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Record Information

Version

5.0

Status

Detected but not Quantified

Creation Date

2021-09-11 13:27:08 UTC

Update Date

2021-09-26 23:08:08 UTC

HMDB ID

HMDB0254255

Secondary Accession Numbers

None

Metabolite Identification

Common Name

Lycodine

Description

AC1LCOOW belongs to the class of organic compounds known as phenanthrolines. These are aromatic polycyclic compounds containing the phenanthroline skeleton, which is a derivative of phenanthrene, and consists of two pyridine rings non-linearly joined by a benzene ring. AC1LCOOW is a very strong basic compound (based on its pKa). This compound has been identified in human blood as reported by (PMID: 31557052 ). Lycodine is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically Lycodine is part of the human exposome. The exposome can be defined as the collection of all the exposures of an individual in a lifetime and how those exposures relate to health. An individual's exposure begins before birth and includes insults from environmental and occupational sources.

Structure

MOL 3D MOL SDF 3D SDF PDB 3D PDB SMILES InChI

HMDB0254255
     RDKit          3D
Lycodine
 40 43  0  0  0  0  0  0  0  0999 V2000
    3.6010   -0.2544    0.8217 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2711   -0.8356    0.3205 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1020   -0.2717   -1.0694 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7413   -0.4755   -1.6380 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1426    0.8339   -2.0036 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4142    1.5852   -0.8452 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7723    2.8786   -1.0031 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2805    3.6160   -0.0047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4519    3.0468    1.2418 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0930    1.7277    1.4256 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658    0.9811    0.3698 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1911   -0.4329    0.6042 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1923   -0.4208    1.2609 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0887   -1.0761    1.5238 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4204   -1.2261    1.0614 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5928   -1.3519   -0.4062 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3901   -1.7279   -1.1837 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0836   -1.2535   -0.6275 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4594    0.8258    1.0157 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3411   -0.4078   -0.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9475   -0.8103    1.7179 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4473   -1.9446    0.3024 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8567   -0.7897   -1.7132 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4226    0.7940   -1.0457 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7641   -1.1182   -2.5617 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9782    1.4820   -2.4022 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5956    0.7873   -2.8226 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5707    4.6657   -0.1346 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8608    3.6172    2.0706 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2326    1.2936    2.4079 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2210   -1.0929    2.1431 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4428    0.5969    1.6435 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6447   -1.9567    1.8805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8783   -2.0958    1.6195 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0333   -0.3431    1.4109 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3759   -2.1467   -0.5820 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0652   -0.4228   -0.8442 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3803   -2.8425   -1.3734 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4720   -1.2767   -2.1983 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5228   -2.1578   -0.3765 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  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  1  0
 12 14  1  0
 14 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  1  0
 13  2  1  0
 18  4  1  0
 11  6  1  0
 18 12  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  3 23  1  0
  3 24  1  0
  4 25  1  0
  5 26  1  0
  5 27  1  0
  8 28  1  0
  9 29  1  0
 10 30  1  0
 13 31  1  0
 13 32  1  0
 14 33  1  0
 15 34  1  0
 15 35  1  0
 16 36  1  0
 16 37  1  0
 17 38  1  0
 17 39  1  0
 18 40  1  0
M  END


  Mrv1533004241513182D          

 18 21  0  0  0  0            999 V2000
   -1.0983   -0.0445    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4836   -0.0832    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1014   -0.7100    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8870   -0.9617    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6206   -0.5842    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8723    0.2015    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6964    0.1616    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.1429    0.8554    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7653    1.5889    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9413    1.6287    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4948    0.9350    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7091    1.1868    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0244    0.8092    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0708    1.7093    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7010    1.4178    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8344    0.6036    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1960    0.0810    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5758    0.3726    0.0000 C   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  2  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 10 11  2  0  0  0  0
  6 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
  2 13  1  0  0  0  0
 12 14  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
  4 18  1  0  0  0  0
 12 18  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0254255

> <DATABASE_NAME>
hmdb

> <SMILES>
CC1CC2CC3=NC=CC=C3C3(C1)NCCCC23

> <INCHI_IDENTIFIER>
InChI=1S/C16H22N2/c1-11-8-12-9-15-14(5-2-6-17-15)16(10-11)13(12)4-3-7-18-16/h2,5-6,11-13,18H,3-4,7-10H2,1H3

