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Showing metabocard for Norcotinine (HMDB0001297)

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Record Information
Version5.0
StatusDetected and Quantified
Creation Date2005-11-16 15:48:42 UTC
Update Date2023-02-21 17:15:35 UTC
HMDB IDHMDB0001297
Secondary Accession Numbers
  • HMDB01297
Metabolite Identification
Common NameNorcotinine
DescriptionNorcotinine belongs to the class of organic compounds known as pyridines and derivatives. Pyridines and derivatives are compounds containing a pyridine ring, which is a six-member aromatic heterocycle which consists of one nitrogen atom and five carbon atoms. In humans, norcotinine is involved in the nicotine metabolism pathway. Norcotinine has been detected, but not quantified in, a few different foods, such as anatidaes (Anatidae), chickens (Gallus gallus), and domestic pigs (Sus scrofa domestica). This could make norcotinine a potential biomarker for the consumption of these foods. Norcotinine is a primary metabolite. Primary metabolites are metabolically or physiologically essential metabolites. They are directly involved in an organism’s growth, development or reproduction. Based on a literature review a small amount of articles have been published on Norcotinine.
Structure
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MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0001297 (Norcotinine)

  Mrv0541 02231219022D          

 12 13  0  0  0  0            999 V2000
   12.7643  -11.8727    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.7643  -11.0477    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498  -12.2852    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.3353  -11.0477    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.7173   -9.3252    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4623   -8.5406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498  -10.6352    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498   -9.8102    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.6373   -8.5406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.3353  -11.8727    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   11.3824   -9.3252    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   11.1524   -7.8732    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  1  3  1  0  0  0  0
  2  7  1  0  0  0  0
  3 10  2  0  0  0  0
  4  7  2  0  0  0  0
  4 10  1  0  0  0  0
  5  6  1  0  0  0  0
  5  8  1  0  0  0  0
  6  9  1  0  0  0  0
  7  8  1  0  0  0  0
  8 11  1  0  0  0  0
  9 11  1  0  0  0  0
  9 12  2  0  0  0  0
M  END
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3D MOL for HMDB0001297 (Norcotinine)

HMDB0001297
     RDKit          3D
Norcotinine
 22 23  0  0  0  0  0  0  0  0999 V2000
   -3.6025    1.5543   -0.5891 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6725    0.7837   -0.2636 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8046   -0.6796   -0.0862 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3376   -1.1075   -0.2250 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6441    0.0189    0.5134 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7977    0.0372    0.2629 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6140    1.1320    0.4462 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9662    1.0592    0.1842 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4739   -0.1305   -0.2627 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7047   -1.2141   -0.4511 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3943   -1.1207   -0.1903 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3328    1.1827   -0.0092 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1112   -0.9703    0.9338 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4404   -1.1618   -0.8385 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1264   -1.0659   -1.3247 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1580   -2.0893    0.2093 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9144   -0.0764    1.5799 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1664    2.0573    0.8032 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6179    1.9156    0.3253 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5455   -0.2211   -0.4802 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8109   -2.0393   -0.3622 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9469    2.1353   -0.1756 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
  5 12  1  0
 12  2  1  0
 11  6  1  0
  3 13  1  0
  3 14  1  0
  4 15  1  0
  4 16  1  0
  5 17  1  0
  7 18  1  0
  8 19  1  0
  9 20  1  0
 11 21  1  0
 12 22  1  0
M  END
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3D SDF for HMDB0001297 (Norcotinine)

  Mrv0541 02231219022D          

 12 13  0  0  0  0            999 V2000
   12.7643  -11.8727    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.7643  -11.0477    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498  -12.2852    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.3353  -11.0477    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.7173   -9.3252    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4623   -8.5406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498  -10.6352    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.0498   -9.8102    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.6373   -8.5406    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.3353  -11.8727    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   11.3824   -9.3252    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   11.1524   -7.8732    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  1  3  1  0  0  0  0
  2  7  1  0  0  0  0
  3 10  2  0  0  0  0
  4  7  2  0  0  0  0
  4 10  1  0  0  0  0
  5  6  1  0  0  0  0
  5  8  1  0  0  0  0
  6  9  1  0  0  0  0
  7  8  1  0  0  0  0
  8 11  1  0  0  0  0
  9 11  1  0  0  0  0
  9 12  2  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0001297

