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Showing metabocard for Benzene-1,2,3-tricarboxylic acid (HMDB0248978)

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Record Information
Version5.0
StatusDetected but not Quantified
Creation Date2021-09-11 03:26:31 UTC
Update Date2021-09-26 22:59:34 UTC
HMDB IDHMDB0248978
Secondary Accession NumbersNone
Metabolite Identification
Common NameBenzene-1,2,3-tricarboxylic acid
DescriptionBenzene-1,2,3-tricarboxylic acid, also known as 1,2,3-benzenetricarboxylate, belongs to the class of organic compounds known as tricarboxylic acids and derivatives. These are carboxylic acids containing exactly three carboxyl groups. Based on a literature review a significant number of articles have been published on Benzene-1,2,3-tricarboxylic acid. This compound has been identified in human blood as reported by (PMID: 31557052 ). Benzene-1,2,3-tricarboxylic acid is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically Benzene-1,2,3-tricarboxylic acid 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 HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

  Mrv1533004231517562D          

 15 15  0  0  0  0            999 V2000
    1.4289    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    2.0625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  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  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
  8 12  2  0  0  0  0
  4 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
M  END
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3D MOL for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

HMDB0248978
     RDKit          3D
Benzene-1,2,3-tricarboxylic acid
 21 21  0  0  0  0  0  0  0  0999 V2000
    2.0486   -2.0232    0.3400 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2466   -0.7997    0.2339 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5248   -0.3037    0.2265 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1242    0.1068    0.1176 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3599    1.4751   -0.0006 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3430    2.3956   -0.1151 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9446    1.9044   -0.1083 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2053    0.5586    0.0071 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5772    0.0646    0.0116 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5095    0.9000   -0.0926 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8719   -1.2867    0.1266 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1913   -0.3533    0.1207 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3811   -1.7785    0.2455 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4964   -2.3048    1.3793 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4432   -2.6127   -0.8585 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0030    0.1207   -0.5329 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3865    1.8565   -0.0051 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5379    3.4626   -0.2069 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7731    2.6211   -0.1985 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1421   -1.6239    1.0637 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0384   -2.3796   -1.7540 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
  8 12  2  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 12  4  1  0
  3 16  1  0
  5 17  1  0
  6 18  1  0
  7 19  1  0
 11 20  1  0
 15 21  1  0
M  END
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3D SDF for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

  Mrv1533004231517562D          

 15 15  0  0  0  0            999 V2000
    1.4289    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145   -1.2375    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7145    2.0625    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4289    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  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  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
  8 12  2  0  0  0  0
  4 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0248978

> <DATABASE_NAME>
hmdb

> <SMILES>
OC(=O)C1=CC=CC(C(O)=O)=C1C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C9H6O6/c10-7(11)4-2-1-3-5(8(12)13)6(4)9(14)15/h1-3H,(H,10,11)(H,12,13)(H,14,15)

> <INCHI_KEY>
UJMDYLWCYJJYMO-UHFFFAOYSA-N

> <FORMULA>
C9H6O6

> <MOLECULAR_WEIGHT>
210.141

> <EXACT_MASS>
210.016437913

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
21

> <JCHEM_AVERAGE_POLARIZABILITY>
17.941847027988644

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
benzene-1,2,3-tricarboxylic acid

> <ALOGPS_LOGP>
0.84

> <JCHEM_LOGP>
0.9459945399999998

> <ALOGPS_LOGS>
-2.40

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-3

> <JCHEM_PKA>
3.9857137260514097

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.2311929408106335

> <JCHEM_POLAR_SURFACE_AREA>
111.89999999999999

> <JCHEM_REFRACTIVITY>
47.826600000000006

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.41e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
hemimellitic acid

> <JCHEM_VEBER_RULE>
0

$$$$
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3D-SDF for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

HMDB0248978
     RDKit          3D
Benzene-1,2,3-tricarboxylic acid
 21 21  0  0  0  0  0  0  0  0999 V2000
    2.0486   -2.0232    0.3400 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2466   -0.7997    0.2339 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5248   -0.3037    0.2265 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1242    0.1068    0.1176 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3599    1.4751   -0.0006 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3430    2.3956   -0.1151 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9446    1.9044   -0.1083 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2053    0.5586    0.0071 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5772    0.0646    0.0116 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5095    0.9000   -0.0926 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8719   -1.2867    0.1266 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1913   -0.3533    0.1207 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3811   -1.7785    0.2455 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4964   -2.3048    1.3793 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4432   -2.6127   -0.8585 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0030    0.1207   -0.5329 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3865    1.8565   -0.0051 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5379    3.4626   -0.2069 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7731    2.6211   -0.1985 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1421   -1.6239    1.0637 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0384   -2.3796   -1.7540 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  1  0
  9 10  2  0
  9 11  1  0
  8 12  2  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 12  4  1  0
  3 16  1  0
  5 17  1  0
  6 18  1  0
  7 19  1  0
 11 20  1  0
 15 21  1  0
M  END
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PDB for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

