NP-MRD: Showing NP-Card for 4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one (NP0329179)

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Record Information

Version

2.0

Created at

2022-09-12 13:19:46 UTC

Updated at

2022-09-12 13:19:46 UTC

NP-MRD ID

NP0329179

Secondary Accession Numbers

None

Natural Product Identification

Common Name

4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one

Description

4-Hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one belongs to the class of organic compounds known as fatty acyl glycosides of mono- and disaccharides. Fatty acyl glycosides of mono- and disaccharides are compounds composed of a mono- or disaccharide moiety linked to one hydroxyl group of a fatty alcohol or of a phosphorylated alcohol (phosphoprenols), a hydroxy fatty acid or to one carboxyl group of a fatty acid (ester linkage) or to an amino alcohol. 4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one is found in Lonicera gracilipes. 4-Hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004171507242D          

 36 38  0  0  0  0            999 V2000
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   -1.6027   -3.4789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  END

     RDKit          3D

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M  END


  Mrv1533004171507242D          

 36 38  0  0  0  0            999 V2000
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   -3.1936    3.3670    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8509    2.8783    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3206    2.2463    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6704    2.7542    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5359    1.9914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6974    0.5526    0.0000 C   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
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  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  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 12 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  1  0  0  0  0
  9 16  1  0  0  0  0
 16 17  1  0  0  0  0
  6 18  1  0  0  0  0
 18 19  1  0  0  0  0
 18 20  1  0  0  0  0
 20 21  1  0  0  0  0
 20 22  1  0  0  0  0
  4 22  1  0  0  0  0
 22 23  1  0  0  0  0
 24  2  1  4  0  0  0
 24 25  2  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 26 28  1  0  0  0  0
 28 29  2  0  0  0  0
 29 30  1  0  0  0  0
 30 31  2  0  0  0  0
 30 32  1  0  0  0  0
 32 33  1  0  0  0  0
 26 33  1  0  0  0  0
 33 34  1  0  0  0  0
 33 35  1  0  0  0  0
 28 36  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0329179

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(OC1OC(COC2CCC(O)C(O)C2O)C(O)C(O)C1O)C=CC1(O)C(C)=CC(=O)CC1(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C25H40O11/c1-12-9-14(26)10-24(3,4)25(12,33)8-7-13(2)35-23-22(32)21(31)20(30)17(36-23)11-34-16-6-5-15(27)18(28)19(16)29/h7-9,13,15-23,27-33H,5-6,10-11H2,1-4H3

