NP-MRD: Showing NP-Card for (2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid (NP0299936)

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Record Information

Version

2.0

Created at

2022-09-10 12:03:37 UTC

Updated at

2022-09-10 12:03:37 UTC

NP-MRD ID

NP0299936

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid

Description

(2S,6R)-6-[(1R,2R,5R,7R,8R,10S,11R,14R,15S)-5,8-dihydroxy-2,15-dimethyl-13-oxotetracyclo[8.7.0.0²,⁷.0¹¹,¹⁵]Heptadecan-14-yl]-2-methyl-5-oxoheptanoic acid belongs to the class of organic compounds known as dihydroxy bile acids, alcohols and derivatives. Dihydroxy bile acids, alcohols and derivatives are compounds containing or derived from a bile acid or alcohol, and which bears exactly two carboxylic acid groups. (2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid is found in Prunus persica. Based on a literature review very few articles have been published on (2S,6R)-6-[(1R,2R,5R,7R,8R,10S,11R,14R,15S)-5,8-dihydroxy-2,15-dimethyl-13-oxotetracyclo[8.7.0.0²,⁷.0¹¹,¹⁵]Heptadecan-14-yl]-2-methyl-5-oxoheptanoic acid.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309102214032D          

 33 36  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309102214032D          

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 10 11  2  0  0  0  0
 10 12  1  0  0  0  0
 13 12  1  6  0  0  0
 13 14  1  0  0  0  0
 14 15  1  1  0  0  0
 15 16  1  0  0  0  0
 16 17  1  1  0  0  0
 16 18  1  0  0  0  0
 18 19  1  6  0  0  0
 19 20  1  0  0  0  0
 20 21  1  6  0  0  0
 20 22  1  0  0  0  0
 22 23  1  0  0  0  0
 23 24  1  0  0  0  0
 18 24  1  0  0  0  0
 24 25  1  1  0  0  0
 24 26  1  0  0  0  0
 14 26  1  0  0  0  0
 26 27  1  6  0  0  0
 27 28  1  0  0  0  0
 28 29  1  0  0  0  0
 13 29  1  0  0  0  0
  9 29  1  0  0  0  0
 29 30  1  1  0  0  0
  2 31  1  0  0  0  0
 31 32  2  0  0  0  0
 31 33  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0299936

> <DATABASE_NAME>
NP-MRD

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

> <INCHI_IDENTIFIER>
InChI=1S/C27H42O6/c1-14(25(32)33)5-6-21(29)15(2)24-23(31)13-19-17-12-22(30)20-11-16(28)7-9-26(20,3)18(17)8-10-27(19,24)4/h14-20,22,24,28,30H,5-13H2,1-4H3,(H,32,33)/t14-,15-,16+,17-,18+,19+,20-,22+,24-,26+,27-/m0/s1

> <INCHI_KEY>
PZIRUHCJZBGLDY-YNFSWUFJSA-N

> <FORMULA>
C27H42O6

> <MOLECULAR_WEIGHT>
462.627

> <EXACT_MASS>
462.298139072

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
75

> <JCHEM_AVERAGE_POLARIZABILITY>
51.64009875763236

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S,6R)-6-[(1R,2R,5R,7R,8R,10S,11R,14R,15S)-5,8-dihydroxy-2,15-dimethyl-13-oxotetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-14-yl]-2-methyl-5-oxoheptanoic acid

> <JCHEM_LOGP>
3.298928045333336

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
14.751438111959839

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.354875967481892

> <JCHEM_PKA_STRONGEST_BASIC>
-2.6909839223158754

> <JCHEM_POLAR_SURFACE_AREA>
111.90000000000002

> <JCHEM_REFRACTIVITY>
124.38489999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
6

