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Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2013-01-09 12:11:23 UTC
Update Date2023-02-21 17:29:15 UTC
HMDB IDHMDB0059721
Secondary Accession Numbers
  • HMDB59721
Metabolite Identification
Common Namemono-Benzyl malonate
Descriptionmono-Benzyl malonate (CAS Number 40204-26-0) is a white crystalline, with 47-51C melting point. Malonate is a competitive inhibitor of the enzyme succinate dehydrogenase: malonate binds to the active site of the enzyme without reacting, and so competes with succinate, the usual substrate of the enzyme. The observation that malonate is a competitive inhibitor of succinate dehydrogenase was used to deduce the structure of the active site in that enzyme.
Structure
Data?1677000555
Synonyms
ValueSource
2-Benzyloxycarbonylacetic acidChEBI
Benzyl hemimalonateChEBI
Benzyl hydrogen malonateChEBI
Monobenzyl malonateChEBI
2-BenzyloxycarbonylacetateGenerator
Benzyl hemimalonic acidGenerator
Benzyl hydrogen malonic acidGenerator
Monobenzyl malonic acidGenerator
mono-Benzyl malonic acidGenerator
3-(Benzyloxy)-3-oxopropanoateHMDB
mono-Benzyl malonateChEBI
Chemical FormulaC10H10O4
Average Molecular Weight194.184
Monoisotopic Molecular Weight194.057908808
IUPAC Name3-(benzyloxy)-3-oxopropanoic acid
Traditional Name3-(benzyloxy)-3-oxopropanoic acid
CAS Registry Number40204-26-0
SMILES
OC(=O)CC(=O)OCC1=CC=CC=C1
InChI Identifier
InChI=1S/C10H10O4/c11-9(12)6-10(13)14-7-8-4-2-1-3-5-8/h1-5H,6-7H2,(H,11,12)
InChI KeyCFLAHQSWDKNWPW-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as benzyloxycarbonyls. These are organic compounds containing a carbonyl group substituted with a benzyloxyl group.
KingdomOrganic compounds
Super ClassBenzenoids
ClassBenzene and substituted derivatives
Sub ClassBenzyloxycarbonyls
Direct ParentBenzyloxycarbonyls
Alternative Parents
Substituents
  • Benzyloxycarbonyl
  • 1,3-dicarbonyl compound
  • Dicarboxylic acid or derivatives
  • Carboxylic acid ester
  • Carboxylic acid
  • Carboxylic acid derivative
  • Organic oxygen compound
  • Organic oxide
  • Hydrocarbon derivative
  • Organooxygen compound
  • Carbonyl group
  • Aromatic homomonocyclic compound
Molecular FrameworkAromatic homomonocyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
DispositionNot Available
ProcessNot Available
RoleNot Available
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility1.82 g/LALOGPS
logP1.63ALOGPS
logP1.54ChemAxon
logS-2ALOGPS
pKa (Strongest Acidic)4.04ChemAxon
pKa (Strongest Basic)-7.2ChemAxon
Physiological Charge-1ChemAxon
Hydrogen Acceptor Count3ChemAxon
Hydrogen Donor Count1ChemAxon
Polar Surface Area63.6 ŲChemAxon
Rotatable Bond Count5ChemAxon
Refractivity48.37 m³·mol⁻¹ChemAxon
Polarizability19.12 ųChemAxon
Number of Rings1ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+146.91731661259
DarkChem[M-H]-142.32831661259
DeepCCS[M+H]+136.86130932474
DeepCCS[M-H]-134.28930932474
DeepCCS[M-2H]-169.96130932474
DeepCCS[M+Na]+145.19930932474
AllCCS[M+H]+141.332859911
AllCCS[M+H-H2O]+137.232859911
AllCCS[M+NH4]+145.032859911
AllCCS[M+Na]+146.132859911
AllCCS[M-H]-142.132859911
AllCCS[M+Na-2H]-142.732859911
AllCCS[M+HCOO]-143.532859911

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
mono-Benzyl malonateOC(=O)CC(=O)OCC1=CC=CC=C12949.3Standard polar33892256
mono-Benzyl malonateOC(=O)CC(=O)OCC1=CC=CC=C11594.3Standard non polar33892256
mono-Benzyl malonateOC(=O)CC(=O)OCC1=CC=CC=C11650.8Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
mono-Benzyl malonate,1TMS,isomer #1C[Si](C)(C)OC(=O)CC(=O)OCC1=CC=CC=C11637.0Semi standard non polar33892256
mono-Benzyl malonate,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)OC(=O)CC(=O)OCC1=CC=CC=C11875.0Semi standard non polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - mono-Benzyl malonate GC-MS (Non-derivatized) - 70eV, Positivesplash10-0006-9000000000-6b1a4a9720541fc00ae12017-09-20Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - mono-Benzyl malonate GC-MS (1 TMS) - 70eV, Positivesplash10-0006-9200000000-f4268e7d373356128e9c2017-10-06Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - mono-Benzyl malonate GC-MS (Non-derivatized) - 70eV, PositiveNot Available2021-10-12Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - mono-Benzyl malonate GC-MS (Non-derivatized) - 70eV, PositiveNot Available2021-10-12Wishart LabView Spectrum

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 10V, Positive-QTOFsplash10-004m-3900000000-316f3ee4fbeecdff9eaf2017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 20V, Positive-QTOFsplash10-0006-9400000000-ec0fbba7229e99eec4202017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 40V, Positive-QTOFsplash10-0006-9000000000-3405e408b232444042582017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 10V, Negative-QTOFsplash10-000y-3900000000-0c10b18e004322e695ad2017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 20V, Negative-QTOFsplash10-0535-9700000000-7a9d2474c64c0c8e3b432017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 40V, Negative-QTOFsplash10-054o-9000000000-340b57c0ec0d07cea6542017-10-06Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 10V, Negative-QTOFsplash10-0a6r-5900000000-d1fa0677487aec2061882021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 20V, Negative-QTOFsplash10-0a6r-9600000000-e35362bf47f59c52e9762021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 40V, Negative-QTOFsplash10-004i-9000000000-7ddf31a4f6981f0e5c9b2021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 10V, Positive-QTOFsplash10-0006-9000000000-ca194f7538a67677f6522021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 20V, Positive-QTOFsplash10-0006-9100000000-06be25190534745bac172021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - mono-Benzyl malonate 40V, Positive-QTOFsplash10-00kf-9000000000-53847dcb7d19f02dbe862021-09-25Wishart LabView Spectrum

IR Spectra

Spectrum TypeDescriptionDeposition DateSourceView
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M-H]-)2023-02-04FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+H]+)2023-02-04FELIX labView Spectrum
Predicted IR SpectrumIR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+Na]+)2023-02-04FELIX labView Spectrum
Biological Properties
Cellular LocationsNot Available
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound181659
PDB IDNot Available
ChEBI ID84093
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General ReferencesNot Available