MiMeDB: Showing metabocard for N_Acetyl_L_2_amino_6

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2022-04-29 22:45:11 UTC

Update Date

2022-09-01 02:16:46 UTC

Metabolite ID

MMDBc0049869

Metabolite Identification

Common Name

N_Acetyl_L_2_amino_6_oxopimelate

Description

(S)-2-acetamido-6-oxopimelate(2-), also known as L-2-acetamido-6-oxoheptanedioate, 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. Based on a literature review very few articles have been published on (S)-2-acetamido-6-oxopimelate(2-).

Structure

MOL SDF PDB SMILES InChI


  Mrv1652304302200452D          

 16 15  0  0  1  0            999 V2000
    2.2836    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9980    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9980    3.3809    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7125    2.1434    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    2.5559    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.1414    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8559    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5704    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2849    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2849    3.3809    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.9993    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.7138    2.5559    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
    7.9993    1.3184    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    3.3809    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1414    3.7934    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
    3.7125    3.7934    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  2  4  1  0  0  0  0
  5  4  1  6  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  9 11  1  0  0  0  0
 11 12  1  0  0  0  0
 11 13  2  0  0  0  0
  5 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  2  0  0  0  0
M  CHG  2  12  -1  15  -1
M  END
> <DATABASE_ID>
MMDBc0049869

> <DATABASE_NAME>
MIME

> <SMILES>
CC(=O)N[C@@H](CCCC(=O)C([O-])=O)C([O-])=O

> <INCHI_IDENTIFIER>
InChI=1S/C9H13NO6/c1-5(11)10-6(8(13)14)3-2-4-7(12)9(15)16/h6H,2-4H2,1H3,(H,10,11)(H,13,14)(H,15,16)/p-2/t6-/m0/s1

> <INCHI_KEY>
RVHKMLVNOXVQRH-LURJTMIESA-L

> <FORMULA>
C9H11NO6

> <MOLECULAR_WEIGHT>
229.189

> <EXACT_MASS>
229.059734238

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
27

> <JCHEM_AVERAGE_POLARIZABILITY>
20.685028758459936

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
-2

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2S)-2-acetamido-6-oxoheptanedioate

> <ALOGPS_LOGP>
-0.47

> <JCHEM_LOGP>
-0.379227084

> <ALOGPS_LOGS>
-1.03

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
3.73635369693972

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.908144165388098

> <JCHEM_PKA_STRONGEST_BASIC>
-1.8004060199846124

> <JCHEM_POLAR_SURFACE_AREA>
126.43

> <JCHEM_REFRACTIVITY>
72.3527

> <JCHEM_ROTATABLE_BOND_COUNT>
7

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.47e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
L-2-acetamido-6-oxopimelate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 30-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   30-APR-22         0                                  
HETATM    1  C   UNK     0       4.263   4.001   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       5.596   4.771   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       5.596   6.311   0.000  0.00  0.00           O+0
HETATM    4  N   UNK     0       6.930   4.001   0.000  0.00  0.00           N+0
HETATM    5  C   UNK     0       8.264   4.771   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       9.597   4.001   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      10.931   4.771   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      12.265   4.001   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      13.598   4.771   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      13.598   6.311   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0      14.932   4.001   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      16.266   4.771   0.000  0.00  0.00           O-1
HETATM   13  O   UNK     0      14.932   2.461   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0       8.264   6.311   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       9.597   7.081   0.000  0.00  0.00           O-1
HETATM   16  O   UNK     0       6.930   7.081   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5                                                       
CONECT    5    4    6   14                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   13                                                  
CONECT   12   11                                                            
CONECT   13   11                                                            
CONECT   14    5   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14                                                            
MASTER        0    0    0    0    0    0    0    0   16    0   30    0
END

Synonyms

Value	Source
(S)-2-Acetamido-6-oxopimelate	ChEBI
(S)-2-Acetamido-6-oxopimelate dianion	ChEBI
L-2-Acetamido-6-oxoheptanedioate	ChEBI
(S)-2-Acetamido-6-oxopimelic acid	Generator
(S)-2-Acetamido-6-oxopimelic acid dianion	Generator
L-2-Acetamido-6-oxoheptanedioic acid	Generator
(S)-2-Acetamido-6-oxopimelic acid(2-)	Generator

Molecular Formula

C₉H₁₁NO₆

Average Mass

229.189

Monoisotopic Mass

229.059734238

IUPAC Name

(2S)-2-acetamido-6-oxoheptanedioate

Traditional Name

L-2-acetamido-6-oxopimelate

CAS Registry Number

Not Available

SMILES

CC(=O)N[C@@H](CCCC(=O)C([O-])=O)C([O-])=O

InChI Identifier

InChI=1S/C9H13NO6/c1-5(11)10-6(8(13)14)3-2-4-7(12)9(15)16/h6H,2-4H2,1H3,(H,10,11)(H,13,14)(H,15,16)/p-2/t6-/m0/s1

