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Showing metabocard for Cadaverine (HMDB0002322)

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enzymes (3) Show 3 proteins
Record Information
Version5.0
StatusDetected and Quantified
Creation Date2006-05-22 14:17:48 UTC
Update Date2023-02-21 17:16:20 UTC
HMDB IDHMDB0002322
Secondary Accession Numbers
  • HMDB02322
Metabolite Identification
Common NameCadaverine
DescriptionCadaverine is a foul-smelling diamine formed by bacterial decarboxylation of lysine that occurs during protein hydrolysis during putrefaction of animal tissue. However, this diamine is not purely associated with putrefaction. Cadaverine is a toxic diamine with the formula NH2(CH2)5NH2, which is similar to putrescine's NH2(CH2)4NH2. Cadaverine is also known by the names 1,5-pentanediamine and pentamethylenediamine. It is also produced in small quantities by mammals. In particular, it is partially responsible for the distinctive smell of urine and semen. Elevated levels of cadaverine have been found in the urine of some patients with defects in lysine metabolism. Cadaverine is toxic in large doses. In rats it had a low acute oral toxicity of more than 2000 mg/kg body weight. Cadaverine can be found in Corynebacterium (PMID:27872963 ).
Structure
Data?1676999780
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0002322 (Cadaverine)


  Mrv1652309042000272D          

  7  6  0  0  0  0            999 V2000
    1.7605    1.8414    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6184    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3329    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0474    1.8414    0.0000 N   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  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
M  END
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3D MOL for HMDB0002322 (Cadaverine)

HMDB0002322
     RDKit          3D
Cadaverine
 21 20  0  0  0  0  0  0  0  0999 V2000
    3.6692   -0.1381   -0.4731 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.4220    0.4262    0.0583 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2331   -0.4037   -0.4379 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0017    0.2389    0.1492 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2667   -0.4806   -0.2589 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4193    0.2816    0.4085 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6962   -0.3210    0.0871 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.1442   -0.7322    0.2184 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2575    0.5883   -0.9071 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2485    1.4538   -0.3002 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5117    0.3451    1.1602 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2180   -0.4662   -1.5295 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3500   -1.4056    0.0357 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1226    0.2760    1.2488 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0873    1.2834   -0.2339 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2650   -1.5453    0.0269 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4308   -0.3530   -1.3488 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2432    0.2612    1.4924 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3433    1.3221    0.0724 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0705   -0.9243    0.8360 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3531    0.3622   -0.3043 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  1  0
  5  6  1  0
  6  7  1  0
  1  8  1  0
  1  9  1  0
  2 10  1  0
  2 11  1  0
  3 12  1  0
  3 13  1  0
  4 14  1  0
  4 15  1  0
  5 16  1  0
  5 17  1  0
  6 18  1  0
  6 19  1  0
  7 20  1  0
  7 21  1  0
M  END
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3D SDF for HMDB0002322 (Cadaverine)


  Mrv1652309042000272D          

  7  6  0  0  0  0            999 V2000
    1.7605    1.8414    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6184    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3329    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0474    1.8414    0.0000 N   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  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0002322

> <DATABASE_NAME>
hmdb

> <SMILES>
NCCCCCN

> <INCHI_IDENTIFIER>
InChI=1S/C5H14N2/c6-4-2-1-3-5-7/h1-7H2

> <INCHI_KEY>
VHRGRCVQAFMJIZ-UHFFFAOYSA-N

> <FORMULA>
C5H14N2

> <MOLECULAR_WEIGHT>
102.1781

> <EXACT_MASS>
102.115698458

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
21

> <JCHEM_AVERAGE_POLARIZABILITY>
13.112767429733221

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
pentane-1,5-diamine

> <ALOGPS_LOGP>
-0.27

> <JCHEM_LOGP>
-0.4005515990000003

> <ALOGPS_LOGS>
-0.06

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
2

> <JCHEM_PKA_STRONGEST_BASIC>
10.506503804690274

> <JCHEM_POLAR_SURFACE_AREA>
52.04

> <JCHEM_REFRACTIVITY>
31.979599999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.91e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
cadaverine

