MiMeDB: Showing metabocard for (R)-piperazine-2-carboxamide (MMDBc0055048)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2022-06-17 19:40:45 UTC

Update Date

2025-10-07 16:08:53 UTC

Metabolite ID

MMDBc0055048

Metabolite Identification

Common Name

(R)-piperazine-2-carboxamide

Description

(R)-piperazine-2-carboxamide is a carboxamide compound belonging to the chemical class of piperazines. Its structure features a piperazine ring, which is a six-membered saturated heterocyclic compound containing two nitrogen atoms at non-adjacent positions, with a carboxamide functional group attached at the 2-position. This compound is involved in various biochemical pathways, particularly those related to the metabolism of carboxamide derivatives. For instance, it has been noted that RamA exhibits hydrolyzing activity towards carboxamide compounds, including (R)-piperazine-2-carboxamide, indicating its potential role in enzymatic reactions that modify such metabolites. The hydrolysis of carboxamide compounds can influence various physiological processes, including neurotransmission and metabolic regulation. The presence of amino or imino groups connected to beta- or gamma-carbons in related compounds suggests a diverse range of interactions and transformations in biological systems, which may impact pharmacological activities and metabolic pathways (PMID:15066183 ).

Structure

MOL SDF PDB SMILES InChI

Synonyms

Value	Source
(R)-Piperazin-4-ium-2-carboxamide cation	ChEBI
(R)-Piperazine-2-carboxamide	ChEBI

Molecular Formula

C₅H₁₂N₃O

Average Mass

130.17

Monoisotopic Mass

130.097488439

IUPAC Name

{hydroxy[(2R)-piperazin-2-yl]methylidene}azanium

Traditional Name

[hydroxy((2R)-piperazin-2-yl)methylidene]azanium

CAS Registry Number

Not Available

SMILES

[H][C@@]1(CNCCN1)C(O)=[NH2+]

InChI Identifier

InChI=1S/C5H11N3O/c6-5(9)4-3-7-1-2-8-4/h4,7-8H,1-3H2,(H2,6,9)/p+1/t4-/m1/s1

InChI Key

BRYCUMKDWMEGMK-SCSAIBSYSA-O

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
Piperazine-2-carboxamide
1,4-diazinane
Piperazine
Carboxamide group
Primary carboxylic acid amide
Secondary aliphatic amine
Azacycle
Secondary amine
Organoheterocyclic compound
Hydrocarbon derivative
Organic oxide
Organooxygen compound
Organonitrogen compound
Organopnictogen compound
Organic oxygen compound
Organic nitrogen compound
Amine
Carbonyl group
Organic cation
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

ammonium ion (CHEBI:58916 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
logP	-3.7	ChemAxon
pKa (Strongest Acidic)	-4.4	ChemAxon
pKa (Strongest Basic)	13.28	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	4	ChemAxon
Polar Surface Area	69.88 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	44.84 m³·mol⁻¹	ChemAxon
Polarizability	13.71 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	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)	2022-08-23	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)	2022-08-23	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)	2025-10-24	464.1
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-24	381.3
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (void)	2025-10-24	39.5
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-24	222.2
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-24	292.5
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (void)	2025-10-24	293.8
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-24	389.5
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-24	893.2
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-24	670.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-24	172.8
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-24	570.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-24	183.5
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-24	37.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-24	283.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-24	739.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-24	66.7
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-24	283.9
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-24	632.1
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-24	564.0

