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Showing NP-Card for (z)-α-ocimene (NP0188014)

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Record Information
Version2.0
Created at2022-09-04 04:16:30 UTC
Updated at2022-09-04 04:16:30 UTC
NP-MRD IDNP0188014
Secondary Accession NumbersNone
Natural Product Identification
Common Name(z)-α-ocimene
Description(Z)-3,7-Dimethyl-1,3,7-octatriene belongs to the class of organic compounds known as acyclic monoterpenoids. These are monoterpenes that do not contain a cycle. Thus, (Z)-3,7-dimethyl-1,3,7-octatriene is considered to be an isoprenoid lipid molecule (Z)-3,7-Dimethyl-1,3,7-octatriene is a very hydrophobic molecule, practically insoluble (in water), and relatively neutral. Outside of the human body, (Z)-3,7-Dimethyl-1,3,7-octatriene has been detected, but not quantified in, green vegetables and herbs and spices. (z)-α-ocimene is found in Crithmum maritimum, Haplopappus foliosus and Neolitsea aciculata. This could make (Z)-3,7-dimethyl-1,3,7-octatriene a potential biomarker for the consumption of these foods.
Structure
Thumb
MOL3D MOLSDFPDBSMILESInChI

MOL for NP0188014 ((z)-α-ocimene)


  Mrv0541 10261202452D          

 10  9  0  0  0  0            999 V2000
   -5.4804    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7659    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0514    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3369    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6225    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9080    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1935    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7659    4.5964    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9080    4.5964    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1935    5.0089    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
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  2  8  1  0  0  0  0
  6  9  1  0  0  0  0
  9 10  2  0  0  0  0
M  END
Download

3D MOL for NP0188014 ((z)-α-ocimene)

     RDKit          3D

 26 25  0  0  0  0  0  0  0  0999 V2000
   -3.2780   -1.1481   -1.3025 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1375   -0.5825   -0.9817 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0278    0.2337    0.2022 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2737    0.3868    1.0293 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9483    0.8369    0.6083 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3116    0.7517   -0.1229 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3446    0.1245    0.7599 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6813   -0.0160    0.1545 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9208    0.4146   -1.0644 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7324   -0.6736    0.9992 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3914   -1.7763   -2.2003 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1905   -1.0523   -0.7280 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2831   -0.7289   -1.6013 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0616    0.7055    0.2854 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1233    1.1927    1.7576 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5730   -0.5663    1.4736 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0107    1.4254    1.5365 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.6601    1.8210   -0.2901 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2937    0.2875   -1.0983 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4565    0.6994    1.7004 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9997   -0.8931    1.0478 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9173    0.2872   -1.4706 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1314    0.8823   -1.6262 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4678   -1.7651    1.0073 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6399   -0.3179    2.0474 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7418   -0.5290    0.5768 H   0  0  0  0  0  0  0  0  0  0  0  0
 10  8  1  0
  8  9  2  3
  8  7  1  0
  7  6  1  0
  6  5  1  0
  5  3  2  0
  3  4  1  0
  3  2  1  0
  2  1  2  0
 10 24  1  0
 10 25  1  0
 10 26  1  0
  9 22  1  0
  9 23  1  0
  7 20  1  0
  7 21  1  0
  6 18  1  0
  6 19  1  0
  5 17  1  0
  4 14  1  0
  4 15  1  0
  4 16  1  0
  2 13  1  0
  1 11  1  0
  1 12  1  0
M  END
Download

3D SDF for NP0188014 ((z)-α-ocimene)


  Mrv0541 10261202452D          

 10  9  0  0  0  0            999 V2000
   -5.4804    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7659    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0514    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3369    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6225    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9080    3.7714    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1935    3.3589    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7659    4.5964    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9080    4.5964    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1935    5.0089    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  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  6  7  1  0  0  0  0
  2  8  1  0  0  0  0
  6  9  1  0  0  0  0
  9 10  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0188014

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(=C)CC\C=C(\C)C=C

> <INCHI_IDENTIFIER>
InChI=1S/C10H16/c1-5-10(4)8-6-7-9(2)3/h5,8H,1-2,6-7H2,3-4H3/b10-8-

> <INCHI_KEY>
XJPBRODHZKDRCB-NTMALXAHSA-N

> <FORMULA>
C10H16

> <MOLECULAR_WEIGHT>
136.234

> <EXACT_MASS>
136.125200512

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_AVERAGE_POLARIZABILITY>
17.75861579091656

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(3Z)-3,7-dimethylocta-1,3,7-triene

