NP-MRD: Showing NP-Card for 7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione (NP0331990)

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Record Information

Version

2.0

Created at

2023-10-17 16:12:51 UTC

Updated at

2025-02-11 15:46:39 UTC

NP-MRD ID

NP0331990

Natural Product DOI

https://doi.org/10.57994/1110

Secondary Accession Numbers

None

Natural Product Identification

Common Name

7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione

Description

7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione belongs to the class of organic compounds known as fatty alcohols. These are aliphatic alcohols consisting of a chain of a least six carbon atoms. 7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione was first documented in 2023 (PMID: 37714249). Based on a literature review very few articles have been published on 7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione.

Structure

MOL SDF PDB SMILES InChI


  Mrv2104 10172316122D          

 17 18  0  0  1  0            999 V2000
    0.4000    1.2064    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125    1.0632    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1270    0.6507    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.1270   -0.1743    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.7145   -0.8888    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5395   -0.8888    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.2539   -1.3013    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2539   -2.1263    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9684   -0.8888    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8414    1.0632    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5559    0.6507    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2704    1.0632    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8414    1.8882    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1270    2.3007    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1270    3.1257    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125    1.8882    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1303    0.2879    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  0  0  0  0
  4  3  1  6  0  0  0
  4  5  1  0  0  0  0
  6  5  1  0  0  0  0
  4  6  1  0  0  0  0
  6  7  1  6  0  0  0
  7  8  1  0  0  0  0
  7  9  2  0  0  0  0
  3 10  1  1  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 10 13  2  0  0  0  0
 13 14  1  0  0  0  0
 14 15  2  0  0  0  0
  2 16  1  0  0  0  0
 14 16  1  0  0  0  0
  2 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0331990

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(=O)[C@H]1O[C@H]1[C@H]1C(CO)=CC(=O)CC1(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C13H18O4/c1-7(15)11-12(17-11)10-8(6-14)4-9(16)5-13(10,2)3/h4,10-12,14H,5-6H2,1-3H3/t10-,11-,12+/m1/s1

> <INCHI_KEY>
CXGMPOMKHWYVCM-UTUOFQBUSA-N

> <FORMULA>
C13H18O4

> <MOLECULAR_WEIGHT>
238.283

> <EXACT_MASS>
238.12050906

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
35

> <JCHEM_AVERAGE_POLARIZABILITY>
24.701425023086433

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(4R)-4-[(2S,3S)-3-acetyloxiran-2-yl]-3-(hydroxymethyl)-5,5-dimethylcyclohex-2-en-1-one

> <JCHEM_LOGP>
0.5149020443333334

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
16.758310836819156

> <JCHEM_PKA_STRONGEST_ACIDIC>
15.081958376766995

> <JCHEM_PKA_STRONGEST_BASIC>
-2.755348963218772

> <JCHEM_POLAR_SURFACE_AREA>
66.9

> <JCHEM_REFRACTIVITY>
62.65480000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(4R)-4-[(2S,3S)-3-acetyloxiran-2-yl]-3-(hydroxymethyl)-5,5-dimethylcyclohex-2-en-1-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 17-OCT-23   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   17-OCT-23         0                                  
HETATM    1  C   UNK     0       0.747   2.252   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -0.770   1.985   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -2.104   1.215   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.104  -0.325   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0      -1.334  -1.659   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0      -2.874  -1.659   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -4.207  -2.429   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -4.207  -3.969   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0      -5.541  -1.659   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0      -3.437   1.985   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -4.771   1.215   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -6.105   1.985   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0      -3.437   3.525   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -2.104   4.295   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      -2.104   5.835   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0      -0.770   3.525   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      -0.243   0.537   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   16   17                                             
CONECT    3    2    4   10                                                  
CONECT    4    3    5    6                                                  
CONECT    5    4    6                                                       
CONECT    6    5    4    7                                                  
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    3   11   13                                                  
CONECT   11   10   12                                                       
CONECT   12   11                                                            
CONECT   13   10   14                                                       
CONECT   14   13   15   16                                                  
CONECT   15   14                                                            
CONECT   16    2   14                                                       
CONECT   17    2                                                            
MASTER        0    0    0    0    0    0    0    0   17    0   36    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₃H₁₈O₄