> <JCHEM_VEBER_RULE>
0

$$$$
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3D-SDF for HMDB0002322 (Cadaverine)

HMDB0002322
     RDKit          3D
Cadaverine
 21 20  0  0  0  0  0  0  0  0999 V2000
    3.6692   -0.1381   -0.4731 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.4220    0.4262    0.0583 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2331   -0.4037   -0.4379 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0017    0.2389    0.1492 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2667   -0.4806   -0.2589 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4193    0.2816    0.4085 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6962   -0.3210    0.0871 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.1442   -0.7322    0.2184 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2575    0.5883   -0.9071 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2485    1.4538   -0.3002 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5117    0.3451    1.1602 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2180   -0.4662   -1.5295 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3500   -1.4056    0.0357 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1226    0.2760    1.2488 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0873    1.2834   -0.2339 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2650   -1.5453    0.0269 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4308   -0.3530   -1.3488 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2432    0.2612    1.4924 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3433    1.3221    0.0724 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0705   -0.9243    0.8360 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3531    0.3622   -0.3043 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  1  0
  5  6  1  0
  6  7  1  0
  1  8  1  0
  1  9  1  0
  2 10  1  0
  2 11  1  0
  3 12  1  0
  3 13  1  0
  4 14  1  0
  4 15  1  0
  5 16  1  0
  5 17  1  0
  6 18  1  0
  6 19  1  0
  7 20  1  0
  7 21  1  0
M  END
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PDB for HMDB0002322 (Cadaverine)

HEADER    PROTEIN                                 04-SEP-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-SEP-20         0                                  
HETATM    1  N   UNK     0       3.286   3.437   0.000  0.00  0.00           N+0
HETATM    2  C   UNK     0       4.620   2.667   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       5.954   3.437   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.287   2.667   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       8.621   3.437   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       9.955   2.667   0.000  0.00  0.00           C+0
HETATM    7  N   UNK     0      11.288   3.437   0.000  0.00  0.00           N+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                                                            
MASTER        0    0    0    0    0    0    0    0    7    0   12    0
END
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3D PDB for HMDB0002322 (Cadaverine)

COMPND    HMDB0002322
HETATM    1  N1  UNL     1       3.669  -0.138  -0.473  1.00  0.00           N  
HETATM    2  C1  UNL     1       2.422   0.426   0.058  1.00  0.00           C  
HETATM    3  C2  UNL     1       1.233  -0.404  -0.438  1.00  0.00           C  
HETATM    4  C3  UNL     1      -0.002   0.239   0.149  1.00  0.00           C  
HETATM    5  C4  UNL     1      -1.267  -0.481  -0.259  1.00  0.00           C  
HETATM    6  C5  UNL     1      -2.419   0.282   0.408  1.00  0.00           C  
HETATM    7  N2  UNL     1      -3.696  -0.321   0.087  1.00  0.00           N  
HETATM    8  H1  UNL     1       4.144  -0.732   0.218  1.00  0.00           H  
HETATM    9  H2  UNL     1       4.258   0.588  -0.907  1.00  0.00           H  
HETATM   10  H3  UNL     1       2.249   1.454  -0.300  1.00  0.00           H  
HETATM   11  H4  UNL     1       2.512   0.345   1.160  1.00  0.00           H  
HETATM   12  H5  UNL     1       1.218  -0.466  -1.530  1.00  0.00           H  
HETATM   13  H6  UNL     1       1.350  -1.406   0.036  1.00  0.00           H  
HETATM   14  H7  UNL     1       0.123   0.276   1.249  1.00  0.00           H  
HETATM   15  H8  UNL     1      -0.087   1.283  -0.234  1.00  0.00           H  
HETATM   16  H9  UNL     1      -1.265  -1.545   0.027  1.00  0.00           H  
HETATM   17  H10 UNL     1      -1.431  -0.353  -1.349  1.00  0.00           H  
HETATM   18  H11 UNL     1      -2.243   0.261   1.492  1.00  0.00           H  
HETATM   19  H12 UNL     1      -2.343   1.322   0.072  1.00  0.00           H  
HETATM   20  H13 UNL     1      -4.071  -0.924   0.836  1.00  0.00           H  
HETATM   21  H14 UNL     1      -4.353   0.362  -0.304  1.00  0.00           H  
CONECT    1    2    8    9
CONECT    2    3   10   11
CONECT    3    4   12   13
CONECT    4    5   14   15
CONECT    5    6   16   17
CONECT    6    7   18   19
CONECT    7   20   21
END
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SMILES for HMDB0002322 (Cadaverine)

