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Showing metabocard for 5-Nonen-2-one (HMDB0034761)

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Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2012-09-11 19:40:00 UTC
Update Date2023-02-21 17:24:22 UTC
HMDB IDHMDB0034761
Secondary Accession Numbers
  • HMDB34761
Metabolite Identification
Common Name5-Nonen-2-one
Description5-Nonen-2-one belongs to the class of organic compounds known as ketones. These are organic compounds in which a carbonyl group is bonded to two carbon atoms R2C=O (neither R may be a hydrogen atom). Ketones that have one or more alpha-hydrogen atoms undergo keto-enol tautomerization, the tautomer being an enol. Thus, 5-nonen-2-one is considered to be an oxygenated hydrocarbon. 5-Nonen-2-one is a berry and fruity tasting compound. Based on a literature review very few articles have been published on 5-Nonen-2-one.
Structure
Data?1677000262
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0034761 (5-Nonen-2-one)

  Mrv0541 02241215282D          

 10  9  0  0  0  0            999 V2000
    1.0721    0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0721    1.4434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3296    1.8558    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296    1.4434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296    0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0721    0.2058    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0721   -0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296   -1.0308    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4121   -1.8558    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4121   -0.7009    0.0000 O   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  2  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
  8 10  2  0  0  0  0
M  END
Download

3D MOL for HMDB0034761 (5-Nonen-2-one)

HMDB0034761
     RDKit          3D
5-Nonen-2-one
 26 25  0  0  0  0  0  0  0  0999 V2000
    3.4645    0.9049    0.0867 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0774   -0.3156    0.8915 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3254   -1.2720   -0.0103 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0985   -0.6539   -0.5504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0805   -1.2417   -0.2595 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3272   -0.6327   -0.7948 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1989   -0.2577    0.3684 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4727    0.3606   -0.0257 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6796    1.8193    0.0523 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3728   -0.3373   -0.4233 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2128    0.5341   -0.6723 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9221    1.6650    0.7710 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5814    1.3424   -0.3923 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9765   -0.7881    1.3098 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4497    0.0036    1.7486 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1025   -2.2085    0.5135 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0205   -1.5546   -0.8425 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0737    0.2342   -1.1630 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0828   -2.1368    0.3541 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0915    0.2007   -1.4585 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8562   -1.4083   -1.4135 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6443    0.4586    1.0054 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3911   -1.2136    0.9377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6958    2.0978   -0.2303 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8994    2.3039   -0.5740 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5121    2.0955    1.1314 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  8 10  2  0
  1 11  1  0
  1 12  1  0
  1 13  1  0
  2 14  1  0
  2 15  1  0
  3 16  1  0
  3 17  1  0
  4 18  1  0
  5 19  1  0
  6 20  1  0
  6 21  1  0
  7 22  1  0
  7 23  1  0
  9 24  1  0
  9 25  1  0
  9 26  1  0
M  END
Download

3D SDF for HMDB0034761 (5-Nonen-2-one)

  Mrv0541 02241215282D          

 10  9  0  0  0  0            999 V2000
    1.0721    0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0721    1.4434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3296    1.8558    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296    1.4434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296    0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0721    0.2058    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0721   -0.6184    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3296   -1.0308    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4121   -1.8558    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4121   -0.7009    0.0000 O   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  2  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
  8 10  2  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0034761

> <DATABASE_NAME>
hmdb

> <SMILES>
CCC\C=C\CCC(C)=O

> <INCHI_IDENTIFIER>
InChI=1S/C9H16O/c1-3-4-5-6-7-8-9(2)10/h5-6H,3-4,7-8H2,1-2H3/b6-5+

> <INCHI_KEY>
RXFZCBZCGBDPDT-AATRIKPKSA-N

> <FORMULA>
C9H16O

> <MOLECULAR_WEIGHT>
140.2227

> <EXACT_MASS>
140.120115134

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_AVERAGE_POLARIZABILITY>
17.661770385353424

