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Showing metabocard for Acenaphthene (HMDB0247899)

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Record Information
Version5.0
StatusDetected but not Quantified
Creation Date2021-09-11 01:03:10 UTC
Update Date2021-09-26 22:57:50 UTC
HMDB IDHMDB0247899
Secondary Accession NumbersNone
Metabolite Identification
Common NameAcenaphthene
DescriptionAcenaphthene belongs to the class of organic compounds known as naphthalenes. Naphthalenes are compounds containing a naphthalene moiety, which consists of two fused benzene rings. Based on a literature review a significant number of articles have been published on Acenaphthene. This compound has been identified in human blood as reported by (PMID: 31557052 ). Acenaphthene is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically Acenaphthene 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 HMDB0247899 (Acenaphthene)

  Mrv0541 02241204182D          

 12 14  0  0  0  0            999 V2000
    0.9964    1.1143    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1714    1.1143    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1286    0.2571    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8411   -0.1554    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8411   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1286   -1.3929    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5839   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3018   -1.3929    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0143   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0143   -0.1554    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3018    0.2571    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5839   -0.1554    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  2  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
  1 11  1  0  0  0  0
 11 12  1  0  0  0  0
  3 12  2  0  0  0  0
  7 12  1  0  0  0  0
M  END
Download

3D MOL for HMDB0247899 (Acenaphthene)

HMDB0247899
     RDKit          3D
Acenaphthene
 22 24  0  0  0  0  0  0  0  0999 V2000
   -0.5100    2.6706   -0.0374 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5588    1.7942   -0.0984 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2795    0.4192   -0.0815 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0222    0.0065   -0.0052 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1405   -1.3565    0.0023 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4187   -1.8941    0.0773 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5077   -1.0547    0.1407 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3407    0.3379    0.1304 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0734    0.8761    0.0560 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8150    2.2298    0.0403 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2160   -1.9405   -0.0767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1415   -0.7793   -0.1316 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6349    3.7524   -0.0452 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5679    2.1405   -0.1576 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5734   -2.9562    0.0868 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4769   -1.4879    0.1976 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1854    1.0022    0.1795 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6537    2.9083    0.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3714   -2.4785    0.8822 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3241   -2.6317   -0.9417 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8307   -0.7759    0.7664 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7726   -0.7825   -1.0733 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  5 11  1  0
 11 12  1  0
 10  1  1  0
 12  3  1  0
  9  4  1  0
  1 13  1  0
  2 14  1  0
  6 15  1  0
  7 16  1  0
  8 17  1  0
 10 18  1  0
 11 19  1  0
 11 20  1  0
 12 21  1  0
 12 22  1  0
M  END
Download

3D SDF for HMDB0247899 (Acenaphthene)

  Mrv0541 02241204182D          

 12 14  0  0  0  0            999 V2000
    0.9964    1.1143    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1714    1.1143    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1286    0.2571    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8411   -0.1554    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8411   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1286   -1.3929    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5839   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3018   -1.3929    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0143   -0.9804    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0143   -0.1554    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3018    0.2571    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5839   -0.1554    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  2  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
  1 11  1  0  0  0  0
 11 12  1  0  0  0  0
  3 12  2  0  0  0  0
  7 12  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0247899

> <DATABASE_NAME>
hmdb

> <SMILES>
C1CC2=C3C1=CC=CC3=CC=C2

> <INCHI_IDENTIFIER>
InChI=1S/C12H10/c1-3-9-4-2-6-11-8-7-10(5-1)12(9)11/h1-6H,7-8H2

> <INCHI_KEY>
CWRYPZZKDGJXCA-UHFFFAOYSA-N

> <FORMULA>
C12H10

> <MOLECULAR_WEIGHT>
154.2078

> <EXACT_MASS>
154.07825032

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_AVERAGE_POLARIZABILITY>
17.811549808251538

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
1,2-dihydroacenaphthylene

> <ALOGPS_LOGP>
4.01

> <JCHEM_LOGP>
3.525839448666666

> <ALOGPS_LOGS>
-4.50

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_POLAR_SURFACE_AREA>
0

> <JCHEM_REFRACTIVITY>
50.78840000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.89e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
acenaphthene

> <JCHEM_VEBER_RULE>
1

$$$$
Download

3D-SDF for HMDB0247899 (Acenaphthene)

HMDB0247899
     RDKit          3D
Acenaphthene
 22 24  0  0  0  0  0  0  0  0999 V2000
   -0.5100    2.6706   -0.0374 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5588    1.7942   -0.0984 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2795    0.4192   -0.0815 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0222    0.0065   -0.0052 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1405   -1.3565    0.0023 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4187   -1.8941    0.0773 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5077   -1.0547    0.1407 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3407    0.3379    0.1304 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0734    0.8761    0.0560 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8150    2.2298    0.0403 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2160   -1.9405   -0.0767 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1415   -0.7793   -0.1316 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6349    3.7524   -0.0452 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5679    2.1405   -0.1576 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5734   -2.9562    0.0868 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4769   -1.4879    0.1976 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1854    1.0022    0.1795 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6537    2.9083    0.0891 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3714   -2.4785    0.8822 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3241   -2.6317   -0.9417 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8307   -0.7759    0.7664 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7726   -0.7825   -1.0733 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  6  7  1  0
  7  8  2  0
  8  9  1  0
  9 10  2  0
  5 11  1  0
 11 12  1  0
 10  1  1  0
 12  3  1  0
  9  4  1  0
  1 13  1  0
  2 14  1  0
  6 15  1  0
  7 16  1  0
  8 17  1  0
 10 18  1  0
 11 19  1  0
 11 20  1  0
 12 21  1  0
 12 22  1  0
M  END
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PDB for HMDB0247899 (Acenaphthene)