NCCCCCN
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INCHI for HMDB0002322 (Cadaverine)

InChI=1S/C5H14N2/c6-4-2-1-3-5-7/h1-7H2
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View in JSmolView NMR AssignmentsView Stereo Labels
Synonyms
ValueSource
1,5-DiaminopentaneChEBI
1,5-PentamethylenediamineChEBI
1,5-PentanediamineChEBI
DAPEChEBI
PentamethylenediamineChEBI
PENTANE-1,5-diamineChEBI
1,5-Diaminopentane dihydrochlorideHMDB
CadaverinHMDB
Cadaverine dihydrochlorideHMDB
Pentamethylenediamine dihydrochlorideHMDB
BioDex 1HMDB
1,5 PentanediamineHMDB
Chemical FormulaC5H14N2
Average Molecular Weight102.1781
Monoisotopic Molecular Weight102.115698458
IUPAC Namepentane-1,5-diamine
Traditional Namecadaverine
CAS Registry Number462-94-2
SMILES
NCCCCCN
InChI Identifier
InChI=1S/C5H14N2/c6-4-2-1-3-5-7/h1-7H2
InChI KeyVHRGRCVQAFMJIZ-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as monoalkylamines. These are organic compounds containing an primary aliphatic amine group.
KingdomOrganic compounds
Super ClassOrganic nitrogen compounds
ClassOrganonitrogen compounds
Sub ClassAmines
Direct ParentMonoalkylamines
Alternative Parents
Substituents
  • Organopnictogen compound
  • Hydrocarbon derivative
  • Primary aliphatic amine
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External Descriptors
Ontology
Not AvailableNot Available
Physical Properties
StateLiquid
Experimental Molecular Properties
PropertyValueReference
Melting Point9 °CNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility89.1 g/LALOGPS
logP-0.27ALOGPS
logP-0.4ChemAxon
logS-0.06ALOGPS
pKa (Strongest Basic)10.51ChemAxon
Physiological Charge2ChemAxon
Hydrogen Acceptor Count2ChemAxon
Hydrogen Donor Count2ChemAxon
Polar Surface Area52.04 ŲChemAxon
Rotatable Bond Count4ChemAxon
Refractivity31.98 m³·mol⁻¹ChemAxon
Polarizability13.11 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+121.55131661259
DarkChem[M-H]-116.39531661259
DeepCCS[M+H]+126.47330932474
DeepCCS[M-H]-124.51830932474
DeepCCS[M-2H]-159.99230932474
DeepCCS[M+Na]+134.63530932474
AllCCS[M+H]+124.532859911
AllCCS[M+H-H2O]+120.232859911
AllCCS[M+NH4]+128.432859911
AllCCS[M+Na]+129.632859911
AllCCS[M-H]-126.032859911
AllCCS[M+Na-2H]-129.832859911
AllCCS[M+HCOO]-134.132859911

Predicted Retention Times

Underivatized

Chromatographic MethodRetention TimeReference
Measured using a Waters Acquity ultraperformance liquid chromatography (UPLC) ethylene-bridged hybrid (BEH) C18 column (100 mm × 2.1 mm; 1.7 μmparticle diameter). Predicted by Afia on May 17, 2022. Predicted by Afia on May 17, 2022.1.2 minutes32390414
Predicted by Siyang on May 30, 20228.1662 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20228.3 minutes32390414
AjsUoB = Accucore 150 Amide HILIC with 10mM Ammonium Formate, 0.1% Formic Acid407.9 seconds40023050
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid384.1 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid272.4 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid62.5 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid178.0 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid72.5 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid256.1 seconds40023050
BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid238.9 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)949.2 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid556.5 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid34.6 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid513.2 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid174.3 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid218.4 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate1013.7 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA684.9 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water312.8 seconds40023050