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(5E)-non-5-en-2-one

> <ALOGPS_LOGP>
2.91

> <JCHEM_LOGP>
2.6677373236666666

> <ALOGPS_LOGS>
-2.49

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
19.598880874369318

> <JCHEM_PKA_STRONGEST_BASIC>
-7.277823601883394

> <JCHEM_POLAR_SURFACE_AREA>
17.07

> <JCHEM_REFRACTIVITY>
44.9433

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.49e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(5E)-non-5-en-2-one

> <JCHEM_VEBER_RULE>
1

$$$$
Download

3D-SDF for HMDB0034761 (5-Nonen-2-one)

HMDB0034761
     RDKit          3D
5-Nonen-2-one
 26 25  0  0  0  0  0  0  0  0999 V2000
    3.4645    0.9049    0.0867 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0774   -0.3156    0.8915 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3254   -1.2720   -0.0103 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0985   -0.6539   -0.5504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0805   -1.2417   -0.2595 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3272   -0.6327   -0.7948 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1989   -0.2577    0.3684 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4727    0.3606   -0.0257 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6796    1.8193    0.0523 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3728   -0.3373   -0.4233 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2128    0.5341   -0.6723 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9221    1.6650    0.7710 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5814    1.3424   -0.3923 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9765   -0.7881    1.3098 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4497    0.0036    1.7486 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1025   -2.2085    0.5135 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0205   -1.5546   -0.8425 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0737    0.2342   -1.1630 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0828   -2.1368    0.3541 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0915    0.2007   -1.4585 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8562   -1.4083   -1.4135 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6443    0.4586    1.0054 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3911   -1.2136    0.9377 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6958    2.0978   -0.2303 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8994    2.3039   -0.5740 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5121    2.0955    1.1314 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  8 10  2  0
  1 11  1  0
  1 12  1  0
  1 13  1  0
  2 14  1  0
  2 15  1  0
  3 16  1  0
  3 17  1  0
  4 18  1  0
  5 19  1  0
  6 20  1  0
  6 21  1  0
  7 22  1  0
  7 23  1  0
  9 24  1  0
  9 25  1  0
  9 26  1  0
M  END
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PDB for HMDB0034761 (5-Nonen-2-one)

HEADER    PROTEIN                                 24-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-FEB-12         0                                  
HETATM    1  C   UNK     0       2.001   1.154   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       2.001   2.694   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.615   3.464   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.615   2.694   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.615   1.154   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -2.001   0.384   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.001  -1.154   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -0.615  -1.924   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -0.769  -3.464   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       0.769  -1.308   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8                                                            
MASTER        0    0    0    0    0    0    0    0   10    0   18    0
END
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3D PDB for HMDB0034761 (5-Nonen-2-one)