> <DATABASE_NAME>
hmdb

> <SMILES>
O=C1CCC(N1)C1=CN=CC=C1

> <INCHI_IDENTIFIER>
InChI=1S/C9H10N2O/c12-9-4-3-8(11-9)7-2-1-5-10-6-7/h1-2,5-6,8H,3-4H2,(H,11,12)

> <INCHI_KEY>
FXFANIORDKRCCA-UHFFFAOYSA-N

> <FORMULA>
C9H10N2O

> <MOLECULAR_WEIGHT>
162.1885

> <EXACT_MASS>
162.079312952

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_AVERAGE_POLARIZABILITY>
16.724598451951678

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
5-(pyridin-3-yl)pyrrolidin-2-one

> <ALOGPS_LOGP>
0.13

> <JCHEM_LOGP>
-0.013041538000000144

> <ALOGPS_LOGS>
-1.10

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.758678563508763

> <JCHEM_PKA_STRONGEST_BASIC>
4.790785525418944

> <JCHEM_POLAR_SURFACE_AREA>
41.99

> <JCHEM_REFRACTIVITY>
44.3838

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.29e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
5-pyridin-3-ylpyrrolidin-2-one

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for HMDB0001297 (Norcotinine)

HMDB0001297
     RDKit          3D
Norcotinine
 22 23  0  0  0  0  0  0  0  0999 V2000
   -3.6025    1.5543   -0.5891 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6725    0.7837   -0.2636 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8046   -0.6796   -0.0862 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3376   -1.1075   -0.2250 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6441    0.0189    0.5134 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7977    0.0372    0.2629 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6140    1.1320    0.4462 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9662    1.0592    0.1842 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4739   -0.1305   -0.2627 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7047   -1.2141   -0.4511 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3943   -1.1207   -0.1903 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3328    1.1827   -0.0092 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1112   -0.9703    0.9338 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4404   -1.1618   -0.8385 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1264   -1.0659   -1.3247 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1580   -2.0893    0.2093 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9144   -0.0764    1.5799 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1664    2.0573    0.8032 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6179    1.9156    0.3253 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5455   -0.2211   -0.4802 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8109   -2.0393   -0.3622 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9469    2.1353   -0.1756 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
  5 12  1  0
 12  2  1  0
 11  6  1  0
  3 13  1  0
  3 14  1  0
  4 15  1  0
  4 16  1  0
  5 17  1  0
  7 18  1  0
  8 19  1  0
  9 20  1  0
 11 21  1  0
 12 22  1  0
M  END
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PDB for HMDB0001297 (Norcotinine)

HEADER    PROTEIN                                 23-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-FEB-12         0                                  
HETATM    1  C   UNK     0      23.827 -22.162   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      23.827 -20.622   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      22.493 -22.932   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      21.159 -20.622   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      23.739 -17.407   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      23.263 -15.942   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      22.493 -19.852   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      22.493 -18.312   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      21.723 -15.942   0.000  0.00  0.00           C+0
HETATM   10  N   UNK     0      21.159 -22.162   0.000  0.00  0.00           N+0
HETATM   11  N   UNK     0      21.247 -17.407   0.000  0.00  0.00           N+0
HETATM   12  O   UNK     0      20.818 -14.697   0.000  0.00  0.00           O+0
CONECT    1    2    3                                                       
CONECT    2    1    7                                                       
CONECT    3    1   10                                                       
CONECT    4    7   10                                                       
CONECT    5    6    8                                                       
CONECT    6    5    9                                                       
CONECT    7    2    4    8                                                  
CONECT    8    5    7   11                                                  
CONECT    9    6   11   12                                                  
CONECT   10    3    4                                                       
CONECT   11    8    9                                                       
CONECT   12    9                                                            
MASTER        0    0    0    0    0    0    0    0   12    0   26    0
END
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3D PDB for HMDB0001297 (Norcotinine)

