MiMeDB: Showing metabocard for 3-[[[(2R,3R)-3-carboxyoxiran-2-yl]carbonyl]amino]-L-alanine (MMDBc0055342)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2022-06-17 19:49:39 UTC

Update Date

2022-08-12 20:09:20 UTC

Metabolite ID

MMDBc0055342

Metabolite Identification

Common Name

3-[[[(2R,3R)-3-carboxyoxiran-2-yl]carbonyl]amino]-L-alanine

Description

CHEBI:84913 belongs to the class of organic compounds known as n-acyl-l-alpha-amino acids. These are n-acylated alpha amino acids which have the L-configuration of the alpha-carbon atom. CHEBI:84913 is a secondary metabolite. Secondary metabolites are metabolically or physiologically non-essential metabolites that may serve a role as defense or signalling molecules. In some cases they are simply molecules that arise from the incomplete metabolism of other secondary metabolites. Based on a literature review very few articles have been published on CHEBI:84913.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652306172221492D          

 18 18  0  0  1  0            999 V2000
    1.6671    3.3638    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9526    2.9513    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.6507    0.1743    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.2382    0.8888    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3651   -0.2382    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2382    1.7138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2382    3.3638    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6671    4.1888    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.0796    0.1743    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.9526    2.1263    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.3651   -1.0632    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4763    2.1263    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4763    2.9513    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2382    4.1888    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1743    0.1743    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9526    3.7763    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2340    0.7577    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5587    1.1023    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  0  0  0  0
  4  3  1  0  0  0  0
  3  5  1  6  0  0  0
  4  6  1  1  0  0  0
  7  2  1  0  0  0  0
  8  1  1  0  0  0  0
  9  5  2  0  0  0  0
  2 10  1  1  0  0  0
 10  6  2  0  0  0  0
 11  5  1  0  0  0  0
  6 12  1  4  0  0  0
 13  7  2  0  0  0  0
 14  7  1  0  0  0  0
 15  3  1  0  0  0  0
 15  4  1  0  0  0  0
  2 16  1  1  0  0  0
  3 17  1  1  0  0  0
  4 18  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0055342

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@](CN)(N=C(O)[C@]1([H])O[C@@]1([H])C(O)=N)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C7H11N3O5/c8-1-2(7(13)14)10-6(12)4-3(15-4)5(9)11/h2-4H,1,8H2,(H2,9,11)(H,10,12)(H,13,14)/t2-,3+,4+/m0/s1

> <INCHI_KEY>
NEROFFUGAIRXGM-PZGQECOJSA-N

> <FORMULA>
C7H11N3O5

> <MOLECULAR_WEIGHT>
217.181

> <EXACT_MASS>
217.069870466

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
26

> <JCHEM_AVERAGE_POLARIZABILITY>
19.59980762713217

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S)-3-amino-2-({hydroxy[(2R,3R)-3-(C-hydroxycarbonimidoyl)oxiran-2-yl]methylidene}amino)propanoic acid

> <JCHEM_LOGP>
-6.644453517559111

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
2.4027517072673503

> <JCHEM_PKA_STRONGEST_ACIDIC>
-3.7955899674846547

> <JCHEM_PKA_STRONGEST_BASIC>
12.335410674032188

> <JCHEM_POLAR_SURFACE_AREA>
152.52

> <JCHEM_REFRACTIVITY>
56.482400000000005

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2S)-3-amino-2-({hydroxy[(2R,3R)-3-(C-hydroxycarbonimidoyl)oxiran-2-yl]methylidene}amino)propanoic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 17-JUN-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   17-JUN-22         0                                  
HETATM    1  C   UNK     0       3.112   6.279   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.778   5.509   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.215   0.325   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.445   1.659   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       2.548  -0.445   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.445   3.199   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.445   6.279   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0       3.112   7.819   0.000  0.00  0.00           N+0
HETATM    9  N   UNK     0       3.882   0.325   0.000  0.00  0.00           N+0
HETATM   10  N   UNK     0       1.778   3.969   0.000  0.00  0.00           N+0
HETATM   11  O   UNK     0       2.548  -1.985   0.000  0.00  0.00           O+0
HETATM   12  O   UNK     0      -0.889   3.969   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0      -0.889   5.509   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0       0.445   7.819   0.000  0.00  0.00           O+0
HETATM   15  O   UNK     0      -0.325   0.325   0.000  0.00  0.00           O+0
HETATM   16  H   UNK     0       1.778   7.049   0.000  0.00  0.00           H+0
HETATM   17  H   UNK     0       2.304   1.414   0.000  0.00  0.00           H+0
HETATM   18  H   UNK     0      -1.043   2.058   0.000  0.00  0.00           H+0
CONECT    1    2    8                                                       
CONECT    2    1    7   10   16                                             
CONECT    3    4    5   15   17                                             
CONECT    4    3    6   15   18                                             
CONECT    5    3    9   11                                                  
CONECT    6    4   10   12                                                  
CONECT    7    2   13   14                                                  
CONECT    8    1                                                            
CONECT    9    5                                                            
CONECT   10    2    6                                                       
CONECT   11    5                                                            
CONECT   12    6                                                            
CONECT   13    7                                                            
CONECT   14    7                                                            
CONECT   15    3    4                                                       
CONECT   16    2                                                            
CONECT   17    3                                                            
CONECT   18    4                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   36    0
END

