic amine
Oxirane
Ether
Oxacycle
Organoheterocyclic compound
Secondary amine
Amine
Organic nitrogen compound
Organic oxygen compound
Organic oxide
Carbonyl group
Hydrocarbon derivative
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	4.36	ALOGPS
logP	3.93	ChemAxon
logS	-5.6	ALOGPS
pKa (Strongest Acidic)	13.09	ChemAxon
pKa (Strongest Basic)	9.82	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	70.73 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	127.35 m³·mol⁻¹	ChemAxon
Polarizability	52.47 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

Not Available

Chemspider ID

9179895

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11004704

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for (+)-Epoxysarcovagenine D (NP0072876)

MOL for NP0072876 ((+)-Epoxysarcovagenine D)

3D MOL for NP0072876 ((+)-Epoxysarcovagenine D)

3D SDF for NP0072876 ((+)-Epoxysarcovagenine D)

3D-SDF for NP0072876 ((+)-Epoxysarcovagenine D)

PDB for NP0072876 ((+)-Epoxysarcovagenine D)

3D PDB for NP0072876 ((+)-Epoxysarcovagenine D)

SMILES for NP0072876 ((+)-Epoxysarcovagenine D)

INCHI for NP0072876 ((+)-Epoxysarcovagenine D)

Structure for NP0072876 ((+)-Epoxysarcovagenine D)

3D Structure for NP0072876 ((+)-Epoxysarcovagenine D)