NP-MRD: Showing NP-Card for 2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal (NP0164413)

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Record Information

Version

2.0

Created at

2022-09-02 23:17:02 UTC

Updated at

2022-09-02 23:17:02 UTC

NP-MRD ID

NP0164413

Secondary Accession Numbers

None

Natural Product Identification

Common Name

2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal

Description

Germacra-1(10),4,11(13)-trien-12-al 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. 2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal is found in Linzia glabra. Based on a literature review very few articles have been published on germacra-1(10),4,11(13)-trien-12-al.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 38 38  0  0  0  0  0  0  0  0999 V2000
    3.9517   -0.9701   -0.5578 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9678   -0.2829    0.0020 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2971    0.5379    1.1604 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4948    1.2420    1.8065 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5747   -0.3439   -0.5165 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.7492   -1.0552    0.4929 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2897   -1.9474   -0.1147 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5801   -1.8755    0.1358 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4901   -2.8559   -0.5656 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2335   -0.9086    1.0534 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7518    0.2885    0.2737 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9728    1.5183    0.5924 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9102    1.9062   -0.0672 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2333    3.1692    0.3708 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2910    1.2103   -1.2332 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1546    0.9947   -0.9363 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9723   -0.9607   -0.2226 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7100   -1.5813   -1.4093 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3280    0.5769    1.5409 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5987   -1.0013   -1.4319 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4249   -1.7553    1.0335 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3377   -0.3855    1.2662 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1252   -2.6966   -0.8136 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4754   -2.9216   -0.0615 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0562   -3.8863   -0.5320 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6965   -2.5245   -1.6108 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0962   -1.4216    1.5269 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5849   -0.5907    1.8937 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7992    0.4735    0.5853 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6899    0.0896   -0.8177 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3513    2.1083    1.4494 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9689    3.9112    0.7455 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.4833    3.0057    1.1881 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2929    3.6372   -0.4837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3837    1.9615   -2.0784 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8303    0.3325   -1.5811 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4876    1.7565   -0.2063 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7346    1.2449   -1.8771 H   0  0  0  0  0  0  0  0  0  0  0  0
  9  8  1  0
  8  7  2  0
  7  6  1  0
  6  5  1  0
  5 16  1  0
 16 15  1  0
 15 13  1  0
 13 14  1  0
 13 12  2  0
 12 11  1  0
 11 10  1  0
  5  2  1  0
  2  1  2  3
  2  3  1  0
  3  4  2  0
 10  8  1  0
  9 24  1  0
  9 25  1  0
  9 26  1  0
  7 23  1  0
  6 21  1  0
  6 22  1  0
  5 20  1  6
 16 37  1  0
 16 38  1  0
 15 35  1  0
 15 36  1  0
 14 32  1  0
 14 33  1  0
 14 34  1  0
 12 31  1  0
 11 29  1  0
 11 30  1  0
 10 27  1  0
 10 28  1  0
  1 17  1  0
  1 18  1  0
  3 19  1  0
M  END


  Mrv1652309032201172D          

 16 16  0  0  1  0            999 V2000
    2.4197    2.9295    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6271    2.7006    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0326    3.2727    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2308    4.0735    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    1.8998    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.0234    1.3278    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8253    0.5269    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4197   -0.0451    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2124    0.1837    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2216   -0.8460    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -1.0748    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8345   -0.5028    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0326    0.2981    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5394    0.9491    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4381    0.8701    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6363    1.6710    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  5  2  1  1  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  8 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
  5 16  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0164413

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C\C1=C/C[C@@H](CC\C(C)=C\CC1)C(=C)C=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H22O/c1-12-5-4-6-13(2)8-10-15(9-7-12)14(3)11-16/h5,8,11,15H,3-4,6-7,9-10H2,1-2H3/b12-5+,13-8+/t15-/m1/s1

> <INCHI_KEY>
AXUADEXBLHHYAJ-KGSGWQTPSA-N

> <FORMULA>
C15H22O

> <MOLECULAR_WEIGHT>
218.34

> <EXACT_MASS>
218.167065328

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
25.443678892979648

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
2-[(1R,3E,7E)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal

> <ALOGPS_LOGP>
5.15

> <JCHEM_LOGP>
3.9126032733333354

> <ALOGPS_LOGS>
-3.91

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_BASIC>
-4.525329080282599

> <JCHEM_POLAR_SURFACE_AREA>
17.07

> <JCHEM_REFRACTIVITY>
71.07469999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.67e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
2-[(1R,3E,7E)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 03-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   03-SEP-22         0                                  
HETATM    1  C   UNK     0       4.517   5.468   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       3.037   5.041   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.928   6.109   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       2.297   7.604   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       2.667   3.546   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.777   2.478   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       3.407   0.984   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       4.517  -0.084   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.996   0.343   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       4.147  -1.579   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.667  -2.006   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.558  -0.938   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.928   0.556   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       2.874   1.772   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.818   1.624   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       1.188   3.119   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    5                                                  
CONECT    3    2    4                                                       
CONECT    4    3                                                            
CONECT    5    2    6   16                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15    5                                                       
MASTER        0    0    0    0    0    0    0    0   16    0   32    0
END

View in JSmol

Synonyms

Value	Source
2-[(1R,3E,7E)-4,8-Dimethylcyclodeca-3,7-dien-1-yl]acrylaldehyde	ChEBI

Chemical Formula

C₁₅H₂₂O

Average Mass

218.3400 Da

Monoisotopic Mass

218.16707 Da

IUPAC Name

2-[(1R,3E,7E)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal

Traditional Name

2-[(1R,3E,7E)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal

CAS Registry Number

Not Available

SMILES

C\C1=C/C[C@@H](CC\C(C)=C\CC1)C(=C)C=O

InChI Identifier

InChI=1S/C15H22O/c1-12-5-4-6-13(2)8-10-15(9-7-12)14(3)11-16/h5,8,11,15H,3-4,6-7,9-10H2,1-2H3/b12-5+,13-8+/t15-/m1/s1

InChI Key

AXUADEXBLHHYAJ-KGSGWQTPSA-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
Linzia glabra	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
Enal
Alpha,beta-unsaturated aldehyde
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aldehyde
Aliphatic homomonocyclic compound

Molecular Framework

Aliphatic homomonocyclic compounds

External Descriptors

sesquiterpenoid (CHEBI:62091 )

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	5.15	ALOGPS
logP	3.91	ChemAxon
logS	-3.9	ALOGPS
pKa (Strongest Basic)	-4.5	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	1	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	17.07 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	71.07 m³·mol⁻¹	ChemAxon
Polarizability	25.44 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

Not Available

Chemspider ID

26332516

KEGG Compound ID

C19677

BioCyc ID

CPD-9412

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

25245391

PDB ID

Not Available

ChEBI ID

62091

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for 2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal (NP0164413)

MOL for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

3D MOL for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

3D SDF for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

3D-SDF for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

PDB for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

3D PDB for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

SMILES for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

INCHI for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

Structure for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)

3D Structure for NP0164413 (2-[(1r,3e,7e)-4,8-dimethylcyclodeca-3,7-dien-1-yl]prop-2-enal)