Average Mass

238.2830 Da

Monoisotopic Mass

238.12051 Da

IUPAC Name

(4R)-4-[(2S,3S)-3-acetyloxiran-2-yl]-3-(hydroxymethyl)-5,5-dimethylcyclohex-2-en-1-one

Traditional Name

(4R)-4-[(2S,3S)-3-acetyloxiran-2-yl]-3-(hydroxymethyl)-5,5-dimethylcyclohex-2-en-1-one

CAS Registry Number

Not Available

SMILES

CC(=O)[C@H]1O[C@H]1[C@H]1C(CO)=CC(=O)CC1(C)C

InChI Identifier

InChI=1S/C13H18O4/c1-7(15)11-12(17-11)10-8(6-14)4-9(16)5-13(10,2)3/h4,10-12,14H,5-6H2,1-3H3/t10-,11-,12+/m1/s1

InChI Key

CXGMPOMKHWYVCM-UTUOFQBUSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
HMBC NMR	[¹H, ¹³C] NMR Spectrum (2D, 600 MHz, CD3OD, experimental)	wuhonghua2011@tjutcm.edu.cn	Tianjin University of Traditional Chinese Medicine	Hong-Hua Wu	2023-10-17	View Spectrum
HSQC NMR	[¹H, ¹³C] NMR Spectrum (2D, 600 MHz, CD3OD, experimental)	wuhonghua2011@tjutcm.edu.cn	Tianjin University of Traditional Chinese Medicine	Hong-Hua Wu	2023-10-17	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, CD3OD, experimental)	wuhonghua2011@tjutcm.edu.cn	Tianjin University of Traditional Chinese Medicine	Hong-Hua Wu	2023-10-17	View Spectrum

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View

Chemical Shift Submissions

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹H NMR Spectrum (1D, 600, CD₃OD, simulated)	wuhonghua2011@tjutcm.edu.cn	Tianjin University of Traditional Chinese Medicine	Hong-Hua Wu	2024-05-14	View Spectrum

Species

Species of Origin

Species Name	Source	Reference
Tagetes erecta		Not Available

Chemical Taxonomy

Description

This compound belongs to the class of organic compounds known as fatty alcohols. These are aliphatic alcohols consisting of a chain of a least six carbon atoms.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Fatty Acyls

Sub Class

Fatty alcohols

Direct Parent

Fatty alcohols

Alternative Parents

Substituents

Fatty alcohol
Cyclohexenone
Monosaccharide
Alpha,beta-unsaturated ketone
Enone
Acryloyl-group
Cyclic ketone
Ketone
Oxacycle
Organoheterocyclic compound
Ether
Oxirane
Dialkyl ether
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Alcohol
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	0.51	ChemAxon
pKa (Strongest Acidic)	15.08	ChemAxon
pKa (Strongest Basic)	-2.8	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	66.9 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	62.65 m³·mol⁻¹	ChemAxon
Polarizability	24.7 Å³	ChemAxon
Number of Rings	2	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

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

Wang X, Liu X, Wang X, Wang H, Zhang LH, Yu H, Yang W, Wu HH: Carotenoid-derived norsesquiterpenoids and sesquiterpenoids from Tagetes erecta L. Phytochemistry. 2023 Nov;215:113860. doi: 10.1016/j.phytochem.2023.113860. Epub 2023 Sep 14. [PubMed:37714249 ]
DOI: 10.1016/j.phytochem.2023.113860
PII: s0031942223002765

Showing NP-Card for 7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione (NP0331990)

MOL for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

3D MOL for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

3D SDF for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

3D-SDF for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

PDB for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

3D PDB for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

SMILES for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

INCHI for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

Structure for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)

3D Structure for NP0331990 (7,8-Epoxy-5-hydroxymethyl-4-megastigmene-3,9-dione)