HEADER    PROTEIN                                 23-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-APR-15         0                                  
HETATM    1  O   UNK     0       2.667   4.620   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       0.000   4.620   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.667  -0.000   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       1.334  -0.770   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -1.334  -0.770   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      -1.334  -2.310   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0      -2.667   0.000   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.334   2.310   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0      -1.334   3.850   0.000  0.00  0.00           O+0
HETATM   15  O   UNK     0      -2.667   1.540   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5   12                                                  
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9   12                                                  
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9                                                            
CONECT   12    8    4   13                                                  
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13                                                            
MASTER        0    0    0    0    0    0    0    0   15    0   30    0
END
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3D PDB for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

COMPND    HMDB0248978
HETATM    1  O1  UNL     1       2.049  -2.023   0.340  1.00  0.00           O  
HETATM    2  C1  UNL     1       2.247  -0.800   0.234  1.00  0.00           C  
HETATM    3  O2  UNL     1       3.525  -0.304   0.226  1.00  0.00           O  
HETATM    4  C2  UNL     1       1.124   0.107   0.118  1.00  0.00           C  
HETATM    5  C3  UNL     1       1.360   1.475  -0.001  1.00  0.00           C  
HETATM    6  C4  UNL     1       0.343   2.396  -0.115  1.00  0.00           C  
HETATM    7  C5  UNL     1      -0.945   1.904  -0.108  1.00  0.00           C  
HETATM    8  C6  UNL     1      -1.205   0.559   0.007  1.00  0.00           C  
HETATM    9  C7  UNL     1      -2.577   0.065   0.012  1.00  0.00           C  
HETATM   10  O3  UNL     1      -3.510   0.900  -0.093  1.00  0.00           O  
HETATM   11  O4  UNL     1      -2.872  -1.287   0.127  1.00  0.00           O  
HETATM   12  C8  UNL     1      -0.191  -0.353   0.121  1.00  0.00           C  
HETATM   13  C9  UNL     1      -0.381  -1.778   0.245  1.00  0.00           C  
HETATM   14  O5  UNL     1      -0.496  -2.305   1.379  1.00  0.00           O  
HETATM   15  O6  UNL     1      -0.443  -2.613  -0.858  1.00  0.00           O  
HETATM   16  H1  UNL     1       4.003   0.121  -0.533  1.00  0.00           H  
HETATM   17  H2  UNL     1       2.386   1.857  -0.005  1.00  0.00           H  
HETATM   18  H3  UNL     1       0.538   3.463  -0.207  1.00  0.00           H  
HETATM   19  H4  UNL     1      -1.773   2.621  -0.199  1.00  0.00           H  
HETATM   20  H5  UNL     1      -3.142  -1.624   1.064  1.00  0.00           H  
HETATM   21  H6  UNL     1      -0.038  -2.380  -1.754  1.00  0.00           H  
CONECT    1    2    2
CONECT    2    3    4
CONECT    3   16
CONECT    4    5    5   12
CONECT    5    6   17
CONECT    6    7    7   18
CONECT    7    8   19
CONECT    8    9   12   12
CONECT    9   10   10   11
CONECT   11   20
CONECT   12   13
CONECT   13   14   14   15
CONECT   15   21
END
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SMILES for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

OC(=O)C1=CC=CC(C(O)=O)=C1C(O)=O
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INCHI for HMDB0248978 (Benzene-1,2,3-tricarboxylic acid)

InChI=1S/C9H6O6/c10-7(11)4-2-1-3-5(8(12)13)6(4)9(14)15/h1-3H,(H,10,11)(H,12,13)(H,14,15)
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View in JSmolView Stereo Labels
Synonyms
ValueSource
Benzene-1,2,3-tricarboxylateGenerator
1,2,3-BenzenetricarboxylateMeSH
1,2,3-BenzyltricarboxylateMeSH
Benzene 1,2,3-tricarboxylic acidMeSH
Benzene 1,2,3-tricarboxylic acid, copper saltMeSH
Benzene-123-tricarboxylatehemimellitic acidChEMBL
Benzene-123-tricarboxylatehemimellitateGenerator
Chemical FormulaC9H6O6
Average Molecular Weight210.141
Monoisotopic Molecular Weight210.016437913
IUPAC Namebenzene-1,2,3-tricarboxylic acid
Traditional Namehemimellitic acid
CAS Registry NumberNot Available
SMILES
OC(=O)C1=CC=CC(C(O)=O)=C1C(O)=O
InChI Identifier
InChI=1S/C9H6O6/c10-7(11)4-2-1-3-5(8(12)13)6(4)9(14)15/h1-3H,(H,10,11)(H,12,13)(H,14,15)
InChI KeyUJMDYLWCYJJYMO-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as tricarboxylic acids and derivatives. These are carboxylic acids containing exactly three carboxyl groups.
KingdomOrganic compounds
Super ClassOrganic acids and derivatives
ClassCarboxylic acids and derivatives
Sub ClassTricarboxylic acids and derivatives
Direct ParentTricarboxylic acids and derivatives
Alternative Parents
Substituents
  • Tricarboxylic acid or derivatives
  • Benzoic acid
  • Benzoic acid or derivatives
  • Benzoyl
  • Benzenoid
  • Monocyclic benzene moiety
  • Carboxylic acid
  • Organic oxygen compound
  • Organic oxide
  • Hydrocarbon derivative
  • Organooxygen compound
  • Aromatic homomonocyclic compound
Molecular FrameworkAromatic homomonocyclic compounds
External DescriptorsNot Available
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 ID10814
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound11288
PDB IDNot Available
ChEBI IDNot Available
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 ]