> <INCHI_KEY>
JJPMUZRSJKMFRK-UHFFFAOYSA-N

> <FORMULA>
C16H22N2

> <MOLECULAR_WEIGHT>
242.366

> <EXACT_MASS>
242.178298716

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
40

> <JCHEM_AVERAGE_POLARIZABILITY>
28.146746312455527

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
16-methyl-6,14-diazatetracyclo[7.5.3.0¹,¹⁰.0²,⁷]heptadeca-2,4,6-triene

> <ALOGPS_LOGP>
2.73

> <JCHEM_LOGP>
2.4260510483333326

> <ALOGPS_LOGS>
-4.02

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA_STRONGEST_BASIC>
9.423943242541469

> <JCHEM_POLAR_SURFACE_AREA>
24.92

> <JCHEM_REFRACTIVITY>
72.70530000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.30e-02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
16-methyl-6,14-diazatetracyclo[7.5.3.0¹,¹⁰.0²,⁷]heptadeca-2,4,6-triene

> <JCHEM_VEBER_RULE>
1

$$$$

HMDB0254255
     RDKit          3D
Lycodine
 40 43  0  0  0  0  0  0  0  0999 V2000
    3.6010   -0.2544    0.8217 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2711   -0.8356    0.3205 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1020   -0.2717   -1.0694 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7413   -0.4755   -1.6380 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1426    0.8339   -2.0036 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4142    1.5852   -0.8452 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7723    2.8786   -1.0031 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2805    3.6160   -0.0047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4519    3.0468    1.2418 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0930    1.7277    1.4256 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658    0.9811    0.3698 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1911   -0.4329    0.6042 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1923   -0.4208    1.2609 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0887   -1.0761    1.5238 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4204   -1.2261    1.0614 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5928   -1.3519   -0.4062 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3901   -1.7279   -1.1837 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0836   -1.2535   -0.6275 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4594    0.8258    1.0157 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3411   -0.4078   -0.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9475   -0.8103    1.7179 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4473   -1.9446    0.3024 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8567   -0.7897   -1.7132 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4226    0.7940   -1.0457 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7641   -1.1182   -2.5617 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9782    1.4820   -2.4022 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5956    0.7873   -2.8226 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5707    4.6657   -0.1346 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8608    3.6172    2.0706 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2326    1.2936    2.4079 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2210   -1.0929    2.1431 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4428    0.5969    1.6435 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6447   -1.9567    1.8805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8783   -2.0958    1.6195 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0333   -0.3431    1.4109 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3759   -2.1467   -0.5820 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0652   -0.4228   -0.8442 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3803   -2.8425   -1.3734 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4720   -1.2767   -2.1983 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5228   -2.1578   -0.3765 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  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  1  0
 12 14  1  0
 14 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  1  0
 13  2  1  0
 18  4  1  0
 11  6  1  0
 18 12  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  3 23  1  0
  3 24  1  0
  4 25  1  0
  5 26  1  0
  5 27  1  0
  8 28  1  0
  9 29  1  0
 10 30  1  0
 13 31  1  0
 13 32  1  0
 14 33  1  0
 15 34  1  0
 15 35  1  0
 16 36  1  0
 16 37  1  0
 17 38  1  0
 17 39  1  0
 18 40  1  0
M  END

HEADER    PROTEIN                                 24-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-APR-15         0                                  
HETATM    1  C   UNK     0      -2.050  -0.083   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -0.903  -0.155   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.189  -1.325   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.656  -1.795   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.025  -1.090   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.495   0.376   0.000  0.00  0.00           C+0
HETATM    7  N   UNK     0       5.033   0.302   0.000  0.00  0.00           N+0
HETATM    8  C   UNK     0       5.867   1.597   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.162   2.966   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.624   3.040   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.790   1.745   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.324   2.215   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -0.046   1.511   0.000  0.00  0.00           C+0
HETATM   14  N   UNK     0       0.132   3.191   0.000  0.00  0.00           N+0
HETATM   15  C   UNK     0      -1.309   2.647   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      -1.557   1.127   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      -0.366   0.151   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       1.075   0.696   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   13                                                  
CONECT    3    2    4                                                       
CONECT    4    3    5   18                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7   11                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10    6   12                                                  
CONECT   12   11   13   14   18                                             
CONECT   13   12    2                                                       
CONECT   14   12   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17    4   12                                                  
MASTER        0    0    0    0    0    0    0    0   18    0   42    0
END

