MiMeDB: Showing metabocard for 4-formylaminooxyvinylglycine (MMDBc0018580)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-15 08:45:50 UTC

Update Date

2025-10-07 16:06:51 UTC

Metabolite ID

MMDBc0018580

Metabolite Identification

Common Name

4-formylaminooxyvinylglycine

Description

4-formylaminooxyvinylglycine is a nonproteinogenic amino acid belonging to the class of secondary metabolites. It is produced by various strains of the Pseudomonas fluorescens species complex and exhibits herbicidal and antibacterial properties. The chemical structure of 4-formylaminooxyvinylglycine features a formyl group and an aminooxyvinyl moiety, which contribute to its biological activity. This compound is involved in several biochemical pathways, notably in the biosynthesis of herbicides and antibiotics, as evidenced by its ability to inhibit the germination of weedy grasses and the growth of the bacterial plant pathogen Erwinia amylovora (PMID:29990341 ). The unexpected distribution of its biosynthetic pathway across different Pseudomonas strains suggests a broader ecological role (PMID:33891610 ). Additionally, the production of 4-formylaminooxyvinylglycine has been linked to resource allocation in Pseudomonas fluorescens, where its absence leads to a shift towards rhizocompetence (PMID:33807194 ). Detection of this compound in culture filtrates highlights its significance in microbial interactions within the rhizosphere (PMID:29990341 ). Overall, 4-formylaminooxyvinylglycine represents a fascinating intersection of chemistry and microbial ecology.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305152110452D          

 14 13  0  0  1  0            999 V2000
   -0.4125   -2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -2.8579    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.4125   -3.5724    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250   -2.8579    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375    0.7145    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000   -4.2868    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2375   -3.5724    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125   -0.7145    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2375   -2.1434    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250   -1.4289    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8250   -2.8579    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  4  1  1  0  0  0  0
  5  4  1  0  0  0  0
  4  6  1  1  0  0  0
  7  3  2  0  0  0  0
  3  8  1  4  0  0  0
  9  5  2  0  0  0  0
 10  5  1  0  0  0  0
 11  2  1  0  0  0  0
 11  7  1  0  0  0  0
 12  1  1  0  0  0  0
 13  2  1  0  0  0  0
  4 14  1  1  0  0  0
M  END
> <DATABASE_ID>
MMDBc0018580

> <DATABASE_NAME>
MIME

> <SMILES>
[H]\C(ON=CO)=C(\[H])[C@]([H])(N)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C5H8N2O4/c6-4(5(9)10)1-2-11-7-3-8/h1-4H,6H2,(H,7,8)(H,9,10)/b2-1+/t4-/m0/s1

> <INCHI_KEY>
BICCALWGKRVQAV-QPHDTYRISA-N

> <FORMULA>
C5H8N2O4

> <MOLECULAR_WEIGHT>
160.129

> <EXACT_MASS>
160.048406746

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
19

> <JCHEM_AVERAGE_POLARIZABILITY>
14.387981856670923

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S,3E)-2-amino-4-{[(hydroxymethylidene)amino]oxy}but-3-enoic acid