COMPND    HMDB0001297
HETATM    1  O1  UNL     1      -3.603   1.554  -0.589  1.00  0.00           O  
HETATM    2  C1  UNL     1      -2.673   0.784  -0.264  1.00  0.00           C  
HETATM    3  C2  UNL     1      -2.805  -0.680  -0.086  1.00  0.00           C  
HETATM    4  C3  UNL     1      -1.338  -1.107  -0.225  1.00  0.00           C  
HETATM    5  C4  UNL     1      -0.644   0.019   0.513  1.00  0.00           C  
HETATM    6  C5  UNL     1       0.798   0.037   0.263  1.00  0.00           C  
HETATM    7  C6  UNL     1       1.614   1.132   0.446  1.00  0.00           C  
HETATM    8  C7  UNL     1       2.966   1.059   0.184  1.00  0.00           C  
HETATM    9  C8  UNL     1       3.474  -0.130  -0.263  1.00  0.00           C  
HETATM   10  N1  UNL     1       2.705  -1.214  -0.451  1.00  0.00           N  
HETATM   11  C9  UNL     1       1.394  -1.121  -0.190  1.00  0.00           C  
HETATM   12  N2  UNL     1      -1.333   1.183  -0.009  1.00  0.00           N  
HETATM   13  H1  UNL     1      -3.111  -0.970   0.934  1.00  0.00           H  
HETATM   14  H2  UNL     1      -3.440  -1.162  -0.838  1.00  0.00           H  
HETATM   15  H3  UNL     1      -1.126  -1.066  -1.325  1.00  0.00           H  
HETATM   16  H4  UNL     1      -1.158  -2.089   0.209  1.00  0.00           H  
HETATM   17  H5  UNL     1      -0.914  -0.076   1.580  1.00  0.00           H  
HETATM   18  H6  UNL     1       1.166   2.057   0.803  1.00  0.00           H  
HETATM   19  H7  UNL     1       3.618   1.916   0.325  1.00  0.00           H  
HETATM   20  H8  UNL     1       4.545  -0.221  -0.480  1.00  0.00           H  
HETATM   21  H9  UNL     1       0.811  -2.039  -0.362  1.00  0.00           H  
HETATM   22  H10 UNL     1      -0.947   2.135  -0.176  1.00  0.00           H  
CONECT    1    2    2
CONECT    2    3   12
CONECT    3    4   13   14
CONECT    4    5   15   16
CONECT    5    6   12   17
CONECT    6    7    7   11
CONECT    7    8   18
CONECT    8    9    9   19
CONECT    9   10   20
CONECT   10   11   11
CONECT   11   21
CONECT   12   22
END
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SMILES for HMDB0001297 (Norcotinine)

O=C1CCC(N1)C1=CN=CC=C1
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INCHI for HMDB0001297 (Norcotinine)

