MiMeDB: Showing metabocard for N-acetyl-D-methionine (MMDBc0033201)

Microbial

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-11-19 04:38:50 UTC

Update Date

2025-10-07 16:07:57 UTC

Metabolite ID

MMDBc0033201

Metabolite Identification

Common Name

N-acetyl-D-methionine

Description

N-acetyl-D-methionine is a member of the class of N-acylated amino acids, specifically an acetylated derivative of the amino acid methionine. Its chemical structure features an acetyl group attached to the nitrogen atom of the methionine backbone, influencing its biochemical properties and interactions. N-acetyl-D-methionine is involved in various metabolic pathways, particularly in the context of amino acid metabolism. For instance, the disruption of the HPA3 gene, which encodes the enzyme d-amino acid-N-acetyltransferase, leads to the accumulation of d-methionine and the absence of N-acetyl-D-methionine production (PMID:31478186 ). The enzyme exhibits high activity toward N-acetyl-D-methionine compared to other aromatic and hydrophobic N-acetylamino acids (PMID:29509381 ). Additionally, it has been noted that N-acetyl-D-methionine can be hydrolyzed by N-acyl-d-amino acid amidohydrolase, producing L-methionine and acetic acid (PMID:9699991 ). Kinetic studies have revealed various Michaelis constants (Km) for N-acetyl-D-methionine, indicating its role as a substrate for enzymatic reactions (PMIDs:1368943, 7766084). Overall, N-acetyl-D-methionine serves as a significant compound in metabolic processes involving amino acid modification and utilization.

Structure

MOL SDF PDB SMILES InChI

HEADER    PROTEIN                                 24-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-FEB-12         0                                  
HETATM    1  C   UNK     0       1.953   2.667   0.000  0.00  0.00           C+0
HETATM    2  S   UNK     0       3.286   3.437   0.000  0.00  0.00           S+0
HETATM    3  C   UNK     0       4.620   2.667   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.954   3.437   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       7.287   2.667   0.000  0.00  0.00           C+0
HETATM    6  N   UNK     0       8.621   3.437   0.000  0.00  0.00           N+0
HETATM    7  C   UNK     0       9.955   2.667   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      11.288   3.437   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       9.955   1.127   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       7.287   1.127   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       8.621   0.357   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0       5.954   0.357   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   10                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    5   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10                                                            
MASTER        0    0    0    0    0    0    0    0   12    0   22    0
END

Synonyms

Value	Source
(2R)-2-Acetamido-4-(methylsulfanyl)butanoic acid	ChEBI
(2R)-N-Acetylmethionine	ChEBI
(R)-N-Acetylmethionine	ChEBI
(2R)-2-Acetamido-4-(methylsulfanyl)butanoate	Generator
(2R)-2-Acetamido-4-(methylsulphanyl)butanoate	Generator
(2R)-2-Acetamido-4-(methylsulphanyl)butanoic acid	Generator

Molecular Formula

C₇H₁₃NO₃S

Average Mass

191.248

Monoisotopic Mass

191.061613977

IUPAC Name

(2R)-2-acetamido-4-(methylsulfanyl)butanoic acid

Traditional Name

D-methionine, N-acetyl-

CAS Registry Number

1509-92-8

SMILES

CSCC[C@@H](NC(C)=O)C(O)=O

InChI Identifier

InChI=1S/C7H13NO3S/c1-5(9)8-6(7(10)11)3-4-12-2/h6H,3-4H2,1-2H3,(H,8,9)(H,10,11)/t6-/m1/s1

InChI Key

XUYPXLNMDZIRQH-ZCFIWIBFSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as methionine and derivatives. Methionine and derivatives are compounds containing methionine or a derivative thereof resulting from reaction of methionine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Methionine and derivatives

Alternative Parents

Substituents

Methionine or derivatives
N-acyl-alpha-amino acid
N-acyl-alpha amino acid or derivatives
Thia fatty acid
Fatty acid
Fatty acyl
Acetamide
Carboxamide group
Secondary carboxylic acid amide
Dialkylthioether
Sulfenyl compound
Thioether
Monocarboxylic acid or derivatives
Carboxylic acid
Organic oxide
Organopnictogen compound
Organosulfur compound
Organooxygen compound
Organonitrogen compound
Carbonyl group
Organic oxygen compound
Hydrocarbon derivative
Organic nitrogen compound
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