Synonyms

Value	Source
3-[[[(2R,3R)-3-Carboxyoxiran-2-yl]carbonyl]amino]-L-alanine	ChEBI

Molecular Formula

C₇H₁₁N₃O₅

Average Mass

217.181

Monoisotopic Mass

217.069870466

IUPAC Name

(2S)-3-amino-2-({hydroxy[(2R,3R)-3-(C-hydroxycarbonimidoyl)oxiran-2-yl]methylidene}amino)propanoic acid

Traditional Name

(2S)-3-amino-2-({hydroxy[(2R,3R)-3-(C-hydroxycarbonimidoyl)oxiran-2-yl]methylidene}amino)propanoic acid

CAS Registry Number

Not Available

SMILES

[H][C@@](CN)(N=C(O)[C@]1([H])O[C@@]1([H])C(O)=N)C(O)=O

InChI Identifier

InChI=1S/C7H11N3O5/c8-1-2(7(13)14)10-6(12)4-3(15-4)5(9)11/h2-4H,1,8H2,(H2,9,11)(H,10,12)(H,13,14)/t2-,3+,4+/m0/s1

InChI Key

NEROFFUGAIRXGM-PZGQECOJSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as n-acyl-l-alpha-amino acids. These are n-acylated alpha amino acids which have the L-configuration of the alpha-carbon atom.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

N-acyl-L-alpha-amino acids

Alternative Parents

Substituents

N-acyl-l-alpha-amino acid
Oxirane carboxylic acid or derivatives
Carboxamide group
Carboxylic acid salt
Primary carboxylic acid amide
Amino acid
Secondary carboxylic acid amide
Carboxylic acid
Dialkyl ether
Oxirane
Ether
Monocarboxylic acid or derivatives
Organoheterocyclic compound
Oxacycle
Organopnictogen compound
Organooxygen compound
Organonitrogen compound
Organic oxygen compound
Primary aliphatic amine
Organic nitrogen compound
Carbonyl group
Primary amine
Organic oxide
Hydrocarbon derivative
Organic zwitterion
Organic salt
Amine
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

dicarboxylic acid diamide (CHEBI:85509 )
epoxide (CHEBI:85509 )
beta-amino acid (CHEBI:85509 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
logP	-6.6	ChemAxon
pKa (Strongest Acidic)	-3.8	ChemAxon
pKa (Strongest Basic)	12.34	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	152.52 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	56.48 m³·mol⁻¹	ChemAxon
Polarizability	19.6 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_6_1) - 70eV, Positive	Not Available	2022-08-08	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	Not Available	2022-08-09	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	Not Available	2022-08-09	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	Not Available	2022-08-09	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	Not Available	2022-08-09	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	Not Available	2022-08-09	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	Not Available	2022-08-09	View Spectrum
MS	Mass Spectrum (Electron Ionization)	Not Available	2022-08-06	View Spectrum

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

Metabolic Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0016115	3-[[[(2R,3R)-3-carboxyoxiran-2-yl]carbonyl]amino]-L-alanine	ADP	Dapdiamide A synthase	Synthesis	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	1	Human

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

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

34999545

KEGG Compound ID

Not Available

BioCyc ID

CPD-17545

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

90659902

PDB ID

Not Available

ChEBI ID

84913

Food Biomarker Ontology

Not Available

References

Synthesis Reference

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 3-[[[(2R,3R)-3-carboxyoxiran-2-yl]carbonyl]amino]-L-alanine (MMDBc0055342)

MOL for #<Metabolite:0x00007f5a5edf1500>

3D MOL for #<Metabolite:0x00007f5a5edf1500>

3D SDF for #<Metabolite:0x00007f5a5edf1500>

3D-SDF for #<Metabolite:0x00007f5a5edf1500>

PDB for #<Metabolite:0x00007f5a5edf1500>

3D PDB for #<Metabolite:0x00007f5a5edf1500>

SMILES for #<Metabolite:0x00007f5a5edf1500>

INCHI for #<Metabolite:0x00007f5a5edf1500>

Structure for #<Metabolite:0x00007f5a5edf1500>

3D Structure for #<Metabolite:0x00007f5a5edf1500>