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Showing metabocard for 1-Methylimidazole (HMDB0243940)

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Record Information
Version5.0
StatusDetected but not Quantified
Creation Date2021-09-10 21:09:03 UTC
Update Date2021-09-26 22:51:19 UTC
HMDB IDHMDB0243940
Secondary Accession NumbersNone
Metabolite Identification
Common Name1-Methylimidazole
Description1-methyl-1H-imidazole belongs to the class of organic compounds known as n-substituted imidazoles. These are heterocyclic compounds containing an imidazole ring substituted at position 1. Based on a literature review a significant number of articles have been published on 1-methyl-1H-imidazole. This compound has been identified in human blood as reported by (PMID: 31557052 ). 1-methylimidazole is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically 1-Methylimidazole 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
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MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0243940 (1-Methylimidazole)

  Mrv1652304272018222D          

  6  6  0  0  0  0            999 V2000
   -1.2352    0.8974    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7018    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2169    0.6674    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5678   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2169   -0.6674    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5678    0.4125    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
  1  6  1  0  0  0  0
  2  3  2  0  0  0  0
  2  5  1  0  0  0  0
  3  6  1  0  0  0  0
  4  5  2  0  0  0  0
  4  6  1  0  0  0  0
M  END
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3D MOL for HMDB0243940 (1-Methylimidazole)

HMDB0243940
     RDKit          3D
1-Methylimidazole
 12 12  0  0  0  0  0  0  0  0999 V2000
   -1.6628   -0.2118    0.0225 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2425    0.1267    0.0145 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.7134   -0.8187   -0.0658 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9404   -0.1656   -0.0497 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6784    1.1513    0.0398 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.3452    1.3221    0.0785 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7974   -0.9876   -0.7636 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3025    0.6502   -0.1888 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8851   -0.7070    0.9985 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5644   -1.9072   -0.1321 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8684   -0.7000   -0.1031 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2199    2.2477    0.1493 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  2  1  0
  1  7  1  0
  1  8  1  0
  1  9  1  0
  3 10  1  0
  4 11  1  0
  6 12  1  0
M  END
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3D SDF for HMDB0243940 (1-Methylimidazole)

  Mrv1652304272018222D          

  6  6  0  0  0  0            999 V2000
   -1.2352    0.8974    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7018    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2169    0.6674    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5678   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2169   -0.6674    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5678    0.4125    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
  1  6  1  0  0  0  0
  2  3  2  0  0  0  0
  2  5  1  0  0  0  0
  3  6  1  0  0  0  0
  4  5  2  0  0  0  0
  4  6  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0243940

> <DATABASE_NAME>
hmdb

> <SMILES>
CN1C=CN=C1

> <INCHI_IDENTIFIER>
InChI=1S/C4H6N2/c1-6-3-2-5-4-6/h2-4H,1H3

> <INCHI_KEY>
MCTWTZJPVLRJOU-UHFFFAOYSA-N

> <FORMULA>
C4H6N2

> <MOLECULAR_WEIGHT>
82.106

> <EXACT_MASS>
82.053098201

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
12

> <JCHEM_AVERAGE_POLARIZABILITY>
8.590372119588176

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
1-methyl-1H-imidazole

> <ALOGPS_LOGP>
-0.18

> <JCHEM_LOGP>
0.07845185866666653

> <ALOGPS_LOGS>
-1.23

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA_STRONGEST_BASIC>
6.817722029546911

> <JCHEM_POLAR_SURFACE_AREA>
17.82

> <JCHEM_REFRACTIVITY>
23.909499999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.82e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
1-methylimidazole

> <JCHEM_VEBER_RULE>
1

$$$$
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3D-SDF for HMDB0243940 (1-Methylimidazole)

HMDB0243940
     RDKit          3D
1-Methylimidazole
 12 12  0  0  0  0  0  0  0  0999 V2000
   -1.6628   -0.2118    0.0225 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2425    0.1267    0.0145 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.7134   -0.8187   -0.0658 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9404   -0.1656   -0.0497 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6784    1.1513    0.0398 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.3452    1.3221    0.0785 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7974   -0.9876   -0.7636 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3025    0.6502   -0.1888 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8851   -0.7070    0.9985 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5644   -1.9072   -0.1321 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8684   -0.7000   -0.1031 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2199    2.2477    0.1493 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  2  1  0
  1  7  1  0
  1  8  1  0
  1  9  1  0
  3 10  1  0
  4 11  1  0
  6 12  1  0
M  END
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PDB for HMDB0243940 (1-Methylimidazole)

