NP-MRD: Showing NP-Card for (1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one (NP0327463)

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Record Information

Version

2.0

Created at

2022-09-12 10:03:51 UTC

Updated at

2022-09-12 10:03:51 UTC

NP-MRD ID

NP0327463

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one

Description

28-Homotyphasterol belongs to the class of organic compounds known as stigmastanes and derivatives. These are sterol lipids with a structure based on the stigmastane skeleton, which consists of a cholestane moiety bearing an ethyl group at the carbon atom C24. (1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one was first documented in 2015 (PMID: 25433632). Based on a literature review very few articles have been published on 28-Homotyphasterol (PMID: 27965691).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309122212032D          

 33 36  0  0  1  0            999 V2000
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 32 33  1  1  0  0  0
M  END

     RDKit          3D

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M  END


  Mrv1652309122212032D          

 33 36  0  0  1  0            999 V2000
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   11.7542   -2.9537    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.9696   -3.2086    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.3565   -2.6566    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   10.1016   -3.4412    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  3  2  1  1  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  4  6  1  0  0  0  0
  3  7  1  0  0  0  0
  7  8  1  6  0  0  0
  7  9  1  0  0  0  0
  9 10  1  6  0  0  0
  9 11  1  0  0  0  0
 11 12  1  6  0  0  0
 13 11  1  1  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 16 15  1  1  0  0  0
 16 17  1  0  0  0  0
 17 18  1  6  0  0  0
 18 19  1  0  0  0  0
 19 20  2  0  0  0  0
 21 19  1  1  0  0  0
 21 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  1  6  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 21 27  1  0  0  0  0
 27 28  1  1  0  0  0
 27 29  1  0  0  0  0
 17 29  1  0  0  0  0
 29 30  1  1  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 16 32  1  0  0  0  0
 13 32  1  0  0  0  0
 32 33  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0327463

> <DATABASE_NAME>
NP-MRD

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

> <INCHI_IDENTIFIER>
InChI=1S/C29H50O4/c1-7-19(16(2)3)27(33)26(32)17(4)21-8-9-22-20-15-25(31)24-14-18(30)10-12-29(24,6)23(20)11-13-28(21,22)5/h16-24,26-27,30,32-33H,7-15H2,1-6H3/t17-,18+,19-,20-,21+,22-,23-,24+,26+,27+,28+,29+/m0/s1

> <INCHI_KEY>
DYENWMUXSKPFLC-CRZFLPRVSA-N

> <FORMULA>
C29H50O4

> <MOLECULAR_WEIGHT>
462.715

> <EXACT_MASS>
462.37091009

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
83

> <JCHEM_AVERAGE_POLARIZABILITY>
55.61146943820398

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1S,2R,5R,7S,10S,11S,14R,15S)-14-[(2S,3R,4R,5S)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-5-hydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-8-one

> <JCHEM_LOGP>
5.0210910559999995

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.858403102254705

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.640097745450323

> <JCHEM_PKA_STRONGEST_BASIC>
-2.696313461282922

> <JCHEM_POLAR_SURFACE_AREA>
77.76

> <JCHEM_REFRACTIVITY>
132.46039999999996

> <JCHEM_ROTATABLE_BOND_COUNT>
6

> <JCHEM_RULE_OF_FIVE>
0

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2R,5R,7S,10S,11S,14R,15S)-14-[(2S,3R,4R,5S)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-5-hydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-8-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0      10.871  -9.121   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      12.411  -9.121   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      13.181  -7.787   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      12.411  -6.454   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      10.871  -6.454   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      13.181  -5.120   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      14.721  -7.787   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0      15.491  -9.121   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0      15.491  -6.454   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      14.721  -5.120   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0      17.031  -6.454   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      17.801  -7.787   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      17.801  -5.120   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      17.174  -3.713   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      18.319  -2.683   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      19.652  -3.453   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      21.117  -2.977   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      21.437  -1.470   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      22.902  -0.994   0.000  0.00  0.00           C+0
HETATM   20  O   UNK     0      23.222   0.512   0.000  0.00  0.00           O+0
HETATM   21  C   UNK     0      24.046  -2.025   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0      25.511  -1.549   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      26.655  -2.580   0.000  0.00  0.00           C+0
HETATM   24  O   UNK     0      28.120  -2.104   0.000  0.00  0.00           O+0
HETATM   25  C   UNK     0      26.335  -4.086   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      24.870  -4.562   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      23.726  -3.531   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      23.406  -5.038   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      22.261  -4.007   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      21.941  -5.514   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      20.477  -5.989   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      19.332  -4.959   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      18.856  -6.424   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4    7                                                  
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4                                                            
CONECT    7    3    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11   14   32                                                  
CONECT   14   13   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17   32                                                  
CONECT   17   16   18   29                                                  
CONECT   18   17   19                                                       
CONECT   19   18   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22   27                                                  
CONECT   22   21   23                                                       
CONECT   23   22   24   25                                                  
CONECT   24   23                                                            
CONECT   25   23   26                                                       
CONECT   26   25   27                                                       
CONECT   27   26   21   28   29                                             
CONECT   28   27                                                            
CONECT   29   27   17   30                                                  
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   16   13   33                                             
CONECT   33   32                                                            
MASTER        0    0    0    0    0    0    0    0   33    0   72    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₉H₅₀O₄