> <ALOGPS_LOGP>
-2.89

> <JCHEM_LOGP>
-3.0706333708148095

> <ALOGPS_LOGS>
-1.24

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
3.61980454537518

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.7812840843236222

> <JCHEM_PKA_STRONGEST_BASIC>
8.875662455806973

> <JCHEM_POLAR_SURFACE_AREA>
105.14000000000001

> <JCHEM_REFRACTIVITY>
35.3718

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
9.20e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2S,3E)-2-amino-4-{[(hydroxymethylidene)amino]oxy}but-3-enoic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-MAY-21         0                                  
HETATM    1  C   UNK     0      -0.770  -4.001   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.000  -2.667   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       1.540   0.000   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.000  -5.335   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.770  -6.668   0.000  0.00  0.00           C+0
HETATM    6  N   UNK     0       1.540  -5.335   0.000  0.00  0.00           N+0
HETATM    7  N   UNK     0       0.000   0.000   0.000  0.00  0.00           N+0
HETATM    8  O   UNK     0       2.310   1.334   0.000  0.00  0.00           O+0
HETATM    9  O   UNK     0       0.000  -8.002   0.000  0.00  0.00           O+0
HETATM   10  O   UNK     0      -2.310  -6.668   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0      -0.770  -1.334   0.000  0.00  0.00           O+0
HETATM   12  H   UNK     0      -2.310  -4.001   0.000  0.00  0.00           H+0
HETATM   13  H   UNK     0       1.540  -2.667   0.000  0.00  0.00           H+0
HETATM   14  H   UNK     0      -1.540  -5.335   0.000  0.00  0.00           H+0
CONECT    1    2    4   12                                                  
CONECT    2    1   11   13                                                  
CONECT    3    7    8                                                       
CONECT    4    1    5    6   14                                             
CONECT    5    4    9   10                                                  
CONECT    6    4                                                            
CONECT    7    3   11                                                       
CONECT    8    3                                                            
CONECT    9    5                                                            
CONECT   10    5                                                            
CONECT   11    2    7                                                       
CONECT   12    1                                                            
CONECT   13    2                                                            
CONECT   14    4                                                            
MASTER        0    0    0    0    0    0    0    0   14    0   26    0
END

Synonyms

Value	Source
2-Amino-4-formylaminooxy-but-3E-enoate	Generator
4-Formylaminooxyvinylglycine	MeSH

Molecular Formula

C₅H₈N₂O₄

Average Mass

160.129

Monoisotopic Mass

160.048406746

IUPAC Name

(2S,3E)-2-amino-4-{[(hydroxymethylidene)amino]oxy}but-3-enoic acid

Traditional Name

(2S,3E)-2-amino-4-{[(hydroxymethylidene)amino]oxy}but-3-enoic acid

CAS Registry Number

Not Available

SMILES

[H]\C(ON=CO)=C(\[H])[C@]([H])(N)C(O)=O

InChI Identifier

InChI=1S/C5H8N2O4/c6-4(5(9)10)1-2-11-7-3-8/h1-4H,6H2,(H,7,8)(H,9,10)/b2-1+/t4-/m0/s1

InChI Key

BICCALWGKRVQAV-QPHDTYRISA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as l-alpha-amino acids. These are 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

L-alpha-amino acids

Alternative Parents

Substituents

L-alpha-amino acid
Unsaturated fatty acid
Fatty acid
Fatty acyl
Amino acid
Carboxylic acid
Monocarboxylic acid or derivatives
Amine
Hydrocarbon derivative
Organic oxide
Organopnictogen compound
Primary amine
Organooxygen compound
Organonitrogen compound
Organic oxygen compound
Primary aliphatic amine
Organic nitrogen compound
Carbonyl group
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

non-proteinogenic alpha-amino acid (CHEBI:70420 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	9.2 g/L	ALOGPS
logP	-2.9	ALOGPS
logP	-3.1	ChemAxon
logS	-1.2	ALOGPS
pKa (Strongest Acidic)	1.78	ChemAxon
pKa (Strongest Basic)	8.88	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	105.14 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	35.37 m³·mol⁻¹	ChemAxon
Polarizability	14.39 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Not Available

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)	2025-10-23	480.1
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-23	324.8
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (void)	2025-10-23	48.1
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-23	246.0
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-23	281.4
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (void)	2025-10-23	337.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-23	596.5
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	729.8
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-23	848.1
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	180.7
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	365.4
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (void)	2025-10-23	194.8
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-23	53.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	358.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	636.5
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (void)	2025-10-23	68.6
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	232.6
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-23	827.4
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-23	636.7

