MiMeDB: Showing metabocard for 2,5-Dioxopentanoate (MMDBc0049958)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2022-04-29 22:47:05 UTC

Update Date

2022-09-01 02:17:34 UTC

Metabolite ID

MMDBc0049958

Metabolite Identification

Common Name

2,5-Dioxopentanoate

Description

2,5-Dioxopentanoate belongs to the class of organic compounds known as short-chain keto acids and derivatives. These are keto acids with an alkyl chain the contains less than 6 carbon atoms. 2,5-Dioxopentanoate is an extremely weak basic (essentially neutral) compound (based on its pKa). 2,5-Dioxopentanoate exists in all living organisms, ranging from bacteria to humans. These are keto acids with an alkyl chain the contains less than 6 carbon atoms.

Structure

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

Synonyms

Value	Source
2-Oxoglutarate semialdehyde	ChEBI
2-Oxoglutaric acid semialdehyde	Generator
2,5-Dioxopentanoic acid	Generator
2,5-Dioxopentanoate	ChEBI

Molecular Formula

C₅H₆O₄

Average Mass

130.0987

Monoisotopic Mass

130.02660868

IUPAC Name

2,5-dioxopentanoic acid

Traditional Name

2-oxoglutarate semialdehyde

CAS Registry Number

Not Available

SMILES

OC(=O)C(=O)CCC=O

InChI Identifier

InChI=1S/C5H6O4/c6-3-1-2-4(7)5(8)9/h3H,1-2H2,(H,8,9)

InChI Key

VHKNBDIQDAXGBL-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as short-chain keto acids and derivatives. These are keto acids with an alkyl chain the contains less than 6 carbon atoms.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Keto acids and derivatives

Sub Class

Short-chain keto acids and derivatives

Direct Parent

Short-chain keto acids and derivatives

Alternative Parents

Substituents

Short-chain keto acid
Alpha-keto acid
Alpha-hydroxy ketone
Alpha-hydrogen aldehyde
Ketone
Monocarboxylic acid or derivatives
Carboxylic acid
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aldehyde
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

dioxo monocarboxylic acid (CHEBI:17415 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	53.6 g/L	ALOGPS
logP	-0.02	ALOGPS
logP	-0.27	ChemAxon
logS	-0.38	ALOGPS
pKa (Strongest Acidic)	2.88	ChemAxon
pKa (Strongest Basic)	-7	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	71.44 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	27.96 m³·mol⁻¹	ChemAxon
Polarizability	11.22 Å³	ChemAxon
Number of Rings	0	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 (Non-derivatized) - 70eV, Positive	splash10-052u-9000000000-377953d8c75ca6f8b4f6	2017-09-20	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (1 TMS) - 70eV, Positive	splash10-0079-9200000000-11aa6a7e16f7cd819696	2017-10-06	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positive	Not Available	2021-10-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-03e9-5900000000-b779cddec9f446feb30b	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-07bv-9200000000-9df87f0c938c9f743049	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-0a4u-9000000000-03f1c95daea1111adde8	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-004i-3900000000-e272bd80213642423407	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-01s9-9500000000-b35a75d7fba0b28d73e4	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-000x-9000000000-1c3288e1517226f72749	2017-10-06	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-24	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-24	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Feces

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
MMDBp0191965	Aldehyde dehydrogenase, mitochondrial	Unknown	P05091	Homo sapiens
MMDBp0191966	Fatty aldehyde dehydrogenase	Unknown	P51648	Homo sapiens
MMDBp0191967	Aldehyde dehydrogenase X, mitochondrial	Unknown	P30837	Homo sapiens

