MiMeDB: Showing metabocard for L-Prolinylglycine (MMDBc0030318)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-18 00:03:16 UTC

Update Date

2022-08-31 17:43:39 UTC

Metabolite ID

MMDBc0030318

Metabolite Identification

Common Name

L-Prolinylglycine

Description

Prolinylglycine is a dipeptide. It is a proteolytic breakdown product of larger proteins. E. coli can use this dipeptide as a substrate for carbon/nitrogen metabolism and a source of proline. It is transported via DppA, which appears to be both a dipeptide transporter and a dipeptidase. Pro-Gly utilization does not require any of the three major proline transport systems. [PMID:1702779 ]

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      24.799 -15.631   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0      24.789 -17.166   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0      23.465 -14.861   0.000  0.00  0.00           C+0
HETATM    4  N   UNK     0      23.304 -13.333   0.000  0.00  0.00           N+0
HETATM    5  C   UNK     0      21.797 -13.008   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      21.027 -14.342   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      22.057 -15.494   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0      26.119 -14.864   0.000  0.00  0.00           N+0
HETATM    9  C   UNK     0      28.781 -14.872   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      28.781 -13.331   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0      27.452 -15.633   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      30.114 -15.642   0.000  0.00  0.00           O+0
CONECT    1    2    3    8                                                  
CONECT    2    1                                                            
CONECT    3    1    4    7                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    3    6                                                       
CONECT    8    1   11                                                       
CONECT    9   10   11   12                                                  
CONECT   10    9                                                            
CONECT   11    9    8                                                       
CONECT   12    9                                                            
MASTER        0    0    0    0    0    0    0    0   12    0   24    0
END

Synonyms

Value	Source
pro-Gly	MeSH, HMDB
2-{[hydroxy(pyrrolidin-2-yl)methylidene]amino}acetate	Generator
Prolylglycine	MeSH
L-Prolylglycine	MeSH

Molecular Formula

C₇H₁₂N₂O₃

Average Mass

172.1818

Monoisotopic Mass

172.08479226

IUPAC Name

2-(pyrrolidin-2-ylformamido)acetic acid

Traditional Name

(pyrrolidin-2-ylformamido)acetic acid

CAS Registry Number

2578-57-6

SMILES

OC(=O)CNC(=O)C1CCCN1

InChI Identifier

InChI=1S/C7H12N2O3/c10-6(11)4-9-7(12)5-2-1-3-8-5/h5,8H,1-4H2,(H,9,12)(H,10,11)

InChI Key

RNKSNIBMTUYWSH-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Dipeptides

Alternative Parents

Substituents

Alpha-dipeptide
Proline or derivatives
N-acyl-alpha-amino acid
N-acyl-alpha amino acid or derivatives
Alpha-amino acid amide
Alpha-amino acid or derivatives
Pyrrolidine carboxylic acid or derivatives
Pyrrolidine-2-carboxamide
Pyrrolidine
Amino acid or derivatives
Carboxamide group
Amino acid
Secondary carboxylic acid amide
Carboxylic acid
Secondary aliphatic amine
Monocarboxylic acid or derivatives
Azacycle
Organoheterocyclic compound
Secondary amine
Organic oxygen compound
Organic nitrogen compound
Organic oxide
Hydrocarbon derivative
Amine
Organonitrogen compound
Organooxygen compound
Organopnictogen compound
Carbonyl group
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Solid

Predicted Properties

Property	Value	Source
Water Solubility	6.91 g/L	ALOGPS
logP	-2.9	ALOGPS
logP	-3.7	ChemAxon
logS	-1.4	ALOGPS
pKa (Strongest Acidic)	3.66	ChemAxon
pKa (Strongest Basic)	9.81	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	78.43 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	40.87 m³·mol⁻¹	ChemAxon
Polarizability	17.07 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 (Non-derivatized) - 70eV, Positive	splash10-00dj-9100000000-4d7d520bcf42236ce87a	2017-09-01	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (1 TMS) - 70eV, Positive	splash10-00di-9400000000-81603299bf10699df153	2017-10-06	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-00di-6900000000-057d72c7813e86a7fd98	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-00di-9100000000-05a4b0dbdd1dc09295e4	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-00dl-9000000000-36b9e0d3dbb8b2f9ae2f	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-00di-1900000000-0034ef8a997bcb9ff06a	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-00di-8900000000-128eb62510d75852e054	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-05fu-9000000000-da6e1d91757d26d9b0b2	2015-09-15	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-22	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-22	View Spectrum

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
MMDBr0005396	Hydrogen Ion	Hydrogen Ion	Solute carrier family 15 (oligopeptide transporter), member 1	Transport of Prolylglycine by the Apical Pept1 Amino Acid Transporters	VMH	30371894
MMDBr0005397	Water	Glycine	Peptidase d	Hydrolysis of Glycylproline	VMH	30371894
MMDBr0006165	L-Prolinylglycine	L-Prolinylglycine	Not Available	Transport of Prolylglycine	VMH	30371894
MMDBr0006628	L-Prolinylglycine	Hydrogen Ion	Not Available	Metabolism (Formation/Degradation) of TrpProGly	VMH	30371894

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 ; Human feces; Human feces; pleural fluid plaque; bal; Human stool	Unknown

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

HMDB0011178

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB027950

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

98206

PDB ID

Not Available

ChEBI ID

Not Available

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 ]

Showing metabocard for L-Prolinylglycine (MMDBc0030318)

MOL for #<Metabolite:0x00007fa4eac1ccf8>

3D MOL for #<Metabolite:0x00007fa4eac1ccf8>

3D SDF for #<Metabolite:0x00007fa4eac1ccf8>

3D-SDF for #<Metabolite:0x00007fa4eac1ccf8>

PDB for #<Metabolite:0x00007fa4eac1ccf8>

3D PDB for #<Metabolite:0x00007fa4eac1ccf8>

SMILES for #<Metabolite:0x00007fa4eac1ccf8>

INCHI for #<Metabolite:0x00007fa4eac1ccf8>

Structure for #<Metabolite:0x00007fa4eac1ccf8>

3D Structure for #<Metabolite:0x00007fa4eac1ccf8>