NP-MRD: Showing NP-Card for (3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione (NP0318479)

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Record Information

Version

2.0

Created at

2022-09-11 19:00:21 UTC

Updated at

2022-09-11 19:00:21 UTC

NP-MRD ID

NP0318479

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione

Description

Neocurdione belongs to the class of organic compounds known as germacrane sesquiterpenoids. These are sesquiterpenoids having the germacrane skeleton, with a structure characterized by a cyclodecane ring substituted with an isopropyl and two methyl groups. (3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione is found in Curcuma aromatica and Curcuma zedoaria. (3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione was first documented in 2015 (PMID: 26281553). Based on a literature review a small amount of articles have been published on Neocurdione (PMID: 29914391) (PMID: 33866197) (PMID: 33787137).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 41 41  0  0  0  0  0  0  0  0999 V2000
   -1.3012    3.4586    0.8202 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4263    2.1451    0.1268 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5509    1.4624    0.3129 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8027    0.1388   -0.3210 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3264   -0.9850    0.5773 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4428   -1.8797   -0.2539 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.0596   -3.2657   -0.2558 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1007   -1.9068    0.3936 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0946   -2.1196    1.5958 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1343   -1.6911   -0.3676 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4366   -0.2625   -0.6768 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.9171   -0.0471   -0.3427 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2130   -0.3253    1.0946 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3808    1.3132   -0.8009 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5738    0.7105   -0.0084 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6029    0.8055    1.2021 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3592    1.6131   -0.7304 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5569    4.2756    0.0911 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0303    3.5427    1.6481 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2976    3.6353    1.2160 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3334    1.8774    0.9560 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4054    0.0574   -1.3382 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9194   -0.0001   -0.4238 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1759   -1.5492    1.0341 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7802   -0.5425    1.4540 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3853   -1.5574   -1.3129 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1233   -3.1254   -0.6066 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1507   -3.6584    0.7907 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5224   -3.9758   -0.9004 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9747   -2.2161    0.1690 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0306   -2.2719   -1.3300 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3777   -0.0928   -1.7922 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4646   -0.7959   -0.9571 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4487    0.6039    1.6527 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0553   -1.0641    1.2174 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3424   -0.7974    1.6175 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4785    1.3440   -0.6435 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9370    2.1465   -0.2562 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2300    1.3547   -1.9017 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2725    2.4869   -1.0700 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7252    1.1587   -1.6800 H   0  0  0  0  0  0  0  0  0  0  0  0
 13 12  1  0
 12 14  1  0
 12 11  1  0
 11 10  1  0
 10  8  1  0
  8  9  2  0
  8  6  1  0
  6  7  1  0
  6  5  1  0
  5  4  1  0
  4  3  1  0
  3  2  2  0
  2  1  1  0
  2 17  1  0
 17 15  1  0
 15 16  2  0
 15 11  1  0
 13 34  1  0
 13 35  1  0
 13 36  1  0
 12 33  1  0
 14 37  1  0
 14 38  1  0
 14 39  1  0
 11 32  1  6
 10 30  1  0
 10 31  1  0
  6 26  1  6
  7 27  1  0
  7 28  1  0
  7 29  1  0
  5 24  1  0
  5 25  1  0
  4 22  1  0
  4 23  1  0
  3 21  1  0
  1 18  1  0
  1 19  1  0
  1 20  1  0
 17 40  1  0
 17 41  1  0
M  END


  Mrv1652309112221002D          

 17 17  0  0  1  0            999 V2000
    0.8889    2.1275    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    1.5039    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2391    1.6598    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7792    1.0361    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5091    0.2566    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6990    0.1007    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.8955    0.2878    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -0.6789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9690   -1.3025    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.6188   -0.8348    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0787   -0.2111    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.7314   -0.3671    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2715    0.2566    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0015   -1.1466    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3488    0.5684    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1913    1.1921    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1589    0.7243    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  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  1  0  0  0
  6  8  1  0  0  0  0
  8  9  2  0  0  0  0
  8 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  6  0  0  0
 12 13  1  0  0  0  0
 12 14  1  0  0  0  0
 11 15  1  0  0  0  0
 15 16  2  0  0  0  0
 15 17  1  0  0  0  0
  2 17  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0318479

> <DATABASE_NAME>
NP-MRD

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

> <INCHI_IDENTIFIER>
InChI=1S/C15H24O2/c1-10(2)13-9-14(16)12(4)7-5-6-11(3)8-15(13)17/h6,10,12-13H,5,7-9H2,1-4H3/b11-6-/t12-,13+/m0/s1

> <INCHI_KEY>
KDPFMRXIVDLQKX-BLJGWETHSA-N

> <FORMULA>
C15H24O2

> <MOLECULAR_WEIGHT>
236.355

> <EXACT_MASS>
236.177630013

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
41

> <JCHEM_AVERAGE_POLARIZABILITY>
27.739579267851532

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(3R,6Z,10S)-6,10-dimethyl-3-(propan-2-yl)cyclodec-6-ene-1,4-dione