monocarboxylic acid (CHEBI:85210 )
methyl sulfide (CHEBI:85210 )
D-methionine derivative (CHEBI:85210 )
N-acetyl-D-amino acid (CHEBI:85210 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	6.84 g/L	ALOGPS
logP	-0.15	ALOGPS
logP	-0.11	ChemAxon
logS	-1.4	ALOGPS
pKa (Strongest Acidic)	4.02	ChemAxon
pKa (Strongest Basic)	-1.2	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	66.4 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	47.03 m³·mol⁻¹	ChemAxon
Polarizability	19.45 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	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	splash10-0007-9200000000-593631423519da8c158b	2016-09-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-0007-0900000000-8da1e26b14b4f20b26e8	2016-09-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-0udj-2900000000-46f1e969fb3020741917	2016-09-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-0fca-9500000000-733b152217c5f9f59d24	2016-09-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-0005-5900000000-1c54110ef2f24b1684c9	2016-09-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-0002-9500000000-ecf88bae7840cbe842b1	2016-09-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-0002-9000000000-b10d0e5cf3369109c9c1	2016-09-12	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	172.7
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-24	80.0
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (eluted)	2025-10-24	304.2
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-24	403.6
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-24	285.1
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (void)	2025-10-24	304.4
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-24	1309.4
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (void)	2025-10-24	129.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-24	695.2
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-24	231.5
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-24	300.7
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-24	177.7
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-24	84.9
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-24	113.2
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-24	400.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-24	77.9
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-24	242.2
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-24	983.7
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-24	760.9

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	N-acetyl-D-methionine_TMS_1	CSCC[C@@H](NC(C)=O)C(=O)O[Si](C)(C)C	standard non polar	2025-10-24	1767.45
Gas Chromatography	N-acetyl-D-methionine_TMS_2	CSCC[C@H](C(=O)O)N(C(C)=O)[Si](C)(C)C	standard non polar	2025-10-24	1828.63
Gas Chromatography	N-acetyl-D-methionine_TMS_3	CSCC[C@H](C(=O)O[Si](C)(C)C)N(C(C)=O)[Si](C)(C)C	standard non polar	2025-10-24	2005.32
Gas Chromatography	N-acetyl-D-methionine_TMS_1	CSCC[C@@H](NC(C)=O)C(=O)O[Si](C)(C)C	standard polar	2025-10-24	2183.11
Gas Chromatography	N-acetyl-D-methionine_TMS_2	CSCC[C@H](C(=O)O)N(C(C)=O)[Si](C)(C)C	standard polar	2025-10-24	1972.39
Gas Chromatography	N-acetyl-D-methionine_TMS_3	CSCC[C@H](C(=O)O[Si](C)(C)C)N(C(C)=O)[Si](C)(C)C	standard polar	2025-10-24	1648.74

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
MMDBr0026120	D-methionine	N-acetyl-D-methionine	D-amino-acid N-acetyltransferase HPA3	Acetylation	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
Eukaryota/Fungi	Ascomycota	1	Human feces; Human saliva	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

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

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

6991987

PDB ID

Not Available

ChEBI ID

85210

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Yow GY, Uo T, Yoshimura T, Esaki N: D-amino acid N-acetyltransferase of Saccharomyces cerevisiae: a close homologue of histone acetyltransferase Hpa2p acting exclusively on free D-amino acids. Arch Microbiol. 2004 Nov;182(5):396-403. doi: 10.1007/s00203-004-0724-y. [PubMed:15375647 ]
Yow GY, Uo T, Yoshimura T, Esaki N: Physiological role of D-amino acid-N-acetyltransferase of Saccharomyces cerevisiae: detoxification of D-amino acids. Arch Microbiol. 2006 Mar;185(1):39-46. doi: 10.1007/s00203-005-0060-x. Epub 2005 Dec 14. [PubMed:16362288 ]
Scheer M, Grote A, Chang A, Schomburg I, Munaretto C, Rother M, Sohngen C, Stelzer M, Thiele J, Schomburg D: BRENDA, the enzyme information system in 2011. Nucleic Acids Res. 2011 Jan;39(Database issue):D670-6. doi: 10.1093/nar/gkq1089. Epub 2010 Nov 9. [PubMed:21062828 ]

Showing metabocard for N-acetyl-D-methionine (MMDBc0033201)

MOL for #<Metabolite:0x00007f9af38ac268>

3D MOL for #<Metabolite:0x00007f9af38ac268>

3D SDF for #<Metabolite:0x00007f9af38ac268>

3D-SDF for #<Metabolite:0x00007f9af38ac268>

PDB for #<Metabolite:0x00007f9af38ac268>

3D PDB for #<Metabolite:0x00007f9af38ac268>

SMILES for #<Metabolite:0x00007f9af38ac268>

INCHI for #<Metabolite:0x00007f9af38ac268>

Structure for #<Metabolite:0x00007f9af38ac268>

3D Structure for #<Metabolite:0x00007f9af38ac268>