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
CadaverineNCCCCCN1526.5Standard polar33892256
CadaverineNCCCCCN969.2Standard non polar33892256
CadaverineNCCCCCN944.9Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Cadaverine,1TMS,isomer #1C[Si](C)(C)NCCCCCN1224.6Semi standard non polar33892256
Cadaverine,1TMS,isomer #1C[Si](C)(C)NCCCCCN1249.9Standard non polar33892256
Cadaverine,1TMS,isomer #1C[Si](C)(C)NCCCCCN1913.4Standard polar33892256
Cadaverine,2TMS,isomer #1C[Si](C)(C)NCCCCCN[Si](C)(C)C1375.2Semi standard non polar33892256
Cadaverine,2TMS,isomer #1C[Si](C)(C)NCCCCCN[Si](C)(C)C1481.8Standard non polar33892256
Cadaverine,2TMS,isomer #1C[Si](C)(C)NCCCCCN[Si](C)(C)C1515.4Standard polar33892256
Cadaverine,2TMS,isomer #2C[Si](C)(C)N(CCCCCN)[Si](C)(C)C1458.5Semi standard non polar33892256
Cadaverine,2TMS,isomer #2C[Si](C)(C)N(CCCCCN)[Si](C)(C)C1493.2Standard non polar33892256
Cadaverine,2TMS,isomer #2C[Si](C)(C)N(CCCCCN)[Si](C)(C)C1876.9Standard polar33892256
Cadaverine,3TMS,isomer #1C[Si](C)(C)NCCCCCN([Si](C)(C)C)[Si](C)(C)C1608.2Semi standard non polar33892256
Cadaverine,3TMS,isomer #1C[Si](C)(C)NCCCCCN([Si](C)(C)C)[Si](C)(C)C1693.7Standard non polar33892256
Cadaverine,3TMS,isomer #1C[Si](C)(C)NCCCCCN([Si](C)(C)C)[Si](C)(C)C1531.1Standard polar33892256
Cadaverine,4TMS,isomer #1C[Si](C)(C)N(CCCCCN([Si](C)(C)C)[Si](C)(C)C)[Si](C)(C)C1877.9Semi standard non polar33892256
Cadaverine,4TMS,isomer #1C[Si](C)(C)N(CCCCCN([Si](C)(C)C)[Si](C)(C)C)[Si](C)(C)C1872.9Standard non polar33892256
Cadaverine,4TMS,isomer #1C[Si](C)(C)N(CCCCCN([Si](C)(C)C)[Si](C)(C)C)[Si](C)(C)C1540.0Standard polar33892256
Cadaverine,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN1434.8Semi standard non polar33892256
Cadaverine,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN1456.3Standard non polar33892256
Cadaverine,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN1997.4Standard polar33892256
Cadaverine,2TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN[Si](C)(C)C(C)(C)C1853.2Semi standard non polar33892256
Cadaverine,2TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN[Si](C)(C)C(C)(C)C1836.4Standard non polar33892256
Cadaverine,2TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN[Si](C)(C)C(C)(C)C1746.4Standard polar33892256
Cadaverine,2TBDMS,isomer #2CC(C)(C)[Si](C)(C)N(CCCCCN)[Si](C)(C)C(C)(C)C1863.7Semi standard non polar33892256
Cadaverine,2TBDMS,isomer #2CC(C)(C)[Si](C)(C)N(CCCCCN)[Si](C)(C)C(C)(C)C1866.8Standard non polar33892256
Cadaverine,2TBDMS,isomer #2CC(C)(C)[Si](C)(C)N(CCCCCN)[Si](C)(C)C(C)(C)C1922.1Standard polar33892256
Cadaverine,3TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C2273.0Semi standard non polar33892256
Cadaverine,3TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C2219.7Standard non polar33892256
Cadaverine,3TBDMS,isomer #1CC(C)(C)[Si](C)(C)NCCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C1884.7Standard polar33892256
Cadaverine,4TBDMS,isomer #1CC(C)(C)[Si](C)(C)N(CCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C2650.2Semi standard non polar33892256
Cadaverine,4TBDMS,isomer #1CC(C)(C)[Si](C)(C)N(CCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C2543.7Standard non polar33892256
Cadaverine,4TBDMS,isomer #1CC(C)(C)[Si](C)(C)N(CCCCCN([Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C)[Si](C)(C)C(C)(C)C1989.5Standard polar33892256
Spectra
Biological Properties
Cellular Locations
  • Cytoplasm (predicted from logP)
Biospecimen Locations
  • Blood
  • Feces
  • Saliva
  • Urine
Tissue Locations
  • Epidermis
  • Intestine
  • Prostate
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothNormal details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedNot SpecifiedBoth
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal		 details
