MiMeDB: Showing metabocard for 3-Amino-2-piperidone (MMDBc0031983)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-11-18 01:57:29 UTC

Update Date

2025-11-05 17:13:00 UTC

Metabolite ID

MMDBc0031983

Metabolite Identification

Common Name

3-Amino-2-piperidone

Description

3-Amino-2-piperidone is a piperidine derivative and a metabolite described in biomedical literature. Its chemical structure features a piperidone ring with an amino group at the 3-position, contributing to its unique reactivity and solubility properties. This compound is involved in various metabolic pathways, including the urea cycle and amino acid metabolism, where it plays a role in nitrogen metabolism and the synthesis of other bioactive molecules. Notably, 3-amino-2-piperidone has been identified as a potential serum biomarker for ankylosing spondylitis (AS), alongside other metabolites like hypoxanthine and octadecylamine (PMID:41079904 ). Additionally, its levels are influenced by immune cell activity, as seen with CD3 on CD39 + secreting Treg cells and CD80 on granulocytes, which may affect its concentration in cancer contexts (PMID:40652067 ). Furthermore, genetic studies have linked 3-amino-2-piperidone to heritable traits in metabolites (PMID:40352659 ) and its association with insomnia risk (PMID:39841266 ), highlighting its diverse roles in human physiology and potential clinical significance.

Structure

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

Synonyms

Value	Source
Cyclo-ornithine	ChEBI
(+)-3-Aminopiperidin-2-one	HMDB
(R)-(+)-3-Amino-2-piperidinon	HMDB
(S)-(-)-3-Amino-2-piperidinon	HMDB
(S)-3-Amino-2-piperidinon	HMDB
3-Amino-2-piperidinone	HMDB
Ornithine N5-lactam	HMDB
3-Aminopiperidine-2-one	HMDB
3-Amino-2-piperidone	ChEBI

Molecular Formula

C₅H₁₀N₂O

Average Mass

114.1457

Monoisotopic Mass

114.079312952

IUPAC Name

3-aminopiperidin-2-one

Traditional Name

3-amino-2-piperidone

CAS Registry Number

Not Available

SMILES

NC1CCCNC1=O

InChI Identifier

InChI=1S/C5H10N2O/c6-4-2-1-3-7-5(4)8/h4H,1-3,6H2,(H,7,8)

InChI Key

YCCMTCQQDULIFE-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as alpha amino acid amides. These are amide derivatives of alpha amino acids.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Alpha amino acid amides

Alternative Parents

Substituents

Alpha-amino acid amide
3-aminopiperidine
Delta-lactam
Piperidinone
Piperidine
Carboxamide group
Lactam
Secondary carboxylic acid amide
Organoheterocyclic compound
Azacycle
Primary amine
Hydrocarbon derivative
Organic oxide
Organooxygen compound
Organonitrogen compound
Primary aliphatic amine
Organic nitrogen compound
Organopnictogen compound
Carbonyl group
Organic oxygen compound
Amine
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

primary amino compound (CHEBI:76341 )
delta-lactam (CHEBI:76341 )
piperidones (CHEBI:76341 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	444 g/L	ALOGPS
logP	-1.3	ALOGPS
logP	-1.1	ChemAxon
logS	0.59	ALOGPS
pKa (Strongest Acidic)	14.55	ChemAxon
pKa (Strongest Basic)	8.44	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	55.12 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	30.01 m³·mol⁻¹	ChemAxon
Polarizability	11.83 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
GC-MS	GC-MS Spectrum - GC-MS (2 TMS)	splash10-00ou-1910000000-92400ccbe60c08f72840	2014-06-16	View Spectrum
GC-MS	GC-MS Spectrum - GC-MS (Non-derivatized)	splash10-00ou-1910000000-92400ccbe60c08f72840	2017-09-12	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positive	splash10-052f-9100000000-4f67e2bb33f23a8162d3	2017-09-01	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	splash10-014i-3900000000-b8721f62b29b4da04620	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-014i-9700000000-665ba82e0b94c5b287d7	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-0006-9000000000-440cca1df99eb06f21c7	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-03di-3900000000-a8f9a049f9d1147c87ed	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-03di-9600000000-4554d3f81d3e188ef0da	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-052f-9000000000-378339ec915807272f53	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-03di-0900000000-4eb8c76fed602ca148ae	2021-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-03di-5900000000-cda9a3adcb344e3fdb2b	2021-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-0006-9000000000-9718e3ed51aaf3bc990a	2021-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-014i-1900000000-3231d43c7c0668858742	2021-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-0601-9200000000-5b02fb65d9fb82bc034e	2021-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-0a4i-9000000000-fe451a154df71739dbe2	2021-09-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-16	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	400.7
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-23	259.6
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (void)	2025-10-23	52.4
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-23	236.8
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (void)	2025-10-23	246.2
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (void)	2025-10-23	291.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-23	572.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	668.0
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-23	484.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	166.2
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	438.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-23	181.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	74.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	230.7
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	666.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	58.5
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	185.2
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-23	664.8
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-23	564.2