> <INCHI_KEY>
NZOONSXGDPBWBZ-UHFFFAOYSA-N

> <FORMULA>
C25H40O11

> <MOLECULAR_WEIGHT>
516.584

> <EXACT_MASS>
516.257062108

> <JCHEM_ACCEPTOR_COUNT>
11

> <JCHEM_ATOM_COUNT>
76

> <JCHEM_AVERAGE_POLARIZABILITY>
53.97714324933023

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one

> <ALOGPS_LOGP>
-0.72

> <JCHEM_LOGP>
-1.1341503963333337

> <ALOGPS_LOGS>
-2.40

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
12.70057502883881

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.095973562723156

> <JCHEM_PKA_STRONGEST_BASIC>
-3.184566354983178

> <JCHEM_POLAR_SURFACE_AREA>
186.36999999999998

> <JCHEM_REFRACTIVITY>
127.1904

> <JCHEM_ROTATABLE_BOND_COUNT>
7

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
2.05e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 17-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   17-APR-15         0                                  
HETATM    1  C   UNK     0      -2.992  -1.874   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -4.325  -1.104   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0      -5.659  -1.874   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0      -5.659  -3.414   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0      -4.325  -4.184   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0      -4.325  -5.724   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.992  -6.494   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0      -2.992  -8.034   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0      -1.658  -8.804   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -0.324  -8.034   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       1.009  -8.804   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.009 -10.344   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       2.343 -11.114   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0      -0.324 -11.114   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      -0.324 -12.654   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0      -1.658 -10.344   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0      -2.992 -11.114   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0      -5.659  -6.494   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      -5.659  -8.034   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0      -6.993  -5.724   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0      -8.326  -6.494   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0      -6.993  -4.184   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0      -8.326  -3.414   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0      -4.325   0.436   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      -2.992   1.206   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      -2.992   2.746   0.000  0.00  0.00           C+0
HETATM   27  O   UNK     0      -1.475   2.479   0.000  0.00  0.00           O+0
HETATM   28  C   UNK     0      -4.508   2.479   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      -5.498   3.658   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      -4.972   5.105   0.000  0.00  0.00           C+0
HETATM   31  O   UNK     0      -5.961   6.285   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0      -3.455   5.373   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -2.465   4.193   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      -1.251   5.141   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      -1.000   3.717   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      -5.035   1.031   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   24                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   22                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   18                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   16                                                  
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14    9   17                                                  
CONECT   17   16                                                            
CONECT   18    6   19   20                                                  
CONECT   19   18                                                            
CONECT   20   18   21   22                                                  
CONECT   21   20                                                            
CONECT   22   20    4   23                                                  
CONECT   23   22                                                            
CONECT   24    2   25                                                       
CONECT   25   24   26                                                       
CONECT   26   25   27   28   33                                             
CONECT   27   26                                                            
CONECT   28   26   29   36                                                  
CONECT   29   28   30                                                       
CONECT   30   29   31   32                                                  
CONECT   31   30                                                            
CONECT   32   30   33                                                       
CONECT   33   32   26   34   35                                             
CONECT   34   33                                                            
CONECT   35   33                                                            
CONECT   36   28                                                            
MASTER        0    0    0    0    0    0    0    0   36    0   76    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₅H₄₀O₁₁

Average Mass

516.5840 Da

Monoisotopic Mass

516.25706 Da

IUPAC Name

4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one

Traditional Name

4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one

CAS Registry Number

Not Available

SMILES

CC(OC1OC(COC2CCC(O)C(O)C2O)C(O)C(O)C1O)C=CC1(O)C(C)=CC(=O)CC1(C)C

InChI Identifier

InChI=1S/C25H40O11/c1-12-9-14(26)10-24(3,4)25(12,33)8-7-13(2)35-23-22(32)21(31)20(30)17(36-23)11-34-16-6-5-15(27)18(28)19(16)29/h7-9,13,15-23,27-33H,5-6,10-11H2,1-4H3

InChI Key

NZOONSXGDPBWBZ-UHFFFAOYSA-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
Lonicera gracilipes	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as fatty acyl glycosides of mono- and disaccharides. Fatty acyl glycosides of mono- and disaccharides are compounds composed of a mono- or disaccharide moiety linked to one hydroxyl group of a fatty alcohol or of a phosphorylated alcohol (phosphoprenols), a hydroxy fatty acid or to one carboxyl group of a fatty acid (ester linkage) or to an amino alcohol.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Fatty Acyls

Sub Class

Fatty acyl glycosides

Direct Parent

Fatty acyl glycosides of mono- and disaccharides

Alternative Parents

Substituents

Fatty acyl glycoside of mono- or disaccharide
Sesquiterpenoid
Megastigmane sesquiterpenoid
Cyclofarsesane sesquiterpenoid
Ionone derivative
Alkyl glycoside
Glycosyl compound
O-glycosyl compound
Cyclohexanol
Cyclohexenone
Oxane
Monosaccharide
Cyclitol or derivatives
Tertiary alcohol
Cyclic alcohol
Secondary alcohol
Cyclic ketone
Ketone
Organoheterocyclic compound
Oxacycle
Polyol
Ether
Dialkyl ether
Acetal
Organooxygen compound
Organic oxide
Carbonyl group
Alcohol
Organic oxygen compound
Hydrocarbon derivative
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic 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	-0.72	ALOGPS
logP	-1.1	ChemAxon
logS	-2.4	ALOGPS
pKa (Strongest Acidic)	12.1	ChemAxon
pKa (Strongest Basic)	-3.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	11	ChemAxon
Hydrogen Donor Count	7	ChemAxon
Polar Surface Area	186.37 Å²	ChemAxon
Rotatable Bond Count	7	ChemAxon
Refractivity	127.19 m³·mol⁻¹	ChemAxon
Polarizability	53.98 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	No	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

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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one (NP0329179)

MOL for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

3D MOL for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

3D SDF for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

3D-SDF for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

PDB for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

3D PDB for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

SMILES for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

INCHI for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

Structure for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)

3D Structure for NP0329179 (4-hydroxy-3,5,5-trimethyl-4-{3-[(3,4,5-trihydroxy-6-{[(2,3,4-trihydroxycyclohexyl)oxy]methyl}oxan-2-yl)oxy]but-1-en-1-yl}cyclohex-2-en-1-one)