FecesDetected but not QuantifiedNot QuantifiedNot SpecifiedNot Specified
Normal		 details
FecesDetected and Quantified217.268 +/- 239.777 nmol/g wet fecesNot SpecifiedNot Specified
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected and Quantified7.40 +/- 22.4 uMAdult (>18 years old)Female
Normal
    • Sugimoto et al. (...
 details
SalivaDetected and Quantified2.74 +/- 5.58 uMAdult (>18 years old)Female
Normal
    • Sugimoto et al. (...
 details
SalivaDetected and Quantified2.50 +/- 2.62 uMAdult (>18 years old)Not Specified
Normal
    • Sugimoto et al. (...
 details
SalivaDetected and Quantified1.32 +/- 1.41 uMAdult (>18 years old)Not Specified
Normal
    • Sugimoto et al. (...
 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Male
Normal		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothNormal details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Normal
    • Zerihun T. Dame, ...
 details
UrineDetected and Quantified0.40 (0.01-0.82) umol/mmol creatinineAdult (>18 years old)BothNormal details
UrineDetected and Quantified0.217 +/- .208 umol/mmol creatinineAdult (>18 years old)BothNot Available details
UrineDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothNormal details
UrineDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothNormal details
UrineDetected and Quantified0.058 +/- 0.0067 umol/mmol creatinineAdult (>18 years old)BothNormal details
Abnormal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected and Quantified0.16 +/- 0.09 uMAdult (>18 years old)Both
Kidney disease		 details
BloodDetected and Quantified0.22 +/- 0.11 uMAdult (>18 years old)Both
Kidney disease		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Colorectal cancer		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Colorectal cancer		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Ulcerative colitis		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Crohn disease		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothColorectal Cancer details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Ulcerative colitis		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Ulcerative colitis		 details
FecesDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Both
Irritable bowel syndrome		 details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Not SpecifiedPeriodontal diseases details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)Not SpecifiedPancreatic cancer details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)FemaleBreast cancer details
SalivaDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothOral cancer details
UrineDetected and Quantified0.991 +/- 0.936 umol/mmol creatinineAdult (>18 years old)BothLeukemia details
UrineDetected but not QuantifiedNot QuantifiedAdult (>18 years old)BothLeukemia details
UrineDetected and Quantified0.18 +/- 0.044 umol/mmol creatinineAdult (>18 years old)BothPancreatic cancer details
Associated Disorders and Diseases
Disease References
Kidney disease
  1. Takagi T, Chung TG, Saito A: Determination of polyamines in hydrolysates of uremic plasma by high-performance cation-exchange column chromatography. J Chromatogr. 1983 Feb 11;272(2):279-85. [PubMed:6833425 ]
Irritable bowel syndrome
  1. Le Gall G, Noor SO, Ridgway K, Scovell L, Jamieson C, Johnson IT, Colquhoun IJ, Kemsley EK, Narbad A: Metabolomics of fecal extracts detects altered metabolic activity of gut microbiota in ulcerative colitis and irritable bowel syndrome. J Proteome Res. 2011 Sep 2;10(9):4208-18. doi: 10.1021/pr2003598. Epub 2011 Aug 8. [PubMed:21761941 ]
Ulcerative colitis
  1. Le Gall G, Noor SO, Ridgway K, Scovell L, Jamieson C, Johnson IT, Colquhoun IJ, Kemsley EK, Narbad A: Metabolomics of fecal extracts detects altered metabolic activity of gut microbiota in ulcerative colitis and irritable bowel syndrome. J Proteome Res. 2011 Sep 2;10(9):4208-18. doi: 10.1021/pr2003598. Epub 2011 Aug 8. [PubMed:21761941 ]