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	3-Amino-2-piperidone_TMS_1	C[Si](C)(C)NC1CCCNC1=O	standard non polar	2025-10-24	1876.65
Gas Chromatography	3-Amino-2-piperidone_TMS_2	C[Si](C)(C)N1CCCC(N)C1=O	standard non polar	2025-10-24	2213.48
Gas Chromatography	3-Amino-2-piperidone_TMS_3	C[Si](C)(C)N(C1CCCNC1=O)[Si](C)(C)C	standard non polar	2025-10-24	2272.38
Gas Chromatography	3-Amino-2-piperidone_TMS_4	C[Si](C)(C)NC1CCCN([Si](C)(C)C)C1=O	standard non polar	2025-10-24	1835.27
Gas Chromatography	3-Amino-2-piperidone_TMS_5	C[Si](C)(C)N1CCCC(N([Si](C)(C)C)[Si](C)(C)C)C1=O	standard non polar	2025-10-24	1454.38
Gas Chromatography	3-Amino-2-piperidone_TMS_1	C[Si](C)(C)NC1CCCNC1=O	standard polar	2025-10-24	1812.02
Gas Chromatography	3-Amino-2-piperidone_TMS_2	C[Si](C)(C)N1CCCC(N)C1=O	standard polar	2025-10-24	1971.92
Gas Chromatography	3-Amino-2-piperidone_TMS_3	C[Si](C)(C)N(C1CCCNC1=O)[Si](C)(C)C	standard polar	2025-10-24	2056.59
Gas Chromatography	3-Amino-2-piperidone_TMS_4	C[Si](C)(C)NC1CCCN([Si](C)(C)C)C1=O	standard polar	2025-10-24	1820.66
Gas Chromatography	3-Amino-2-piperidone_TMS_5	C[Si](C)(C)N1CCCC(N([Si](C)(C)C)[Si](C)(C)C)C1=O	standard polar	2025-10-24	2283.81

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Sweat

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
Bacteria/Eubacteria	Proteobacteria	1	Human ; Human feces; Human feces; pleural fluid plaque; bal	Unknown

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
Human Sweat	Detected but not Quantified						Adult	Both	Normal	HMDB	26755145

External Links

HMDB ID

HMDB0000323

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB021949

KNApSAcK ID

C00052808

Chemspider ID

4371576

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

5312

PubChem Compound

5200225

PDB ID

Not Available

ChEBI ID

76341

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Arshinoff SA, McCulloch JC, Matuk Y, Phillips MJ, Gordon BA, Marliss EB: Amino-acid metabolism and liver ultrastructure in hyperornithinemia with gyrate atrophy of the choroid and retina. Metabolism. 1979 Oct;28(10):979-88. doi: 10.1016/0026-0495(79)90001-5. [PubMed:491962 ]
Oberholzer VG, Briddon A: 3-Amino-2-piperidone in the urine of patients with hyperornithinemia. Clin Chim Acta. 1978 Aug 1;87(3):411-5. doi: 10.1016/0009-8981(78)90186-9. [PubMed:679477 ]

Showing metabocard for 3-Amino-2-piperidone (MMDBc0031983)

MOL for #<Metabolite:0x00007f9af11e6e08>

3D MOL for #<Metabolite:0x00007f9af11e6e08>

3D SDF for #<Metabolite:0x00007f9af11e6e08>

3D-SDF for #<Metabolite:0x00007f9af11e6e08>

PDB for #<Metabolite:0x00007f9af11e6e08>

3D PDB for #<Metabolite:0x00007f9af11e6e08>

SMILES for #<Metabolite:0x00007f9af11e6e08>

INCHI for #<Metabolite:0x00007f9af11e6e08>

Structure for #<Metabolite:0x00007f9af11e6e08>

3D Structure for #<Metabolite:0x00007f9af11e6e08>