COMPND    HMDB0254255
HETATM    1  C1  UNL     1       3.601  -0.254   0.822  1.00  0.00           C  
HETATM    2  C2  UNL     1       2.271  -0.836   0.320  1.00  0.00           C  
HETATM    3  C3  UNL     1       2.102  -0.272  -1.069  1.00  0.00           C  
HETATM    4  C4  UNL     1       0.741  -0.476  -1.638  1.00  0.00           C  
HETATM    5  C5  UNL     1       0.143   0.834  -2.004  1.00  0.00           C  
HETATM    6  C6  UNL     1      -0.414   1.585  -0.845  1.00  0.00           C  
HETATM    7  N1  UNL     1      -0.772   2.879  -1.003  1.00  0.00           N  
HETATM    8  C7  UNL     1      -1.281   3.616  -0.005  1.00  0.00           C  
HETATM    9  C8  UNL     1      -1.452   3.047   1.242  1.00  0.00           C  
HETATM   10  C9  UNL     1      -1.093   1.728   1.426  1.00  0.00           C  
HETATM   11  C10 UNL     1      -0.566   0.981   0.370  1.00  0.00           C  
HETATM   12  C11 UNL     1      -0.191  -0.433   0.604  1.00  0.00           C  
HETATM   13  C12 UNL     1       1.192  -0.421   1.261  1.00  0.00           C  
HETATM   14  N2  UNL     1      -1.089  -1.076   1.524  1.00  0.00           N  
HETATM   15  C13 UNL     1      -2.420  -1.226   1.061  1.00  0.00           C  
HETATM   16  C14 UNL     1      -2.593  -1.352  -0.406  1.00  0.00           C  
HETATM   17  C15 UNL     1      -1.390  -1.728  -1.184  1.00  0.00           C  
HETATM   18  C16 UNL     1      -0.084  -1.253  -0.627  1.00  0.00           C  
HETATM   19  H1  UNL     1       3.459   0.826   1.016  1.00  0.00           H  
HETATM   20  H2  UNL     1       4.341  -0.408  -0.006  1.00  0.00           H  
HETATM   21  H3  UNL     1       3.947  -0.810   1.718  1.00  0.00           H  
HETATM   22  H4  UNL     1       2.447  -1.945   0.302  1.00  0.00           H  
HETATM   23  H5  UNL     1       2.857  -0.790  -1.713  1.00  0.00           H  
HETATM   24  H6  UNL     1       2.423   0.794  -1.046  1.00  0.00           H  
HETATM   25  H7  UNL     1       0.764  -1.118  -2.562  1.00  0.00           H  
HETATM   26  H8  UNL     1       0.978   1.482  -2.402  1.00  0.00           H  
HETATM   27  H9  UNL     1      -0.596   0.787  -2.823  1.00  0.00           H  
HETATM   28  H10 UNL     1      -1.571   4.666  -0.135  1.00  0.00           H  
HETATM   29  H11 UNL     1      -1.861   3.617   2.071  1.00  0.00           H  
HETATM   30  H12 UNL     1      -1.233   1.294   2.408  1.00  0.00           H  
HETATM   31  H13 UNL     1       1.221  -1.093   2.143  1.00  0.00           H  
HETATM   32  H14 UNL     1       1.443   0.597   1.643  1.00  0.00           H  
HETATM   33  H15 UNL     1      -0.645  -1.957   1.881  1.00  0.00           H  
HETATM   34  H16 UNL     1      -2.878  -2.096   1.619  1.00  0.00           H  
HETATM   35  H17 UNL     1      -3.033  -0.343   1.411  1.00  0.00           H  
HETATM   36  H18 UNL     1      -3.376  -2.147  -0.582  1.00  0.00           H  
HETATM   37  H19 UNL     1      -3.065  -0.423  -0.844  1.00  0.00           H  
HETATM   38  H20 UNL     1      -1.380  -2.842  -1.373  1.00  0.00           H  
HETATM   39  H21 UNL     1      -1.472  -1.277  -2.198  1.00  0.00           H  
HETATM   40  H22 UNL     1       0.523  -2.158  -0.376  1.00  0.00           H  
CONECT    1    2   19   20   21
CONECT    2    3   13   22
CONECT    3    4   23   24
CONECT    4    5   18   25
CONECT    5    6   26   27
CONECT    6    7    7   11
CONECT    7    8
CONECT    8    9    9   28
CONECT    9   10   29
CONECT   10   11   11   30
CONECT   11   12
CONECT   12   13   14   18
CONECT   13   31   32
CONECT   14   15   33
CONECT   15   16   34   35
CONECT   16   17   36   37
CONECT   17   18   38   39
CONECT   18   40
END