  2. Azario I, Pievani A, Del Priore F, Antolini L, Santi L, Corsi A, Cardinale L, Sawamoto K, Kubaski F, Gentner B, Bernardo ME, Valsecchi MG, Riminucci M, Tomatsu S, Aiuti A, Biondi A, Serafini M: Neonatal umbilical cord blood transplantation halts skeletal disease progression in the murine model of MPS-I. Sci Rep. 2017 Aug 25;7(1):9473. doi: 10.1038/s41598-017-09958-9. [PubMed:28842642 ]
Colorectal cancer
  1. Brown DG, Rao S, Weir TL, O'Malia J, Bazan M, Brown RJ, Ryan EP: Metabolomics and metabolic pathway networks from human colorectal cancers, adjacent mucosa, and stool. Cancer Metab. 2016 Jun 6;4:11. doi: 10.1186/s40170-016-0151-y. eCollection 2016. [PubMed:27275383 ]
  2. Sinha R, Ahn J, Sampson JN, Shi J, Yu G, Xiong X, Hayes RB, Goedert JJ: Fecal Microbiota, Fecal Metabolome, and Colorectal Cancer Interrelations. PLoS One. 2016 Mar 25;11(3):e0152126. doi: 10.1371/journal.pone.0152126. eCollection 2016. [PubMed:27015276 ]
  3. Goedert JJ, Sampson JN, Moore SC, Xiao Q, Xiong X, Hayes RB, Ahn J, Shi J, Sinha R: Fecal metabolomics: assay performance and association with colorectal cancer. Carcinogenesis. 2014 Sep;35(9):2089-96. doi: 10.1093/carcin/bgu131. Epub 2014 Jul 18. [PubMed:25037050 ]
Crohn's disease
  1. Azario I, Pievani A, Del Priore F, Antolini L, Santi L, Corsi A, Cardinale L, Sawamoto K, Kubaski F, Gentner B, Bernardo ME, Valsecchi MG, Riminucci M, Tomatsu S, Aiuti A, Biondi A, Serafini M: Neonatal umbilical cord blood transplantation halts skeletal disease progression in the murine model of MPS-I. Sci Rep. 2017 Aug 25;7(1):9473. doi: 10.1038/s41598-017-09958-9. [PubMed:28842642 ]
Perillyl alcohol administration for cancer treatment
  1. Sugimoto M, Wong DT, Hirayama A, Soga T, Tomita M: Capillary electrophoresis mass spectrometry-based saliva metabolomics identified oral, breast and pancreatic cancer-specific profiles. Metabolomics. 2010 Mar;6(1):78-95. Epub 2009 Sep 10. [PubMed:20300169 ]
Pancreatic cancer
  1. Sugimoto M, Wong DT, Hirayama A, Soga T, Tomita M: Capillary electrophoresis mass spectrometry-based saliva metabolomics identified oral, breast and pancreatic cancer-specific profiles. Metabolomics. 2010 Mar;6(1):78-95. Epub 2009 Sep 10. [PubMed:20300169 ]
Periodontal disease
  1. Sugimoto M, Wong DT, Hirayama A, Soga T, Tomita M: Capillary electrophoresis mass spectrometry-based saliva metabolomics identified oral, breast and pancreatic cancer-specific profiles. Metabolomics. 2010 Mar;6(1):78-95. Epub 2009 Sep 10. [PubMed:20300169 ]
Thyroid cancer
  1. Loser C, Folsch UR, Paprotny C, Creutzfeldt W: Polyamine concentrations in pancreatic tissue, serum, and urine of patients with pancreatic cancer. Pancreas. 1990 Mar;5(2):119-27. [PubMed:2315288 ]
Leukemia
  1. Lee SH, Suh JW, Chung BC, Kim SO: Polyamine profiles in the urine of patients with leukemia. Cancer Lett. 1998 Jan 9;122(1-2):1-8. [PubMed:9464484 ]
Associated OMIM IDs
DrugBank IDDB03854
Phenol Explorer Compound IDNot Available
FooDB IDFDB001493
KNApSAcK IDC00001403
Chemspider ID13866593
KEGG Compound IDC01672
BioCyc IDCADAVERINE
BiGG IDNot Available
Wikipedia LinkCadaverine
METLIN ID3236
PubChem Compound273
PDB IDNot Available
ChEBI ID18127
Food Biomarker OntologyNot Available
VMH ID15DAP
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Download (PDF)
General References
  1. van den Berg GA, Schaaf JM, Nagel GT, Teelken AW, Muskiet FA: Determination of polyamines and metabolites in cerebrospinal fluid by isotope dilution mass fragmentography, and a clinical application. Clin Chim Acta. 1987 Jun 15;165(2-3):147-54. [PubMed:3308180 ]