COMPND    HMDB0034761
HETATM    1  C1  UNL     1       3.464   0.905   0.087  1.00  0.00           C  
HETATM    2  C2  UNL     1       3.077  -0.316   0.891  1.00  0.00           C  
HETATM    3  C3  UNL     1       2.325  -1.272  -0.010  1.00  0.00           C  
HETATM    4  C4  UNL     1       1.099  -0.654  -0.550  1.00  0.00           C  
HETATM    5  C5  UNL     1      -0.081  -1.242  -0.260  1.00  0.00           C  
HETATM    6  C6  UNL     1      -1.327  -0.633  -0.795  1.00  0.00           C  
HETATM    7  C7  UNL     1      -2.199  -0.258   0.368  1.00  0.00           C  
HETATM    8  C8  UNL     1      -3.473   0.361  -0.026  1.00  0.00           C  
HETATM    9  C9  UNL     1      -3.680   1.819   0.052  1.00  0.00           C  
HETATM   10  O1  UNL     1      -4.373  -0.337  -0.423  1.00  0.00           O  
HETATM   11  H1  UNL     1       4.213   0.534  -0.672  1.00  0.00           H  
HETATM   12  H2  UNL     1       3.922   1.665   0.771  1.00  0.00           H  
HETATM   13  H3  UNL     1       2.581   1.342  -0.392  1.00  0.00           H  
HETATM   14  H4  UNL     1       3.976  -0.788   1.310  1.00  0.00           H  
HETATM   15  H5  UNL     1       2.450   0.004   1.749  1.00  0.00           H  
HETATM   16  H6  UNL     1       2.103  -2.209   0.514  1.00  0.00           H  
HETATM   17  H7  UNL     1       3.021  -1.555  -0.843  1.00  0.00           H  
HETATM   18  H8  UNL     1       1.074   0.234  -1.163  1.00  0.00           H  
HETATM   19  H9  UNL     1      -0.083  -2.137   0.354  1.00  0.00           H  
HETATM   20  H10 UNL     1      -1.091   0.201  -1.458  1.00  0.00           H  
HETATM   21  H11 UNL     1      -1.856  -1.408  -1.413  1.00  0.00           H  
HETATM   22  H12 UNL     1      -1.644   0.459   1.005  1.00  0.00           H  
HETATM   23  H13 UNL     1      -2.391  -1.214   0.938  1.00  0.00           H  
HETATM   24  H14 UNL     1      -4.696   2.098  -0.230  1.00  0.00           H  
HETATM   25  H15 UNL     1      -2.899   2.304  -0.574  1.00  0.00           H  
HETATM   26  H16 UNL     1      -3.512   2.095   1.131  1.00  0.00           H  
CONECT    1    2   11   12   13
CONECT    2    3   14   15
CONECT    3    4   16   17
CONECT    4    5    5   18
CONECT    5    6   19
CONECT    6    7   20   21
CONECT    7    8   22   23
CONECT    8    9   10   10
CONECT    9   24   25   26
END
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SMILES for HMDB0034761 (5-Nonen-2-one)

CCC\C=C\CCC(C)=O
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INCHI for HMDB0034761 (5-Nonen-2-one)

InChI=1S/C9H16O/c1-3-4-5-6-7-8-9(2)10/h5-6H,3-4,7-8H2,1-2H3/b6-5+
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View in JSmolView Stereo Labels
SynonymsNot Available
Chemical FormulaC9H16O
Average Molecular Weight140.2227
Monoisotopic Molecular Weight140.120115134
IUPAC Name(5E)-non-5-en-2-one
Traditional Name(5E)-non-5-en-2-one
CAS Registry Number27039-84-5
SMILES
CCC\C=C\CCC(C)=O
InChI Identifier
InChI=1S/C9H16O/c1-3-4-5-6-7-8-9(2)10/h5-6H,3-4,7-8H2,1-2H3/b6-5+
InChI KeyRXFZCBZCGBDPDT-AATRIKPKSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as ketones. These are organic compounds in which a carbonyl group is bonded to two carbon atoms R2C=O (neither R may be a hydrogen atom). Ketones that have one or more alpha-hydrogen atoms undergo keto-enol tautomerization, the tautomer being an enol.
KingdomOrganic compounds
Super ClassOrganic oxygen compounds
ClassOrganooxygen compounds
Sub ClassCarbonyl compounds
Direct ParentKetones
Alternative Parents
Substituents
  • Ketone
  • Organic oxide
  • Hydrocarbon derivative
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
Disposition
Biological locationSource
ProcessNot Available
RoleNot Available
Physical Properties
StateNot Available
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling Point197.00 to 198.00 °C. @ 760.00 mm HgThe Good Scents Company Information System
Water Solubility0 slightlyThe Good Scents Company Information System
LogP2.605 (est)The Good Scents Company Information System
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
Predicted Chromatographic Properties
Spectra
Biological Properties
Cellular Locations
  • Membrane
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDFDB013312
KNApSAcK IDNot Available
Chemspider ID4515872
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound5363537
PDB IDNot Available
ChEBI IDNot Available
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDrw1548391
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. (). Yannai, Shmuel. (2004) Dictionary of food compounds with CD-ROM: Additives, flavors, and ingredients. Boca Raton: Chapman & Hall/CRC.. .