> <JCHEM_LOGP>
3.786251132333333

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
16.650149575724075

> <JCHEM_PKA_STRONGEST_BASIC>
-7.159488985737964

> <JCHEM_POLAR_SURFACE_AREA>
34.14

> <JCHEM_REFRACTIVITY>
70.99

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(3R,6Z,10S)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 11-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   11-SEP-22         0                                  
HETATM    1  C   UNK     0       1.659   3.971   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.667   2.807   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       4.180   3.098   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.188   1.934   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       4.684   0.479   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.171   0.188   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.672   0.537   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       2.667  -1.267   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       3.676  -2.431   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       1.155  -1.558   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.147  -0.394   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      -1.365  -0.685   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -2.373   0.479   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -1.869  -2.140   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.651   1.061   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0      -0.357   2.225   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       2.163   1.352   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   17                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11                                                       
CONECT   11   10   12   15                                                  
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12                                                            
CONECT   15   11   16   17                                                  
CONECT   16   15                                                            
CONECT   17   15    2                                                       
MASTER        0    0    0    0    0    0    0    0   17    0   34    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₂₄O₂

Average Mass

236.3550 Da

Monoisotopic Mass

236.17763 Da

IUPAC Name

(3R,6Z,10S)-6,10-dimethyl-3-(propan-2-yl)cyclodec-6-ene-1,4-dione

Traditional Name

(3R,6Z,10S)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione

CAS Registry Number

Not Available

SMILES

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

InChI Identifier

InChI=1S/C15H24O2/c1-10(2)13-9-14(16)12(4)7-5-6-11(3)8-15(13)17/h6,10,12-13H,5,7-9H2,1-4H3/b11-6-/t12-,13+/m0/s1

InChI Key

KDPFMRXIVDLQKX-BLJGWETHSA-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
Curcuma aromatica	LOTUS Database	35616633
Curcuma zedoaria	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as germacrane sesquiterpenoids. These are sesquiterpenoids having the germacrane skeleton, with a structure characterized by a cyclodecane ring substituted with an isopropyl and two methyl groups.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Germacrane sesquiterpenoids

Alternative Parents

Substituents

Germacrane sesquiterpenoid
Cyclic ketone
Ketone
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aliphatic homomonocyclic compound

Molecular Framework

Aliphatic homomonocyclic 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	3.79	ChemAxon
pKa (Strongest Acidic)	16.65	ChemAxon
pKa (Strongest Basic)	-7.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	34.14 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	70.99 m³·mol⁻¹	ChemAxon
Polarizability	27.74 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	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

C00030809

Chemspider ID

21247710

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

24836956

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

El-Hawaz RF, Grace MH, Janbey A, Lila MA, Adelberg JW: In vitro mineral nutrition of Curcuma longa L. affects production of volatile compounds in rhizomes after transfer to the greenhouse. BMC Plant Biol. 2018 Jun 18;18(1):122. doi: 10.1186/s12870-018-1345-y. [PubMed:29914391 ]
Tong H, Yu M, Fei C, Ji, Dong J, Su L, Gu W, Mao C, Li L, Bian Z, Lu T, Hao M, Zeng B: Bioactive constituents and the molecular mechanism of Curcumae Rhizoma in the treatment of primary dysmenorrhea based on network pharmacology and molecular docking. Phytomedicine. 2021 Jun;86:153558. doi: 10.1016/j.phymed.2021.153558. Epub 2021 Mar 27. [PubMed:33866197 ]
Yu MT, Tong HJ, Mao CQ, Su D, Yin FZ, Fei CH, Wang M, Ji D, Lu TL: [Study on quality identification of Curcumae Rhizoma from different origins based on quantitative analysis of appearance color and content of main components]. Zhongguo Zhong Yao Za Zhi. 2021 Mar;46(6):1393-1400. doi: 10.19540/j.cnki.cjcmm.20201111.301. [PubMed:33787137 ]
Gan YX, Luo NN, Jiang YP, Liu Q, Fu S, Wang L, Liao W, Fu CM: [Simultaneous determination of beta-elemene, curcumol, germacrone and neocurdione in volatile oil of Curcuma phaeocaulis and vinegar products by GC-MS]. Zhongguo Zhong Yao Za Zhi. 2015 Apr;40(7):1311-5. [PubMed:26281553 ]
LOTUS database [Link]

Showing NP-Card for (3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione (NP0318479)

MOL for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

3D MOL for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

3D SDF for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

3D-SDF for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

PDB for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

3D PDB for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

SMILES for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

INCHI for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

Structure for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)

3D Structure for NP0318479 ((3r,6z,10s)-3-isopropyl-6,10-dimethylcyclodec-6-ene-1,4-dione)