  2. Muskiet FA, van den Berg GA, Kingma AW, Fremouw-Ottevangers DC, Halie MR: Total polyamines and their non-alpha-amino acid metabolites simultaneously determined in urine by capillary gas chromatography, with nitrogen-phosphorus detector; and some clinical applications. Clin Chem. 1984 May;30(5):687-95. [PubMed:6713628 ]
  3. Sreekumar A, Poisson LM, Rajendiran TM, Khan AP, Cao Q, Yu J, Laxman B, Mehra R, Lonigro RJ, Li Y, Nyati MK, Ahsan A, Kalyana-Sundaram S, Han B, Cao X, Byun J, Omenn GS, Ghosh D, Pennathur S, Alexander DC, Berger A, Shuster JR, Wei JT, Varambally S, Beecher C, Chinnaiyan AM: Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression. Nature. 2009 Feb 12;457(7231):910-4. doi: 10.1038/nature07762. [PubMed:19212411 ]
  4. Wolrath H, Forsum U, Larsson PG, Boren H: Analysis of bacterial vaginosis-related amines in vaginal fluid by gas chromatography and mass spectrometry. J Clin Microbiol. 2001 Nov;39(11):4026-31. [PubMed:11682525 ]
  5. Gabastou JM, Nugon-Baudon L, Robert Y, Manuel C, Vaissade P, Bourgeon E, Sibeud M, Szylit O, Bourlioux P: [Digestive amines of bacterial origin and behavior disorders. Apropos of a case]. Pathol Biol (Paris). 1996 Apr;44(4):275-81. [PubMed:8763591 ]
  6. Cooke M, Leeves N, White C: Time profile of putrescine, cadaverine, indole and skatole in human saliva. Arch Oral Biol. 2003 Apr;48(4):323-7. [PubMed:12663078 ]
  7. Becker K, Csikos M, Sardy M, Szalai ZS, Horvath A, Karpati S: Identification of two novel nonsense mutations in the transglutaminase 1 gene in a Hungarian patient with congenital ichthyosiform erythroderma. Exp Dermatol. 2003 Jun;12(3):324-9. [PubMed:12823447 ]
  8. Goldberg S, Kozlovsky A, Gordon D, Gelernter I, Sintov A, Rosenberg M: Cadaverine as a putative component of oral malodor. J Dent Res. 1994 Jun;73(6):1168-72. [PubMed:8046106 ]
  9. Wakisaka K, Arano Y, Uezono T, Akizawa H, Ono M, Kawai K, Ohomomo Y, Nakayama M, Saji H: A novel radioiodination reagent for protein radiopharmaceuticals with L-lysine as a plasma-stable metabolizable linkage to liberate m-iodohippuric acid after lysosomal proteolysis. J Med Chem. 1997 Aug 1;40(16):2643-52. [PubMed:9258371 ]
  10. Kai M, Ogata T, Haraguchi K, Ohkura Y: High-performance liquid chromatographic determination of free and total polyamines in human serum as fluorescamine derivatives. J Chromatogr. 1979 Jun 11;163(2):151-60. [PubMed:541366 ]
  11. Konikoff F, Goldman G, Halpern Z, Somjen GJ, Gilat T: Polyamines--potential nucleating factors in bile. Liver. 1990 Jun;10(3):173-6. [PubMed:2385158 ]
  12. Fujita K, Nagatsu T, Shinpo K, Maruta K, Teradaira R, Nakamura M: Improved analysis for urinary polyamines by use of high-voltage electrophoresis on paper. Clin Chem. 1980 Oct;26(11):1577-82. [PubMed:7418205 ]
  13. Kohler H, Rodrigues SP, Maurelli AT, McCormick BA: Inhibition of Salmonella typhimurium enteropathogenicity by piperidine, a metabolite of the polyamine cadaverine. J Infect Dis. 2002 Oct 15;186(8):1122-30. Epub 2002 Sep 20. [PubMed:12355363 ]
  14. Chen KC, Amsel R, Eschenbach DA, Holmes KK: Biochemical diagnosis of vaginitis: determination of diamines in vaginal fluid. J Infect Dis. 1982 Mar;145(3):337-45. [PubMed:7061879 ]
  15. Kubilus J, Baden HP: Isolation of two immunologically related transglutaminase substrates from cultured human keratinocytes. In Vitro. 1982 May;18(5):447-55. [PubMed:6180968 ]
  16. Kubota S, Okada M, Imahori K, Ohsawa N: A new simple enzymatic assay method for urinary polyamines in humans. Cancer Res. 1983 May;43(5):2363-7. [PubMed:6831460 ]
  17. Hallak A, Rosenberg R, Gilat T, Somjen GJ: Determination of free polyamines in human bile by high-performance liquid chromatography. Clin Sci (Lond). 1993 Oct;85(4):451-4. [PubMed:8222511 ]
  18. Wendisch VF: Microbial Production of Amino Acid-Related Compounds. Adv Biochem Eng Biotechnol. 2017;159:255-269. doi: 10.1007/10_2016_34. [PubMed:27872963 ]

