NP-MRD: Showing NP-Card for (5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione (NP0162295)

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Record Information

Version

2.0

Created at

2022-09-02 20:39:33 UTC

Updated at

2022-09-02 20:39:33 UTC

NP-MRD ID

NP0162295

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione

Description

(5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]Icosa-1,17,19-triene-11,16-dione belongs to the class of organic compounds known as 11-oxosteroids. These are steroid derivatives carrying a C=O group at the 11-position of the steroid skeleton. Based on a literature review very few articles have been published on (5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]Icosa-1,17,19-triene-11,16-dione.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309022222392D          

 32 36  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309022222392D          

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M  END
> <DATABASE_ID>
NP0162295

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(C)[C@@H](C)[C@H](O)[C@@H]1C[C@@]23CC(=O)[C@]4(O)C(C=CC5=CC(=O)CC[C@]45C)=C2CC[C@@H]3[C@@H]1C

> <INCHI_IDENTIFIER>
InChI=1S/C28H38O4/c1-15(2)16(3)25(31)20-13-27-14-24(30)28(32)23(22(27)9-8-21(27)17(20)4)7-6-18-12-19(29)10-11-26(18,28)5/h6-7,12,15-17,20-21,25,31-32H,8-11,13-14H2,1-5H3/t16-,17-,20-,21-,25+,26+,27+,28-/m1/s1

> <INCHI_KEY>
HABXKYDQGLNXEF-MTSSWDBBSA-N

> <FORMULA>
C28H38O4

> <MOLECULAR_WEIGHT>
438.608

> <EXACT_MASS>
438.277009704

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
70

> <JCHEM_AVERAGE_POLARIZABILITY>
49.881049557323486

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0^{2,9}.0^{5,9}.0^{13,18}]icosa-1,17,19-triene-11,16-dione

> <ALOGPS_LOGP>
3.58

> <JCHEM_LOGP>
3.789140367666666

> <ALOGPS_LOGS>
-4.71

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
18.363487859106343

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.045097289974183

> <JCHEM_PKA_STRONGEST_BASIC>
-0.34226339143048323

> <JCHEM_POLAR_SURFACE_AREA>
74.60000000000001

> <JCHEM_REFRACTIVITY>
127.38789999999995

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.46e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0^{2,9}.0^{5,9}.0^{13,18}]icosa-1,17,19-triene-11,16-dione

> <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      -1.678   4.262   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -0.167   3.969   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.843   5.131   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.335   2.512   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.675   1.350   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       1.847   2.219   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       2.857   3.381   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       2.348   0.763   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       3.821   0.313   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.848  -1.227   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.449   0.190   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.978   0.378   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       6.579   1.796   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0       6.905  -0.852   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       7.506   0.566   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       6.303  -2.269   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.775  -2.457   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       3.892  -3.719   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       2.419  -3.268   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       2.392  -1.729   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       1.465  -0.499   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      -0.075  -0.526   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       7.230  -3.499   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       8.759  -3.311   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       9.360  -1.894   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      10.889  -1.706   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      11.490  -0.288   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0      13.019  -0.100   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0      10.563   0.942   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       9.035   0.754   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       8.433  -0.664   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       8.406   0.876   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6    9   21                                                  
CONECT    9    8   10                                                       
CONECT   10    9   11   17   20                                             
CONECT   11   10   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15   16   31                                             
CONECT   15   14                                                            
CONECT   16   14   17   23                                                  
CONECT   17   16   10   18                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   10   21                                                  
CONECT   21   20    8   22                                                  
CONECT   22   21                                                            
CONECT   23   16   24                                                       
CONECT   24   23   25                                                       
CONECT   25   24   26   31                                                  
CONECT   26   25   27                                                       
CONECT   27   26   28   29                                                  
CONECT   28   27                                                            
CONECT   29   27   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   25   14   32                                             
CONECT   32   31                                                            
MASTER        0    0    0    0    0    0    0    0   32    0   72    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₈H₃₈O₄

Average Mass

438.6080 Da

Monoisotopic Mass

438.27701 Da

IUPAC Name

(5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0^{2,9}.0^{5,9}.0^{13,18}]icosa-1,17,19-triene-11,16-dione

Traditional Name

(5R,6S,7R,9S,12R,13S)-12-hydroxy-7-[(1S,2R)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0^{2,9}.0^{5,9}.0^{13,18}]icosa-1,17,19-triene-11,16-dione

CAS Registry Number

Not Available

SMILES

CC(C)[C@@H](C)[C@H](O)[C@@H]1C[C@@]23CC(=O)[C@]4(O)C(C=CC5=CC(=O)CC[C@]45C)=C2CC[C@@H]3[C@@H]1C

InChI Identifier

InChI=1S/C28H38O4/c1-15(2)16(3)25(31)20-13-27-14-24(30)28(32)23(22(27)9-8-21(27)17(20)4)7-6-18-12-19(29)10-11-26(18,28)5/h6-7,12,15-17,20-21,25,31-32H,8-11,13-14H2,1-5H3/t16-,17-,20-,21-,25+,26+,27+,28-/m1/s1

InChI Key

HABXKYDQGLNXEF-MTSSWDBBSA-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

Not Available

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 11-oxosteroids. These are steroid derivatives carrying a C=O group at the 11-position of the steroid skeleton.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Oxosteroids

Direct Parent

11-oxosteroids

Alternative Parents

Substituents

23-hydroxysteroid
11-oxosteroid
Hydroxysteroid
3-oxosteroid
Cyclohexenone
Tertiary alcohol
Cyclic ketone
Secondary alcohol
Ketone
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
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	3.58	ALOGPS
logP	3.79	ChemAxon
logS	-4.7	ALOGPS
pKa (Strongest Acidic)	12.05	ChemAxon
pKa (Strongest Basic)	-0.34	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	74.6 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	127.39 m³·mol⁻¹	ChemAxon
Polarizability	49.88 Å³	ChemAxon
Number of Rings	5	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

78440885

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

139584512

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione (NP0162295)

MOL for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

3D MOL for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

3D SDF for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

3D-SDF for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

PDB for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

3D PDB for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

SMILES for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

INCHI for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

Structure for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)

3D Structure for NP0162295 ((5r,6s,7r,9s,12r,13s)-12-hydroxy-7-[(1s,2r)-1-hydroxy-2,3-dimethylbutyl]-6,13-dimethylpentacyclo[10.8.0.0²,⁹.0⁵,⁹.0¹³,¹⁸]icosa-1,17,19-triene-11,16-dione)