InChI=1S/C9H10N2O/c12-9-4-3-8(11-9)7-2-1-5-10-6-7/h1-2,5-6,8H,3-4H2,(H,11,12)
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View in JSmolView NMR AssignmentsView Stereo Labels
Synonyms
ValueSource
(RS)-NorcotinineHMDB
5-(3-Pyridinyl)-2-pyrrolidinoneHMDB
DemethylcotinineHMDB
Norcotinine, (+-)-isomerMeSH, HMDB
Norcotinine, (R)-isomerMeSH, HMDB
Norcotinine, (S)-isomerMeSH, HMDB
Chemical FormulaC9H10N2O
Average Molecular Weight162.1885
Monoisotopic Molecular Weight162.079312952
IUPAC Name5-(pyridin-3-yl)pyrrolidin-2-one
Traditional Name5-pyridin-3-ylpyrrolidin-2-one
CAS Registry Number17114-40-8
SMILES
O=C1CCC(N1)C1=CN=CC=C1
InChI Identifier
InChI=1S/C9H10N2O/c12-9-4-3-8(11-9)7-2-1-5-10-6-7/h1-2,5-6,8H,3-4H2,(H,11,12)
InChI KeyFXFANIORDKRCCA-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as pyridines and derivatives. Pyridines and derivatives are compounds containing a pyridine ring, which is a six-member aromatic heterocycle which consists of one nitrogen atom and five carbon atoms.
KingdomOrganic compounds
Super ClassOrganoheterocyclic compounds
ClassPyridines and derivatives
Sub ClassNot Available
Direct ParentPyridines and derivatives
Alternative Parents
Substituents
  • Pyridine
  • Heteroaromatic compound
  • Cyclic carboximidic acid
  • Pyrroline
  • Lactim
  • Azacycle
  • Organic 1,3-dipolar compound
  • Propargyl-type 1,3-dipolar organic compound
  • Organic nitrogen compound
  • Organic oxygen compound
  • Organopnictogen compound
  • Hydrocarbon derivative
  • Organooxygen compound
  • Organonitrogen compound
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
Disposition
Biological locationSource
Process
Naturally occurring process
Role
Biological role
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
Predicted Chromatographic Properties
Spectra
Biological Properties
Cellular Locations
  • Cytoplasm
  • Membrane
Biospecimen Locations
  • Blood
  • Urine
Tissue Locations
  • Kidney
  • Liver
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
UrineExpected but not QuantifiedNot QuantifiedNot AvailableNot AvailableNormal
      Not Available
 details
Abnormal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected and Quantified0.051 +/- 0.017 uMAdult (>18 years old)BothSmoking details
Associated Disorders and Diseases
Disease References
Smoking
  1. Zuccaro P, Altieri I, Rosa M, Passa AR, Pichini S, Ricciarello G, Pacifici R: Determination of nicotine and four metabolites in the serum of smokers by high-performance liquid chromatography with ultraviolet detection. J Chromatogr. 1993 Nov 24;621(2):257-61. [PubMed:8294547 ]
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDFDB022540
KNApSAcK IDNot Available
Chemspider ID400
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN ID6142
PubChem Compound413
PDB IDNot Available
ChEBI ID89406
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceDewey, Lovell J. Metabolites of nicotine and a synthesis of nornicotine. Journal of the American Chemical Society (1958), 80 1634-6.
Material Safety Data Sheet (MSDS)Not Available
General References
  1. Zuccaro P, Altieri I, Rosa M, Passa AR, Pichini S, Ricciarello G, Pacifici R: Determination of nicotine and four metabolites in the serum of smokers by high-performance liquid chromatography with ultraviolet detection. J Chromatogr. 1993 Nov 24;621(2):257-61. [PubMed:8294547 ]
  2. Kyerematen GA, Morgan ML, Chattopadhyay B, deBethizy JD, Vesell ES: Disposition of nicotine and eight metabolites in smokers and nonsmokers: identification in smokers of two metabolites that are longer lived than cotinine. Clin Pharmacol Ther. 1990 Dec;48(6):641-51. [PubMed:2249376 ]
  3. McManus KT, deBethizy JD, Garteiz DA, Kyerematen GA, Vesell ES: A new quantitative thermospray LC-MS method for nicotine and its metabolites in biological fluids. J Chromatogr Sci. 1990 Oct;28(10):510-6. [PubMed:2246349 ]
  4. Kim I, Huestis MA: A validated method for the determination of nicotine, cotinine, trans-3'-hydroxycotinine, and norcotinine in human plasma using solid-phase extraction and liquid chromatography-atmospheric pressure chemical ionization-mass spectrometry. J Mass Spectrom. 2006 Jun;41(6):815-21. [PubMed:16705667 ]