HEADER    PROTEIN                                 27-APR-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   27-APR-20         0                                  
HETATM    1  C   UNK     0      -2.306   1.675   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.310   0.000   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.405   1.246   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -1.060  -0.770   0.000  0.00  0.00           C+0
HETATM    5  N   UNK     0       0.405  -1.246   0.000  0.00  0.00           N+0
HETATM    6  N   UNK     0      -1.060   0.770   0.000  0.00  0.00           N+0
CONECT    1    6                                                            
CONECT    2    3    5                                                       
CONECT    3    2    6                                                       
CONECT    4    5    6                                                       
CONECT    5    2    4                                                       
CONECT    6    1    3    4                                                  
MASTER        0    0    0    0    0    0    0    0    6    0   12    0
END
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3D PDB for HMDB0243940 (1-Methylimidazole)

COMPND    HMDB0243940
HETATM    1  C1  UNL     1      -1.663  -0.212   0.022  1.00  0.00           C  
HETATM    2  N1  UNL     1      -0.243   0.127   0.014  1.00  0.00           N  
HETATM    3  C2  UNL     1       0.713  -0.819  -0.066  1.00  0.00           C  
HETATM    4  C3  UNL     1       1.940  -0.166  -0.050  1.00  0.00           C  
HETATM    5  N2  UNL     1       1.678   1.151   0.040  1.00  0.00           N  
HETATM    6  C4  UNL     1       0.345   1.322   0.079  1.00  0.00           C  
HETATM    7  H1  UNL     1      -1.797  -0.988  -0.764  1.00  0.00           H  
HETATM    8  H2  UNL     1      -2.302   0.650  -0.189  1.00  0.00           H  
HETATM    9  H3  UNL     1      -1.885  -0.707   0.998  1.00  0.00           H  
HETATM   10  H4  UNL     1       0.564  -1.907  -0.132  1.00  0.00           H  
HETATM   11  H5  UNL     1       2.868  -0.700  -0.103  1.00  0.00           H  
HETATM   12  H6  UNL     1      -0.220   2.248   0.149  1.00  0.00           H  
CONECT    1    2    7    8    9
CONECT    2    3    6
CONECT    3    4    4   10
CONECT    4    5   11
CONECT    5    6    6
CONECT    6   12
END
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SMILES for HMDB0243940 (1-Methylimidazole)

CN1C=CN=C1
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INCHI for HMDB0243940 (1-Methylimidazole)

InChI=1S/C4H6N2/c1-6-3-2-5-4-6/h2-4H,1H3
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View in JSmolView NMR AssignmentsView Stereo Labels
Synonyms
ValueSource
1-MethylimidazoleChEBI
N-MethylimidazoleChEBI
1-Methylimidazolium ethanoateMeSH
1-Methylimidazolium hydrogen sulfateMeSH
Chemical FormulaC4H6N2
Average Molecular Weight82.106
Monoisotopic Molecular Weight82.053098201
IUPAC Name1-methyl-1H-imidazole
Traditional Name1-methylimidazole
CAS Registry NumberNot Available
SMILES
CN1C=CN=C1
InChI Identifier
InChI=1S/C4H6N2/c1-6-3-2-5-4-6/h2-4H,1H3
InChI KeyMCTWTZJPVLRJOU-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as n-substituted imidazoles. These are heterocyclic compounds containing an imidazole ring substituted at position 1.
KingdomOrganic compounds
Super ClassOrganoheterocyclic compounds
ClassAzoles
Sub ClassImidazoles
Direct ParentN-substituted imidazoles
Alternative Parents
Substituents
  • N-substituted imidazole
  • Heteroaromatic compound
  • Azacycle
  • Organic nitrogen compound
  • Organopnictogen compound
  • Hydrocarbon derivative
  • Organonitrogen compound
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic 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 PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
Predicted Chromatographic Properties
Spectra
Biological Properties
Cellular LocationsNot Available
Biospecimen Locations
  • Blood
Tissue LocationsNot Available
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected but not QuantifiedNot QuantifiedNot SpecifiedNot SpecifiedNormal details
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID1348
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem CompoundNot Available
PDB IDNot Available
ChEBI ID113454
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDrw1155391
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. 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 ]