Average Mass

462.7150 Da

Monoisotopic Mass

462.37091 Da

IUPAC Name

(1S,2R,5R,7S,10S,11S,14R,15S)-14-[(2S,3R,4R,5S)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-5-hydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-8-one

Traditional Name

(1S,2R,5R,7S,10S,11S,14R,15S)-14-[(2S,3R,4R,5S)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-5-hydroxy-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-8-one

CAS Registry Number

Not Available

SMILES

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

InChI Identifier

InChI=1S/C29H50O4/c1-7-19(16(2)3)27(33)26(32)17(4)21-8-9-22-20-15-25(31)24-14-18(30)10-12-29(24,6)23(20)11-13-28(21,22)5/h16-24,26-27,30,32-33H,7-15H2,1-6H3/t17-,18+,19-,20-,21+,22-,23-,24+,26+,27+,28+,29+/m0/s1

InChI Key

DYENWMUXSKPFLC-CRZFLPRVSA-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 stigmastanes and derivatives. These are sterol lipids with a structure based on the stigmastane skeleton, which consists of a cholestane moiety bearing an ethyl group at the carbon atom C24.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Stigmastanes and derivatives

Direct Parent

Stigmastanes and derivatives

Alternative Parents

Substituents

C24-propyl-sterol-skeleton
Triterpenoid
Stigmastane-skeleton
Ecdysteroid
Trihydroxy bile acid, alcohol, or derivatives
Hydroxy bile acid, alcohol, or derivatives
23-hydroxysteroid
Bile acid, alcohol, or derivatives
22-hydroxysteroid
3-hydroxysteroid
6-oxosteroid
3-alpha-hydroxysteroid
Oxosteroid
Hydroxysteroid
Cyclic alcohol
Secondary alcohol
Ketone
Organooxygen compound
Organic oxygen compound
Hydrocarbon derivative
Carbonyl group
Organic oxide
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	5.02	ChemAxon
pKa (Strongest Acidic)	13.64	ChemAxon
pKa (Strongest Basic)	-2.7	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	77.76 Å²	ChemAxon
Rotatable Bond Count	6	ChemAxon
Refractivity	132.46 m³·mol⁻¹	ChemAxon
Polarizability	55.61 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

C00036259

Chemspider ID

31115413

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

12017268

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Xin P, Yan J, Li B, Fang S, Fan J, Tian H, Shi Y, Tian W, Yan C, Chu J: A Comprehensive and Effective Mass Spectrometry-Based Screening Strategy for Discovery and Identification of New Brassinosteroids from Rice Tissues. Front Plant Sci. 2016 Nov 30;7:1786. doi: 10.3389/fpls.2016.01786. eCollection 2016. [PubMed:27965691 ]
Joo SH, Jang MS, Kim MK, Lee JE, Kim SK: Biosynthetic relationship between C(2)(8)-brassinosteroids and C(2)(9)-brassinosteroids in rice (Oryza sativa) seedlings. Phytochemistry. 2015 Mar;111:84-90. doi: 10.1016/j.phytochem.2014.11.006. Epub 2014 Nov 26. [PubMed:25433632 ]
LOTUS database [Link]

Showing NP-Card for (1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one (NP0327463)

MOL for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

3D MOL for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

3D SDF for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

3D-SDF for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

PDB for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

3D PDB for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

SMILES for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

INCHI for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

Structure for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)

3D Structure for NP0327463 ((1r,3as,3bs,5as,7r,9ar,9bs,11as)-1-[(2s,3r,4r,5s)-5-ethyl-3,4-dihydroxy-6-methylheptan-2-yl]-7-hydroxy-9a,11a-dimethyl-tetradecahydrocyclopenta[a]phenanthren-5-one)