HMDB0254255
     RDKit          3D
Lycodine
 40 43  0  0  0  0  0  0  0  0999 V2000
    3.6010   -0.2544    0.8217 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2711   -0.8356    0.3205 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1020   -0.2717   -1.0694 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7413   -0.4755   -1.6380 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1426    0.8339   -2.0036 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4142    1.5852   -0.8452 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7723    2.8786   -1.0031 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2805    3.6160   -0.0047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4519    3.0468    1.2418 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0930    1.7277    1.4256 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658    0.9811    0.3698 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1911   -0.4329    0.6042 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1923   -0.4208    1.2609 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0887   -1.0761    1.5238 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4204   -1.2261    1.0614 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5928   -1.3519   -0.4062 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3901   -1.7279   -1.1837 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0836   -1.2535   -0.6275 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4594    0.8258    1.0157 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3411   -0.4078   -0.0063 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9475   -0.8103    1.7179 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4473   -1.9446    0.3024 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8567   -0.7897   -1.7132 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4226    0.7940   -1.0457 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7641   -1.1182   -2.5617 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9782    1.4820   -2.4022 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5956    0.7873   -2.8226 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5707    4.6657   -0.1346 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8608    3.6172    2.0706 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2326    1.2936    2.4079 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2210   -1.0929    2.1431 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4428    0.5969    1.6435 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6447   -1.9567    1.8805 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8783   -2.0958    1.6195 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0333   -0.3431    1.4109 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3759   -2.1467   -0.5820 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0652   -0.4228   -0.8442 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3803   -2.8425   -1.3734 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4720   -1.2767   -2.1983 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5228   -2.1578   -0.3765 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  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  1  0
 12 14  1  0
 14 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  1  0
 13  2  1  0
 18  4  1  0
 11  6  1  0
 18 12  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  2 22  1  0
  3 23  1  0
  3 24  1  0
  4 25  1  0
  5 26  1  0
  5 27  1  0
  8 28  1  0
  9 29  1  0
 10 30  1  0
 13 31  1  0
 13 32  1  0
 14 33  1  0
 15 34  1  0
 15 35  1  0
 16 36  1  0
 16 37  1  0
 17 38  1  0
 17 39  1  0
 18 40  1  0
M  END

View in JSmol View Stereo Labels

Synonyms

Not Available

Chemical Formula

C₁₆H₂₂N₂

Average Molecular Weight

242.366

Monoisotopic Molecular Weight

242.178298716

IUPAC Name

16-methyl-6,14-diazatetracyclo[7.5.3.0¹,¹⁰.0²,⁷]heptadeca-2,4,6-triene

Traditional Name

16-methyl-6,14-diazatetracyclo[7.5.3.0¹,¹⁰.0²,⁷]heptadeca-2,4,6-triene

CAS Registry Number

Not Available

SMILES

CC1CC2CC3=NC=CC=C3C3(C1)NCCCC23

InChI Identifier

InChI=1S/C16H22N2/c1-11-8-12-9-15-14(5-2-6-17-15)16(10-11)13(12)4-3-7-18-16/h2,5-6,11-13,18H,3-4,7-10H2,1H3

InChI Key

JJPMUZRSJKMFRK-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as phenanthrolines. These are aromatic polycyclic compounds containing the phenanthroline skeleton, which is a derivative of phenanthrene, and consists of two pyridine rings non-linearly joined by a benzene ring.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Phenanthrolines

Sub Class

Not Available

Direct Parent

Phenanthrolines

Alternative Parents

Substituents

1,7-phenanthroline
Quinolidine
Aralkylamine
Pyridine
Piperidine
Heteroaromatic compound
Azacycle
Secondary amine
Secondary aliphatic amine
Organic nitrogen compound
Organopnictogen compound
Hydrocarbon derivative
Organonitrogen compound
Amine
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

Not Available

Ontology

Physiological effect

Not Available

Disposition

Biological location

Non-excretory biofluid

Biofluid or Excreta

Blood (PMID: 31557052)

Process

Not Available

Role

Not Available

Physical Properties

State

Not Available

Experimental Molecular 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

Experimental Chromatographic Properties

Not Available

Predicted Molecular Properties

Property	Value	Source
logP	2.73	ALOGPS
logP	2.43	ChemAxon
logS	-4	ALOGPS
pKa (Strongest Basic)	9.42	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	24.92 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	72.71 m³·mol⁻¹	ChemAxon
Polarizability	28.15 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	ChemAxon
MDDR-like Rule	No	ChemAxon