Enzymes

Enzyme Details
1. Spermidine synthase
General function:
Involved in catalytic activity
Specific function:
Catalyzes the production of spermidine from putrescine and decarboxylated S-adenosylmethionine (dcSAM). Has a strong preference for putrescine as substrate, and has very low activity towards 1,3-diaminopropane. Has extremely low activity towards spermidine.
Gene Name:
SRM
Uniprot ID:
P19623
Molecular weight:
33824.455
Reactions
S-Adenosylmethioninamine + Cadaverine → 5'-Methylthioadenosine + Aminopropylcadaverinedetails
Enzyme Details
2. Membrane primary amine oxidase
General function:
Involved in copper ion binding
Specific function:
Cell adhesion protein that participates in lymphocyte recirculation by mediating the binding of lymphocytes to peripheral lymph node vascular endothelial cells in an L-selectin-independent fashion. Has a monoamine oxidase activity. May play a role in adipogenesis.
Gene Name:
AOC3
Uniprot ID:
Q16853
Molecular weight:
84621.27
Reactions
Cadaverine + Water + Oxygen → 5-Aminopentanal + Ammonia + Hydrogen peroxidedetails
Enzyme Details
3. Retina-specific copper amine oxidase
General function:
Involved in copper ion binding
Specific function:
Has a monoamine oxidase activity with substrate specificity for 2-phenylethylamine and tryptamine. May play a role in adipogenesis. May be a critical modulator of signal transmission in retina.
Gene Name:
AOC2
Uniprot ID:
O75106
Molecular weight:
80515.11
Reactions
Cadaverine + Water + Oxygen → 5-Aminopentanal + Ammonia + Hydrogen peroxidedetails