MiMeDB: Showing metabocard for Stipitatic acid (MMDBc0020459)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-15 10:34:14 UTC

Update Date

2025-10-07 16:07:06 UTC

Metabolite ID

MMDBc0020459

Metabolite Identification

Common Name

Stipitatic acid

Description

Stipitatic acid is a tropolone, a class of chemical compounds known for their diverse biological activities and structural complexity. Its chemical structure features a bicyclic framework that includes a hydroxyl group and a carbonyl moiety, contributing to its reactivity and potential interactions with biological systems. Stipitatic acid is synthesized through a bacterial biosynthetic pathway that diverges from the more commonly studied fungal routes, highlighting the metabolic versatility of organisms like Talaromyces stipitatus (Penicillium stipitatum), where a gene cluster for its biosynthesis has been identified (PMID:22508998 ). The biosynthetic process involves a hydrolase-catalyzed interconversion of maleic anhydride and subsequent decarboxylation, leading to the formation of stipitatic acid (PMID:24863423 ). In addition to its biosynthetic pathways, studies have shown that stipitatic acid production can be influenced by environmental factors, such as phosphate limitation, which affects the kinetics of its synthesis alongside gluconic acid in continuous cultures (PMID:18551677 ). Overall, stipitatic acid exemplifies the intricate interplay between chemical structure and biological synthesis in natural product chemistry (PMID:40838432 ).

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305152112342D          

 13 13  0  0  0  0            999 V2000
    1.5999    1.0053    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1133    1.0053    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2691   -0.4441    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8566    1.3632    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7834    0.2009    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0703    0.2009    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4441   -0.4441    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8566    2.1882    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5878    0.0174    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8746    0.0174    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0861   -1.1874    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1421    2.6007    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5710    2.6007    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  4  1  2  0  0  0  0
  4  2  1  0  0  0  0
  5  1  1  0  0  0  0
  5  3  1  0  0  0  0
  6  2  2  0  0  0  0
  7  3  2  0  0  0  0
  7  6  1  0  0  0  0
  8  4  1  0  0  0  0
  9  5  2  0  0  0  0
 10  6  1  0  0  0  0
 11  7  1  0  0  0  0
 12  8  2  0  0  0  0
 13  8  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0020459

> <DATABASE_NAME>
MIME

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

> <INCHI_IDENTIFIER>
InChI=1S/C8H6O5/c9-5-1-4(8(12)13)2-6(10)7(11)3-5/h1-3,10-11H,(H,12,13)

> <INCHI_KEY>
ZGKNMKBZOSTFCB-UHFFFAOYSA-N

> <FORMULA>
C8H6O5

> <MOLECULAR_WEIGHT>
182.131

> <EXACT_MASS>
182.021523293

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
19

> <JCHEM_AVERAGE_POLARIZABILITY>
15.982496540236639

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
5,6-dihydroxy-3-oxocyclohepta-1,4,6-triene-1-carboxylic acid

> <ALOGPS_LOGP>
-0.52

> <JCHEM_LOGP>
-1.1096083667731924

> <ALOGPS_LOGS>
-2.05

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
8.43175821103297

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.6465907216519815

> <JCHEM_PKA_STRONGEST_BASIC>
4.018990893484407

> <JCHEM_POLAR_SURFACE_AREA>
94.83

> <JCHEM_REFRACTIVITY>
45.9354

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.61e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
5,6-dihydroxy-3-oxocyclohepta-1,4,6-triene-1-carboxylic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-MAY-21         0                                  
HETATM    1  C   UNK     0       2.986   1.876   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.211   1.876   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       2.369  -0.829   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.599   2.545   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.329   0.375   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -0.131   0.375   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.829  -0.829   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       1.599   4.085   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       4.830   0.032   0.000  0.00  0.00           O+0
HETATM   10  O   UNK     0      -1.633   0.032   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0       0.161  -2.216   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0       0.265   4.855   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0       2.933   4.855   0.000  0.00  0.00           O+0
CONECT    1    4    5                                                       
CONECT    2    4    6                                                       
CONECT    3    5    7                                                       
CONECT    4    1    2    8                                                  
CONECT    5    1    3    9                                                  
CONECT    6    2    7   10                                                  
CONECT    7    3    6   11                                                  
CONECT    8    4   12   13                                                  
CONECT    9    5                                                            
CONECT   10    6                                                            
CONECT   11    7                                                            
CONECT   12    8                                                            
CONECT   13    8                                                            
MASTER        0    0    0    0    0    0    0    0   13    0   26    0
END

Synonyms

Value	Source
Stipitatate	Generator

Molecular Formula

C₈H₆O₅

Average Mass

182.131

Monoisotopic Mass

182.021523293

IUPAC Name

5,6-dihydroxy-3-oxocyclohepta-1,4,6-triene-1-carboxylic acid

Traditional Name

5,6-dihydroxy-3-oxocyclohepta-1,4,6-triene-1-carboxylic acid

CAS Registry Number

Not Available

SMILES

OC(=O)C1=CC(=O)C=C(O)C(O)=C1

InChI Identifier

InChI=1S/C8H6O5/c9-5-1-4(8(12)13)2-6(10)7(11)3-5/h1-3,10-11H,(H,12,13)

InChI Key

ZGKNMKBZOSTFCB-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as tropones. Tropones are compounds containing a tropone ring, which is a cycloheptatrienone ring bearing a ketone group.