> <ALOGPS_LOGP>
4.25

> <JCHEM_LOGP>
3.537100136666666

> <ALOGPS_LOGS>
-3.25

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_POLAR_SURFACE_AREA>
0

> <JCHEM_REFRACTIVITY>
48.37899999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
7.71e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(Z)-α-ocimene

> <JCHEM_VEBER_RULE>
1

$$$$
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3D-SDF for NP0188014 ((z)-α-ocimene)

Download
PDB for NP0188014 ((z)-α-ocimene)
HEADER    PROTEIN                                 26-OCT-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   26-OCT-12         0                                  
HETATM    1  C   UNK     0     -10.230   6.270   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -8.896   7.040   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -7.563   6.270   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -6.229   7.040   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -4.895   6.270   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -3.562   7.040   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.228   6.270   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -8.896   8.580   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -3.562   8.580   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -2.228   9.350   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3    8                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7    9                                                  
CONECT    7    6                                                            
CONECT    8    2                                                            
CONECT    9    6   10                                                       
CONECT   10    9                                                            
MASTER        0    0    0    0    0    0    0    0   10    0   18    0
END

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3D PDB for NP0188014 ((z)-α-ocimene)
Download
SMILES for NP0188014 ((z)-α-ocimene)
CC(=C)CC\C=C(\C)C=C
Download
INCHI for NP0188014 ((z)-α-ocimene)
InChI=1S/C10H16/c1-5-10(4)8-6-7-9(2)3/h5,8H,1-2,6-7H2,3-4H3/b10-8-
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View in JSmol
Synonyms
ValueSource
(Z)-a-OcimeneGenerator
(Z)-Α-ocimeneGenerator
Chemical FormulaC10H16
Average Mass136.2340 Da
Monoisotopic Mass136.12520 Da
IUPAC Name(3Z)-3,7-dimethylocta-1,3,7-triene
Traditional Name(Z)-α-ocimene
CAS Registry NumberNot Available
SMILES
CC(=C)CC\C=C(\C)C=C
InChI Identifier
InChI=1S/C10H16/c1-5-10(4)8-6-7-9(2)3/h5,8H,1-2,6-7H2,3-4H3/b10-8-
InChI KeyXJPBRODHZKDRCB-NTMALXAHSA-N
Experimental Spectra
Not Available
Predicted Spectra
Spectrum TypeDescriptionDepositor IDDepositor OrganizationDepositorDeposition DateView
1D NMR13C NMR Spectrum (1D, 25 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 100 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 252 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 1000 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 50 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 200 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 75 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 300 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 101 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 400 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 126 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 500 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 151 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 600 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 176 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 700 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 201 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 800 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR13C NMR Spectrum (1D, 226 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
1D NMR1H NMR Spectrum (1D, 900 MHz, H2O, predicted)Wishart LabWishart LabDavid Wishart2021-06-20View Spectrum
Chemical Shift Submissions
Not Available
Species
Species of Origin
Species NameSourceReference
Crithmum maritimumLOTUS Database
Haplopappus foliosusLOTUS Database
Neolitsea aciculataLOTUS Database
Chemical Taxonomy
Description Belongs to the class of organic compounds known as acyclic monoterpenoids. These are monoterpenes that do not contain a cycle.
KingdomOrganic compounds  
Super ClassLipids and lipid-like molecules  
ClassPrenol lipids  
Sub ClassMonoterpenoids  
Direct ParentAcyclic monoterpenoids  
Alternative Parents
Substituents
  • Acyclic monoterpenoid
    • 

  • Branched unsaturated hydrocarbon
    • 

  • Alkatriene
    • 

  • Unsaturated aliphatic hydrocarbon
    • 

  • Unsaturated hydrocarbon
    • 

  • Olefin
    • 

  • Acyclic olefin
    • 

  • Hydrocarbon
    • 

  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Physical Properties
StateNot Available
Experimental Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Predicted Properties
PropertyValueSource
logP4.25ALOGPS
logP3.54ChemAxon
logS-3.2ALOGPS
Physiological Charge0ChemAxon
Hydrogen Acceptor Count0ChemAxon
Hydrogen Donor Count0ChemAxon
Polar Surface Area0 ŲChemAxon
Rotatable Bond Count4ChemAxon
Refractivity48.38 m³·mol⁻¹ChemAxon
Polarizability17.76 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleNoChemAxon
HMDB IDHMDB0036104  
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FoodDB IDFDB014947  
KNApSAcK IDC00010307  
Chemspider ID4478389  
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound5320249  
PDB IDNot Available
ChEBI IDNot Available
Good Scents IDNot Available
References
General References
  1. LOTUS database [Link]