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_1	C[Si](C)(C)OC(=[NH2+])[C@H]1CNCCN1	standard non polar	2025-10-24	1948.65
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_2	C[Si](C)(C)[NH+]=C(O)[C@H]1CNCCN1	standard non polar	2025-10-24	1564.12
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_3	C[Si](C)(C)N1CCN[C@@H](C(=[NH2+])O)C1	standard non polar	2025-10-24	2139.15
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_4	C[Si](C)(C)N1CCNC[C@@H]1C(=[NH2+])O	standard non polar	2025-10-24	1801.61
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_5	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CNCCN1	standard non polar	2025-10-24	1819.57
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_6	C[Si](C)(C)OC(=[NH2+])[C@H]1CN([Si](C)(C)C)CCN1	standard non polar	2025-10-24	1887.27
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_7	C[Si](C)(C)OC(=[NH2+])[C@H]1CNCCN1[Si](C)(C)C	standard non polar	2025-10-24	1812.02
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_8	C[Si](C)(C)[N+](=C(O)[C@H]1CNCCN1)[Si](C)(C)C	standard non polar	2025-10-24	2316.9
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_9	C[Si](C)(C)[NH+]=C(O)[C@H]1CN([Si](C)(C)C)CCN1	standard non polar	2025-10-24	2192.82
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_10	C[Si](C)(C)[NH+]=C(O)[C@H]1CNCCN1[Si](C)(C)C	standard non polar	2025-10-24	2421.11
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_11	C[Si](C)(C)N1CCN([Si](C)(C)C)[C@@H](C(=[NH2+])O)C1	standard non polar	2025-10-24	2162.33
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_12	C[Si](C)(C)OC([C@H]1CNCCN1)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-24	2144.02
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_13	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CN([Si](C)(C)C)CCN1	standard non polar	2025-10-24	1982.88
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_14	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CNCCN1[Si](C)(C)C	standard non polar	2025-10-24	2345.32
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_15	C[Si](C)(C)OC(=[NH2+])[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard non polar	2025-10-24	2123.37
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_16	C[Si](C)(C)N1CCN[C@@H](C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C)C1	standard non polar	2025-10-24	1799.52
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_17	C[Si](C)(C)N1CCNC[C@@H]1C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-24	2451.05
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_18	C[Si](C)(C)[NH+]=C(O)[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard non polar	2025-10-24	1555.05
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_19	C[Si](C)(C)OC([C@H]1CN([Si](C)(C)C)CCN1)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-24	2104.4
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_20	C[Si](C)(C)OC([C@H]1CNCCN1[Si](C)(C)C)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-24	1253.14
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_21	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard non polar	2025-10-24	1536.22
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_22	C[Si](C)(C)N1CCN([Si](C)(C)C)[C@@H](C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C)C1	standard non polar	2025-10-24	1790.73
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_23	C[Si](C)(C)OC([C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-24	2123.35
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_1	C[Si](C)(C)OC(=[NH2+])[C@H]1CNCCN1	standard polar	2025-10-24	2248.21
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_2	C[Si](C)(C)[NH+]=C(O)[C@H]1CNCCN1	standard polar	2025-10-24	2433.96
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_3	C[Si](C)(C)N1CCN[C@@H](C(=[NH2+])O)C1	standard polar	2025-10-24	1948.64
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_4	C[Si](C)(C)N1CCNC[C@@H]1C(=[NH2+])O	standard polar	2025-10-24	1961.51
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_5	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CNCCN1	standard polar	2025-10-24	1823.01
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_6	C[Si](C)(C)OC(=[NH2+])[C@H]1CN([Si](C)(C)C)CCN1	standard polar	2025-10-24	1900.39
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_7	C[Si](C)(C)OC(=[NH2+])[C@H]1CNCCN1[Si](C)(C)C	standard polar	2025-10-24	2832.26
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_8	C[Si](C)(C)[N+](=C(O)[C@H]1CNCCN1)[Si](C)(C)C	standard polar	2025-10-24	2426.22
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_9	C[Si](C)(C)[NH+]=C(O)[C@H]1CN([Si](C)(C)C)CCN1	standard polar	2025-10-24	1627.14
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_10	C[Si](C)(C)[NH+]=C(O)[C@H]1CNCCN1[Si](C)(C)C	standard polar	2025-10-24	2245.52
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_11	C[Si](C)(C)N1CCN([Si](C)(C)C)[C@@H](C(=[NH2+])O)C1	standard polar	2025-10-24	1941.89
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_12	C[Si](C)(C)OC([C@H]1CNCCN1)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-24	1707.19
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_13	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CN([Si](C)(C)C)CCN1	standard polar	2025-10-24	2391.11
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_14	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CNCCN1[Si](C)(C)C	standard polar	2025-10-24	2005.99
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_15	C[Si](C)(C)OC(=[NH2+])[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard polar	2025-10-24	2007.24
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_16	C[Si](C)(C)N1CCN[C@@H](C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C)C1	standard polar	2025-10-24	1413.2
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_17	C[Si](C)(C)N1CCNC[C@@H]1C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-24	2147.25
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_18	C[Si](C)(C)[NH+]=C(O)[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard polar	2025-10-24	2208.19
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_19	C[Si](C)(C)OC([C@H]1CN([Si](C)(C)C)CCN1)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-24	2012.67
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_20	C[Si](C)(C)OC([C@H]1CNCCN1[Si](C)(C)C)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-24	2005.51
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_21	C[Si](C)(C)[NH+]=C(O[Si](C)(C)C)[C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C	standard polar	2025-10-24	2543.34
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_22	C[Si](C)(C)N1CCN([Si](C)(C)C)[C@@H](C(O)=[N+]([Si](C)(C)C)[Si](C)(C)C)C1	standard polar	2025-10-24	2350.07
Gas Chromatography	(R)-piperazine-2-carboxamide_TMS_23	C[Si](C)(C)OC([C@H]1CN([Si](C)(C)C)CCN1[Si](C)(C)C)=[N+]([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-24	3861.02

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
Bacteria	Proteobacteria	1	Human feces; Human

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

26331436

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

28147631

PDB ID

Not Available

ChEBI ID

58916

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for (R)-piperazine-2-carboxamide (MMDBc0055048)

MOL for #<Metabolite:0x00007f9ac52f3340>

3D MOL for #<Metabolite:0x00007f9ac52f3340>

3D SDF for #<Metabolite:0x00007f9ac52f3340>

3D-SDF for #<Metabolite:0x00007f9ac52f3340>

PDB for #<Metabolite:0x00007f9ac52f3340>

3D PDB for #<Metabolite:0x00007f9ac52f3340>

SMILES for #<Metabolite:0x00007f9ac52f3340>

INCHI for #<Metabolite:0x00007f9ac52f3340>

Structure for #<Metabolite:0x00007f9ac52f3340>

3D Structure for #<Metabolite:0x00007f9ac52f3340>