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_1	C[Si](C)(C)OC=NO/C=C/[C@H](N)C(=O)O	standard non polar	2025-10-23	2299.56
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_2	C[Si](C)(C)OC(=O)[C@@H](N)/C=C/ON=CO	standard non polar	2025-10-23	1972.74
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_3	C[Si](C)(C)N[C@@H](/C=C/ON=CO)C(=O)O	standard non polar	2025-10-23	1507.32
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_4	C[Si](C)(C)OC=NO/C=C/[C@H](N)C(=O)O[Si](C)(C)C	standard non polar	2025-10-23	1135.59
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_5	C[Si](C)(C)N[C@@H](/C=C/ON=CO[Si](C)(C)C)C(=O)O	standard non polar	2025-10-23	1404.09
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_6	C[Si](C)(C)N[C@@H](/C=C/ON=CO)C(=O)O[Si](C)(C)C	standard non polar	2025-10-23	1856.89
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_7	C[Si](C)(C)N([C@@H](/C=C/ON=CO)C(=O)O)[Si](C)(C)C	standard non polar	2025-10-23	1599.81
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_8	C[Si](C)(C)N[C@@H](/C=C/ON=CO[Si](C)(C)C)C(=O)O[Si](C)(C)C	standard non polar	2025-10-23	1541.12
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_9	C[Si](C)(C)OC=NO/C=C/[C@@H](C(=O)O)N([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-23	2384.15
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_10	C[Si](C)(C)OC(=O)[C@H](/C=C/ON=CO)N([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-23	2281.89
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_11	C[Si](C)(C)OC=NO/C=C/[C@@H](C(=O)O[Si](C)(C)C)N([Si](C)(C)C)[Si](C)(C)C	standard non polar	2025-10-23	1637.26
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_1	C[Si](C)(C)OC=NO/C=C/[C@H](N)C(=O)O	standard polar	2025-10-23	2222.58
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_2	C[Si](C)(C)OC(=O)[C@@H](N)/C=C/ON=CO	standard polar	2025-10-23	2043.08
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_3	C[Si](C)(C)N[C@@H](/C=C/ON=CO)C(=O)O	standard polar	2025-10-23	2233.05
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_4	C[Si](C)(C)OC=NO/C=C/[C@H](N)C(=O)O[Si](C)(C)C	standard polar	2025-10-23	2102.98
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_5	C[Si](C)(C)N[C@@H](/C=C/ON=CO[Si](C)(C)C)C(=O)O	standard polar	2025-10-23	2764.55
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_6	C[Si](C)(C)N[C@@H](/C=C/ON=CO)C(=O)O[Si](C)(C)C	standard polar	2025-10-23	2591.97
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_7	C[Si](C)(C)N([C@@H](/C=C/ON=CO)C(=O)O)[Si](C)(C)C	standard polar	2025-10-23	1698.52
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_8	C[Si](C)(C)N[C@@H](/C=C/ON=CO[Si](C)(C)C)C(=O)O[Si](C)(C)C	standard polar	2025-10-23	1076.47
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_9	C[Si](C)(C)OC=NO/C=C/[C@@H](C(=O)O)N([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-23	1786.88
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_10	C[Si](C)(C)OC(=O)[C@H](/C=C/ON=CO)N([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-23	2303.59
Gas Chromatography	4-formylaminooxyvinylglycine_TMS_11	C[Si](C)(C)OC=NO/C=C/[C@@H](C(=O)O[Si](C)(C)C)N([Si](C)(C)C)[Si](C)(C)C	standard polar	2025-10-23	2557.62

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/Eubacteria	Proteobacteria	1		Metabolic reconstruction

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

28288253

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

70698184

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for 4-formylaminooxyvinylglycine (MMDBc0018580)

MOL for #<Metabolite:0x00007f9aad77d0b8>

3D MOL for #<Metabolite:0x00007f9aad77d0b8>

3D SDF for #<Metabolite:0x00007f9aad77d0b8>

3D-SDF for #<Metabolite:0x00007f9aad77d0b8>

PDB for #<Metabolite:0x00007f9aad77d0b8>

3D PDB for #<Metabolite:0x00007f9aad77d0b8>

SMILES for #<Metabolite:0x00007f9aad77d0b8>

INCHI for #<Metabolite:0x00007f9aad77d0b8>

Structure for #<Metabolite:0x00007f9aad77d0b8>

3D Structure for #<Metabolite:0x00007f9aad77d0b8>