Predicted Chromatographic Properties

Predicted Collision Cross Sections

Predictor	Adduct Type	CCS Value (Å²)	Reference
DeepCCS	[M-2H]-	194.362	30932474
DeepCCS	[M+Na]+	169.569	30932474
AllCCS	[M+H]+	158.4	32859911
AllCCS	[M+H-H2O]+	154.6	32859911
AllCCS	[M+NH4]+	161.9	32859911
AllCCS	[M+Na]+	162.9	32859911
AllCCS	[M-H]-	166.7	32859911
AllCCS	[M+Na-2H]-	166.5	32859911
AllCCS	[M+HCOO]-	166.4	32859911

Predicted Kovats Retention Indices

Underivatized

Metabolite	SMILES	Kovats RI Value	Column Type	Reference
Lycodine	CC1CC2CC3=NC=CC=C3C3(C1)NCCCC23	3027.5	Standard polar	33892256
Lycodine	CC1CC2CC3=NC=CC=C3C3(C1)NCCCC23	2085.9	Standard non polar	33892256
Lycodine	CC1CC2CC3=NC=CC=C3C3(C1)NCCCC23	2073.1	Semi standard non polar	33892256

Derivatized

Derivative Name / Structure	SMILES	Kovats RI Value	Column Type	Reference
Lycodine,1TMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C	2180.4	Semi standard non polar	33892256
Lycodine,1TMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C	2266.3	Standard non polar	33892256
Lycodine,1TMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C	2689.3	Standard polar	33892256
Lycodine,1TBDMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C(C)(C)C	2411.2	Semi standard non polar	33892256
Lycodine,1TBDMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C(C)(C)C	2560.4	Standard non polar	33892256
Lycodine,1TBDMS,isomer #1	CC1CC2CC3=NC=CC=C3C3(C1)C2CCCN3[Si](C)(C)C(C)(C)C	2833.3	Standard polar	33892256

Spectra

GC-MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted GC-MS	Predicted GC-MS Spectrum - Lycodine GC-MS (Non-derivatized) - 70eV, Positive	splash10-0h01-0490000000-db9746e43c6138730590	2021-09-23	Wishart Lab	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - Lycodine GC-MS (Non-derivatized) - 70eV, Positive	Not Available	2021-10-12	Wishart Lab	View Spectrum

MS/MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 10V, Positive-QTOF	splash10-0006-0090000000-3a1bd45de2fa9c6f2632	2021-10-12	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 20V, Positive-QTOF	splash10-0006-0090000000-24aec25a2e58d7775380	2021-10-12	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 40V, Positive-QTOF	splash10-00kf-9400000000-5777350e8673a48913bb	2021-10-12	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 10V, Negative-QTOF	splash10-0006-0090000000-454b5624a32a5989d3b2	2021-10-12	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 20V, Negative-QTOF	splash10-0006-0090000000-454b5624a32a5989d3b2	2021-10-12	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Lycodine 40V, Negative-QTOF	splash10-002p-0390000000-bdf0e89fe443716b6fa7	2021-10-12	Wishart Lab	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Blood

Tissue Locations

Not Available

Pathways

Not Available

Name	SMPDB/PathBank	KEGG

Normal Concentrations

Biospecimen	Status	Value	Age	Sex	Condition	Reference	Details
Blood	Detected but not Quantified	Not Quantified	Not Specified	Not Specified	Normal	31557052	details

Abnormal Concentrations

Not Available

Associated Disorders and Diseases

Disease References

None

Associated OMIM IDs

None

External Links

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

603959

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

VMH ID

Not Available

MarkerDB ID

Not Available

Good Scents ID

Not Available

References

Synthesis Reference

Not Available

Material Safety Data Sheet (MSDS)

Not Available

General References

Barupal DK, Fiehn O: Generating the Blood Exposome Database Using a Comprehensive Text Mining and Database Fusion Approach. Environ Health Perspect. 2019 Sep;127(9):97008. doi: 10.1289/EHP4713. Epub 2019 Sep 26. [PubMed:31557052 ]

Showing metabocard for Lycodine (HMDB0254255)

MOL for HMDB0254255 (Lycodine)

3D MOL for HMDB0254255 (Lycodine)

3D SDF for HMDB0254255 (Lycodine)

3D-SDF for HMDB0254255 (Lycodine)

PDB for HMDB0254255 (Lycodine)

3D PDB for HMDB0254255 (Lycodine)

SMILES for HMDB0254255 (Lycodine)

INCHI for HMDB0254255 (Lycodine)

Structure for HMDB0254255 (Lycodine)

3D Structure for HMDB0254255 (Lycodine)

Predicted Collision Cross Sections

Predicted Kovats Retention Indices

Underivatized

Derivatized

GC-MS Spectra

MS/MS Spectra