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2S,6R)-6-[(1R,2R,5R,7R,8R,10S,11R,14R,15S)-5,8-dihydroxy-2,15-dimethyl-13-oxotetracyclo[8.7.0.0^{2,7}.0^{11,15}]heptadecan-14-yl]-2-methyl-5-oxoheptanoic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 10-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   10-SEP-22         0                                  
HETATM    1  C   UNK     0      14.351  -1.855   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      14.351  -3.395   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      13.017  -4.165   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      11.683  -3.395   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      10.350  -4.165   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      10.350  -5.705   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0       9.016  -3.395   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       9.016  -1.855   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       7.682  -4.165   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       7.521  -5.696   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       8.666  -6.727   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       6.015  -6.016   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       5.245  -4.683   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.739  -4.363   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       2.708  -5.507   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       1.202  -5.187   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       0.171  -6.331   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       0.726  -3.722   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -0.780  -3.402   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      -1.256  -1.937   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0      -2.763  -1.617   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0      -0.226  -0.793   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       1.281  -1.113   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       1.756  -2.578   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       2.787  -1.433   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       3.263  -2.898   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       4.293  -1.754   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       5.800  -2.074   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       6.275  -3.538   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       7.420  -2.508   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      15.684  -4.165   0.000  0.00  0.00           C+0
HETATM   32  O   UNK     0      17.018  -3.395   0.000  0.00  0.00           O+0
HETATM   33  O   UNK     0      15.684  -5.705   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   31                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   29                                                  
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10   13                                                       
CONECT   13   12   14   29                                                  
CONECT   14   13   15   26                                                  
CONECT   15   14   16                                                       
CONECT   16   15   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19   24                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22   24                                                       
CONECT   24   23   18   25   26                                             
CONECT   25   24                                                            
CONECT   26   24   14   27                                                  
CONECT   27   26   28                                                       
CONECT   28   27   29                                                       
CONECT   29   28   13    9   30                                             
CONECT   30   29                                                            
CONECT   31    2   32   33                                                  
CONECT   32   31                                                            
CONECT   33   31                                                            
MASTER        0    0    0    0    0    0    0    0   33    0   72    0
END

View in JSmol

Synonyms

Value	Source
(2S,6R)-6-[(1R,2R,5R,7R,8R,10S,11R,14R,15S)-5,8-Dihydroxy-2,15-dimethyl-13-oxotetracyclo[8.7.0.0,.0,]heptadecan-14-yl]-2-methyl-5-oxoheptanoate	Generator

Chemical Formula

C₂₇H₄₂O₆

Average Mass

462.6270 Da

Monoisotopic Mass

462.29814 Da

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

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

InChI Identifier

InChI=1S/C27H42O6/c1-14(25(32)33)5-6-21(29)15(2)24-23(31)13-19-17-12-22(30)20-11-16(28)7-9-26(20,3)18(17)8-10-27(19,24)4/h14-20,22,24,28,30H,5-13H2,1-4H3,(H,32,33)/t14-,15-,16+,17-,18+,19+,20-,22+,24-,26+,27-/m0/s1

InChI Key

PZIRUHCJZBGLDY-YNFSWUFJSA-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
Prunus persica	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as dihydroxy bile acids, alcohols and derivatives. Dihydroxy bile acids, alcohols and derivatives are compounds containing or derived from a bile acid or alcohol, and which bears exactly two carboxylic acid groups.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Steroids and steroid derivatives

Sub Class

Bile acids, alcohols and derivatives

Direct Parent

Dihydroxy bile acids, alcohols and derivatives

Alternative Parents

Substituents

Dihydroxy bile acid, alcohol, or derivatives
Prostaglandin skeleton
22-oxosteroid
21-oxosteroid
Eicosanoid
Steroid acid
3-hydroxysteroid
6-hydroxysteroid
Hydroxysteroid
16-oxosteroid
Oxosteroid
3-alpha-hydroxysteroid
Medium-chain fatty acid
Hydroxy fatty acid
Fatty acyl
Fatty acid
Cyclic alcohol
Ketone
Secondary alcohol
Cyclic ketone
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Carboxylic acid
Alcohol
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Organooxygen compound
Carbonyl group
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

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

163195269

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid (NP0299936)

MOL for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

3D MOL for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

3D SDF for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

3D-SDF for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

PDB for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

3D PDB for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

SMILES for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

INCHI for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

Structure for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)

3D Structure for NP0299936 ((2s,6r)-6-[(1r,3ar,3bs,5r,5ar,7r,9ar,9br,11as)-5,7-dihydroxy-9a,11a-dimethyl-2-oxo-tetradecahydrocyclopenta[a]phenanthren-1-yl]-2-methyl-5-oxoheptanoic acid)