HEADER    PROTEIN                                 24-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-FEB-12         0                                  
HETATM    1  C   UNK     0       1.860   2.080   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.320   2.080   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -0.240   0.480   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -1.570  -0.290   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.570  -1.830   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -0.240  -2.600   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.090  -1.830   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       2.430  -2.600   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       3.760  -1.830   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.760  -0.290   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.430   0.480   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.090  -0.290   0.000  0.00  0.00           C+0
CONECT    1    2   11                                                       
CONECT    2    1    3                                                       
CONECT    3    2    4   12                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8   12                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10    1   12                                                  
CONECT   12   11    3    7                                                  
MASTER        0    0    0    0    0    0    0    0   12    0   28    0
END
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3D PDB for HMDB0247899 (Acenaphthene)

COMPND    HMDB0247899
HETATM    1  C1  UNL     1      -0.510   2.671  -0.037  1.00  0.00           C  
HETATM    2  C2  UNL     1      -1.559   1.794  -0.098  1.00  0.00           C  
HETATM    3  C3  UNL     1      -1.280   0.419  -0.082  1.00  0.00           C  
HETATM    4  C4  UNL     1       0.022   0.006  -0.005  1.00  0.00           C  
HETATM    5  C5  UNL     1       0.141  -1.356   0.002  1.00  0.00           C  
HETATM    6  C6  UNL     1       1.419  -1.894   0.077  1.00  0.00           C  
HETATM    7  C7  UNL     1       2.508  -1.055   0.141  1.00  0.00           C  
HETATM    8  C8  UNL     1       2.341   0.338   0.130  1.00  0.00           C  
HETATM    9  C9  UNL     1       1.073   0.876   0.056  1.00  0.00           C  
HETATM   10  C10 UNL     1       0.815   2.230   0.040  1.00  0.00           C  
HETATM   11  C11 UNL     1      -1.216  -1.940  -0.077  1.00  0.00           C  
HETATM   12  C12 UNL     1      -2.142  -0.779  -0.132  1.00  0.00           C  
HETATM   13  H1  UNL     1      -0.635   3.752  -0.045  1.00  0.00           H  
HETATM   14  H2  UNL     1      -2.568   2.140  -0.158  1.00  0.00           H  
HETATM   15  H3  UNL     1       1.573  -2.956   0.087  1.00  0.00           H  
HETATM   16  H4  UNL     1       3.477  -1.488   0.198  1.00  0.00           H  
HETATM   17  H5  UNL     1       3.185   1.002   0.180  1.00  0.00           H  
HETATM   18  H6  UNL     1       1.654   2.908   0.089  1.00  0.00           H  
HETATM   19  H7  UNL     1      -1.371  -2.479   0.882  1.00  0.00           H  
HETATM   20  H8  UNL     1      -1.324  -2.632  -0.942  1.00  0.00           H  
HETATM   21  H9  UNL     1      -2.831  -0.776   0.766  1.00  0.00           H  
HETATM   22  H10 UNL     1      -2.773  -0.783  -1.073  1.00  0.00           H  
CONECT    1    2    2   10   13
CONECT    2    3   14
CONECT    3    4    4   12
CONECT    4    5    9
CONECT    5    6    6   11
CONECT    6    7   15
CONECT    7    8    8   16
CONECT    8    9   17
CONECT    9   10   10
CONECT   10   18
CONECT   11   12   19   20
CONECT   12   21   22
END
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SMILES for HMDB0247899 (Acenaphthene)

C1CC2=C3C1=CC=CC3=CC=C2
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INCHI for HMDB0247899 (Acenaphthene)

InChI=1S/C12H10/c1-3-9-4-2-6-11-8-7-10(5-1)12(9)11/h1-6H,7-8H2
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View in JSmolView Stereo Labels
Synonyms
ValueSource
Peri-ethylenenaphthaleneChEBI
Chemical FormulaC12H10
Average Molecular Weight154.2078
Monoisotopic Molecular Weight154.07825032
IUPAC Name1,2-dihydroacenaphthylene
Traditional Nameacenaphthene
CAS Registry NumberNot Available
SMILES
C1CC2=C3C1=CC=CC3=CC=C2
InChI Identifier
InChI=1S/C12H10/c1-3-9-4-2-6-11-8-7-10(5-1)12(9)11/h1-6H,7-8H2
InChI KeyCWRYPZZKDGJXCA-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as naphthalenes. Naphthalenes are compounds containing a naphthalene moiety, which consists of two fused benzene rings.
KingdomOrganic compounds
Super ClassBenzenoids
ClassNaphthalenes
Sub ClassNot Available
Direct ParentNaphthalenes
Alternative Parents
Substituents
  • Naphthalene
  • Aromatic hydrocarbon
  • Polycyclic hydrocarbon
  • Unsaturated hydrocarbon
  • Hydrocarbon
  • Aromatic homopolycyclic compound
Molecular FrameworkAromatic homopolycyclic 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
PropertyValueSource
logP4.01ALOGPS
logP3.53ChemAxon
logS-4.5ALOGPS
Physiological Charge0ChemAxon
Hydrogen Acceptor Count0ChemAxon
Hydrogen Donor Count0ChemAxon
Polar Surface Area0 ŲChemAxon
Rotatable Bond Count0ChemAxon
Refractivity50.79 m³·mol⁻¹ChemAxon
Polarizability17.81 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleNoChemAxon
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 ID6478
KEGG Compound IDC19312
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkAcenaphthene
METLIN IDNot Available
PubChem Compound6734
PDB IDNot Available
ChEBI ID22154
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
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 ]