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0008315	2,5-Dioxopentanoate	Oxoglutaric acid	Not Available	2,5-dioxopentanoate:NADP+ 5-oxidoreductase	VMH	30371894
MMDBr0008324	5-Dehydro-4-deoxy-D-glucarate	2,5-Dioxopentanoate	Not Available	5-Dehydro-4-deoxy-D-glucarate hydro-lyase (decarboxylating)	VMH	30371894
MMDBr0008341	1-Pyrroline-4-hydroxy-2-carboxylate	2,5-Dioxopentanoate	Not Available	1-Pyrroline-4-hydroxy-2-carboxylate aminohydrolase (decyclizing)	VMH	30371894
MMDBr0012621	5-Dehydro-4-deoxy-D-glucarate	2,5-Dioxopentanoate	Not Available	5-Dehydro-4-deoxy-D-glucarate hydro-lyase (decarboxylating), irreversible	VMH	30371894
MMDBr0012995	2,5-Dioxopentanoate	alpha-Ketoglutarate	Alpha-ketoglutaric semialdehyde dehydrogenase 1	Dehydrogenation	RHEA	34755880
MMDBr0013628	2-dehydro-3-deoxy-L-arabinonate	2,5-Dioxopentanoate	L-2-keto-3-deoxyarabonate dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0014466	5-Dehydro-4-deoxy-D-glucarate	2,5-Dioxopentanoate	Probable 5-dehydro-4-deoxyglucarate dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0015449	2-dehydro-3-deoxy-D-arabinonate	2,5-Dioxopentanoate	2-dehydro-3-deoxy-D-arabinonate dehydratase	Hydration/dehydration of C-O bond	RHEA	34755880
MMDBr0016284	2,5-Dioxopentanoate	alpha-Ketoglutarate	Alpha-ketoglutaric semialdehyde dehydrogenase 1	Dehydrogenation	RHEA	34755880

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
Bacteria	Proteobacteria	171	Human feces; Human sputum; Human ; Human pleural fluid plaque; Human unknown; Pig ; Human dental plaque; Human nasal swab	Metabolic reconstruction
Bacteria	Actinobacteria	69	Human feces; Human ; Human pleural fluid plaque; Human dental plaque; Human sputum; Human mucosa; Human supragingival plaque; Human subgingival plaque	Metabolic reconstruction
Bacteria	Firmicutes	169	Human feces; Human ; Pig ; Human stool; Human subgingival plaque	Metabolic reconstruction
Bacteria	Bacteroidetes	69	Human feces; Human ; Human appendix biopsy; Human stool; Human supragingival plaque; Human subgingival plaque; Human saliva; Human gastric fluid	Metabolic reconstruction
Bacteria	Planctomycetes	1	Human feces	Metabolic reconstruction
Bacteria	Spirochaetes	1	Human feces	Metabolic reconstruction
Archaea	Thaumarchaeota	1		Metabolic reconstruction
Bacteria	Fusobacteria	5	Human feces; Human	Metabolic reconstruction
Bacteria	Synergistetes	2	Human feces	Metabolic reconstruction
Archaea	Euryarchaeota	1		Metabolic reconstruction
Bacteria/NULL	Proteobacteria	1	Human feces; Human sputum; Human ; Human pleural fluid plaque; Human unknown; Pig ; Human dental plaque; Human nasal swab	Metabolic reconstruction
Archaea/Archaea	Euryarchaeota	1		Metabolic reconstruction
Archaea	Crenarchaeota	1

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference
Human Feces	Detected but not Quantified									HMDB

External Links

HMDB ID

HMDB0060365

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

C00433

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

523

PDB ID

Not Available

ChEBI ID

17415

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Magrane M: UniProt Knowledgebase: a hub of integrated protein data. Database (Oxford). 2011 Mar 29;2011:bar009. doi: 10.1093/database/bar009. Print 2011. [PubMed:21447597 ]

Showing metabocard for 2,5-Dioxopentanoate (MMDBc0049958)

MOL for #<Metabolite:0x00007fe2a4072c48>

3D MOL for #<Metabolite:0x00007fe2a4072c48>

3D SDF for #<Metabolite:0x00007fe2a4072c48>

3D-SDF for #<Metabolite:0x00007fe2a4072c48>

PDB for #<Metabolite:0x00007fe2a4072c48>

3D PDB for #<Metabolite:0x00007fe2a4072c48>

SMILES for #<Metabolite:0x00007fe2a4072c48>

INCHI for #<Metabolite:0x00007fe2a4072c48>

Structure for #<Metabolite:0x00007fe2a4072c48>

3D Structure for #<Metabolite:0x00007fe2a4072c48>