Kingdom

Organic compounds

Super Class

Hydrocarbon derivatives

Class

Tropones

Sub Class

Not Available

Direct Parent

Tropones

Alternative Parents

Substituents

Tropone
Vinylogous acid
Cyclic ketone
Monocarboxylic acid or derivatives
Carboxylic acid
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Organooxygen compound
Aromatic homomonocyclic compound

Molecular Framework

Aromatic homomonocyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	1.61 g/L	ALOGPS
logP	-0.52	ALOGPS
logP	-1.1	ChemAxon
logS	-2	ALOGPS
pKa (Strongest Acidic)	2.65	ChemAxon
pKa (Strongest Basic)	4.02	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	94.83 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	45.94 m³·mol⁻¹	ChemAxon
Polarizability	15.98 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (TMS_1_1) - 70eV, Positive	Not Available	2022-08-08	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	Not Available	2022-08-10	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum

Chromatographic Retention Times and Retention Indices

Retention Times

Chromatography Type	Technique	Column	Deposition Date	Retention Time (s)
Liquid Chromatography	HILIC	Waters Acquity UPLC-BEH Amide column (eluted)	2025-10-23	58.8
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-23	44.5
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (eluted)	2025-10-23	327.5
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-23	537.3
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-23	348.3
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (void)	2025-10-23	341.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	1566.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	116.8
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-23	755.8
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	227.3
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	196.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	222.2
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	82.2
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	247.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	725.6
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	90.5
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	287.5
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-23	1116.0
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-23	737.3

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	Stipitatic acid_TMS_1	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O)C(O)=C1	standard non polar	2025-10-23	2107.93
Gas Chromatography	Stipitatic acid_TMS_2	C[Si](C)(C)OC1=CC(=O)C=C(C(=O)O)C=C1O	standard non polar	2025-10-23	1620.78
Gas Chromatography	Stipitatic acid_TMS_3	C[Si](C)(C)OC1=CC(C(=O)O)=CC(=O)C=C1O	standard non polar	2025-10-23	1911.7
Gas Chromatography	Stipitatic acid_TMS_4	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O)C(O[Si](C)(C)C)=C1	standard non polar	2025-10-23	1894.0
Gas Chromatography	Stipitatic acid_TMS_5	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O[Si](C)(C)C)C(O)=C1	standard non polar	2025-10-23	1837.66
Gas Chromatography	Stipitatic acid_TMS_6	C[Si](C)(C)OC1=CC(C(=O)O)=CC(=O)C=C1O[Si](C)(C)C	standard non polar	2025-10-23	2030.5
Gas Chromatography	Stipitatic acid_TMS_7	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O[Si](C)(C)C)C(O[Si](C)(C)C)=C1	standard non polar	2025-10-23	1898.26
Gas Chromatography	Stipitatic acid_TMS_1	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O)C(O)=C1	standard polar	2025-10-23	2015.76
Gas Chromatography	Stipitatic acid_TMS_2	C[Si](C)(C)OC1=CC(=O)C=C(C(=O)O)C=C1O	standard polar	2025-10-23	2218.98
Gas Chromatography	Stipitatic acid_TMS_3	C[Si](C)(C)OC1=CC(C(=O)O)=CC(=O)C=C1O	standard polar	2025-10-23	2023.07
Gas Chromatography	Stipitatic acid_TMS_4	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O)C(O[Si](C)(C)C)=C1	standard polar	2025-10-23	2456.78
Gas Chromatography	Stipitatic acid_TMS_5	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O[Si](C)(C)C)C(O)=C1	standard polar	2025-10-23	1547.04
Gas Chromatography	Stipitatic acid_TMS_6	C[Si](C)(C)OC1=CC(C(=O)O)=CC(=O)C=C1O[Si](C)(C)C	standard polar	2025-10-23	2450.14
Gas Chromatography	Stipitatic acid_TMS_7	C[Si](C)(C)OC(=O)C1=CC(=O)C=C(O[Si](C)(C)C)C(O[Si](C)(C)C)=C1	standard polar	2025-10-23	2043.37

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Eukaryota/Fungi	Ascomycota	2	Human feces	Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

19308

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Stipitatic acid

METLIN ID

Not Available

PubChem Compound

20501

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for Stipitatic acid (MMDBc0020459)

MOL for #<Metabolite:0x0000564321e50578>

3D MOL for #<Metabolite:0x0000564321e50578>

3D SDF for #<Metabolite:0x0000564321e50578>

3D-SDF for #<Metabolite:0x0000564321e50578>

PDB for #<Metabolite:0x0000564321e50578>

3D PDB for #<Metabolite:0x0000564321e50578>

SMILES for #<Metabolite:0x0000564321e50578>

INCHI for #<Metabolite:0x0000564321e50578>

Structure for #<Metabolite:0x0000564321e50578>

3D Structure for #<Metabolite:0x0000564321e50578>