InChI Key

RVHKMLVNOXVQRH-LURJTMIESA-L

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
Medium-chain keto acid
Amino fatty acid
Alpha-keto acid
Dicarboxylic acid or derivatives
Keto acid
Fatty acyl
Acetamide
Carboxamide group
Ketone
Secondary carboxylic acid amide
Carboxylic acid
Organooxygen compound
Hydrocarbon derivative
Organic oxide
Organopnictogen compound
Carbonyl group
Organic oxygen compound
Organic nitrogen compound
Organonitrogen compound
Organic anion
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

dicarboxylic acid dianion (CHEBI:58117 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	24.7 g/L	ALOGPS
logP	-0.47	ALOGPS
logP	-0.38	ChemAxon
logS	-1	ALOGPS
pKa (Strongest Acidic)	2.91	ChemAxon
pKa (Strongest Basic)	-1.8	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	126.43 Å²	ChemAxon
Rotatable Bond Count	7	ChemAxon
Refractivity	72.35 m³·mol⁻¹	ChemAxon
Polarizability	20.69 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

Not Available

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

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0008084	Oxoglutaric acid	N_Acetyl_L_2_amino_6_oxopimelate	Not Available	Acetyl-L,L-diaminopimelate aminotransferase	VMH	30371894
MMDBr0008087	Acetyl-CoA	N_Acetyl_L_2_amino_6_oxopimelate	Not Available	Apolipoprotein N acyl transferase	VMH	30371894
MMDBr0013184	(S)-2,3,4,5-tetrahydrodipicolinate	CoA	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase	Acetylation	RHEA	34755880
MMDBr0014551	alpha-Ketoglutarate	N_Acetyl_L_2_amino_6_oxopimelate	Probable N-acetyl-LL-diaminopimelate aminotransferase	Amine group addition	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	Synergistetes	3	Human feces	Metabolic reconstruction
Bacteria	Firmicutes	321	Human feces; Human ; Pig ; Human supragingival plaque; Human saliva; Cattle ; Human subgingival plaque; Catfish	Metabolic reconstruction
Bacteria	Spirochaetes	1	Human feces	Metabolic reconstruction
Bacteria	Actinobacteria	22	Human feces; Human ; Human supragingival plaque; Human subgingival plaque	Metabolic reconstruction
Bacteria	Fusobacteria	6	Human feces; Human	Metabolic reconstruction
Bacteria	Proteobacteria	13	Human feces; Human sputum; Human unknown; Human	Metabolic reconstruction
Bacteria	Bacteroidetes	27	Human feces; Human appendix biopsy; Human	Metabolic reconstruction
Bacteria	Thermotogae	10
Bacteria/NULL	Firmicutes	1	Human feces; Human ; Pig ; Human supragingival plaque; Human saliva; Cattle ; Human subgingival plaque; Catfish	Metabolic reconstruction
Archaea/Archaea	Euryarchaeota	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

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

4573912

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

5460353

PDB ID

Not Available

ChEBI ID

58117

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Noronha A, Modamio J, Jarosz Y, Guerard E, Sompairac N, Preciat G, Danielsdottir AD, Krecke M, Merten D, Haraldsdottir HS, Heinken A, Heirendt L, Magnusdottir S, Ravcheev DA, Sahoo S, Gawron P, Friscioni L, Garcia B, Prendergast M, Puente A, Rodrigues M, Roy A, Rouquaya M, Wiltgen L, Zagare A, John E, Krueger M, Kuperstein I, Zinovyev A, Schneider R, Fleming RMT, Thiele I: The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease. Nucleic Acids Res. 2019 Jan 8;47(D1):D614-D624. doi: 10.1093/nar/gky992. [PubMed:30371894 ]
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 N_Acetyl_L_2_amino_6_oxopimelate (MMDBc0049869)

MOL for #<Metabolite:0x000055d24b082d20>

3D MOL for #<Metabolite:0x000055d24b082d20>

3D SDF for #<Metabolite:0x000055d24b082d20>

3D-SDF for #<Metabolite:0x000055d24b082d20>

PDB for #<Metabolite:0x000055d24b082d20>

3D PDB for #<Metabolite:0x000055d24b082d20>

SMILES for #<Metabolite:0x000055d24b082d20>

INCHI for #<Metabolite:0x000055d24b082d20>

Structure for #<Metabolite:0x000055d24b082d20>

3D Structure for #<Metabolite:0x000055d24b082d20>