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Record Information

Version

5.0

Status

Expected but not Quantified

Creation Date

2012-09-11 22:21:28 UTC

Update Date

2023-02-21 17:25:35 UTC

HMDB ID

HMDB0037114

Secondary Accession Numbers

HMDB37114

Metabolite Identification

Common Name

Methyl (R)-3-methyl-2-oxopentanoate

Description

Methyl (R)-3-methyl-2-oxopentanoate belongs to the class of organic compounds known as fatty acid esters. These are carboxylic ester derivatives of a fatty acid. Based on a literature review a significant number of articles have been published on Methyl (R)-3-methyl-2-oxopentanoate.

Structure

MOL 3D MOL SDF 3D SDF PDB 3D PDB SMILES InChI

View in JSmol View NMR Assignments View Stereo Labels

Synonyms

Value	Source
Methyl (R)-3-methyl-2-oxopentanoic acid	Generator
FEMA 3713	HMDB
Methyl 2-keto-3-methylvalerate	HMDB
Methyl 2-oxo-3-methylpentanoate	HMDB
Methyl 3-methyl-2-oxopentanoate	HMDB
Methyl 3-methyl-2-oxovalerate	HMDB
Pentanoic acid, 3-methyl-2-oxo-, methyl ester	HMDB
Valeric acid, 3-methyl-2-oxo-, methyl ester	HMDB

Chemical Formula

C₇H₁₂O₃

Average Molecular Weight

144.1684

Monoisotopic Molecular Weight

144.07864425

IUPAC Name

methyl 3-methyl-2-oxopentanoate

Traditional Name

methyl 3-methyl-2-oxopentanoate

CAS Registry Number

3682-42-6

SMILES

CCC(C)C(=O)C(=O)OC

InChI Identifier

InChI=1S/C7H12O3/c1-4-5(2)6(8)7(9)10-3/h5H,4H2,1-3H3

InChI Key

ZPSBJVARKCHQDF-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as fatty acid esters. These are carboxylic ester derivatives of a fatty acid.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Fatty Acyls

Sub Class

Fatty acid esters

Direct Parent

Fatty acid esters

Alternative Parents

Substituents

Fatty acid ester
Keto acid
Alpha-keto acid
Methyl ester
Ketone
Carboxylic acid ester
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

Not Available

Ontology

Physiological effect

Not Available

Disposition

Biological location

Cellular substructure

Excreta

Biofluid or Excreta

Urine (HMDB: HMDB0037114)

Route of exposure

Enteral

Ingestion (HMDB: HMDB0037114)

Source

Endogenous

Endogenous (HMDB: HMDB0037114)

Animal

Animal (HMDB: HMDB0037114)

Exogenous

Food

Food (HMDB: HMDB0037114)

Exogenous (HMDB: HMDB0037114)

Process

Naturally occurring process

Biological process

Chemical reaction

Lipid Peroxidation (HMDB: HMDB0037114)

Biochemical pathway

Metabolic pathway

Fatty Acid Metabolism (HMDB: HMDB0037114)

Lipid metabolism pathway (HMDB: HMDB0037114)

Cellular process

Cell signaling (HMDB: HMDB0037114)

Biochemical process

Lipid transport (HMDB: HMDB0037114)

Role

Biological role

Energy source (HMDB: HMDB0037114)

Industrial application

Manufacturing industry

Material processing agent

Fluid processing agent

Surfactant

Surfactant (HMDB: HMDB0037114)

Food and nutrition

Food additive

Flavoring agent

Flavoring Agent (HMDB: HMDB0037114)

Physical Properties

State

Not Available

Experimental Molecular Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	197.00 °C. @ 760.00 mm Hg	The Good Scents Company Information System
Water Solubility	0	The Good Scents Company Information System
LogP	0.927 (est)	The Good Scents Company Information System

Experimental Chromatographic Properties

Not Available

Predicted Molecular Properties

Property	Value	Source
Water Solubility	5.78 g/L	ALOGPS
logP	1.18	ALOGPS
logP	2.13	ChemAxon
logS	-1.4	ALOGPS
pKa (Strongest Acidic)	18.65	ChemAxon
pKa (Strongest Basic)	-7.7	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	43.37 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	36.56 m³·mol⁻¹	ChemAxon
Polarizability	15.07 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

Predicted Chromatographic Properties

Predicted Collision Cross Sections

Predictor	Adduct Type	CCS Value (Å²)	Reference
DarkChem	[M+H]+	133.266	31661259
DarkChem	[M-H]-	129.913	31661259
DeepCCS	[M+H]+	125.926	30932474
DeepCCS	[M-H]-	122.091	30932474
DeepCCS	[M-2H]-	159.026	30932474
DeepCCS	[M+Na]+	134.57	30932474
AllCCS	[M+H]+	134.0	32859911
AllCCS	[M+H-H2O]+	129.9	32859911
AllCCS	[M+NH4]+	137.7	32859911
AllCCS	[M+Na]+	138.8	32859911
AllCCS	[M-H]-	132.6	32859911
AllCCS	[M+Na-2H]-	135.0	32859911
AllCCS	[M+HCOO]-	137.7	32859911

Predicted Retention Times

Underivatized

Chromatographic Method	Retention Time	Reference
Measured using a Waters Acquity ultraperformance liquid chromatography (UPLC) ethylene-bridged hybrid (BEH) C18 column (100 mm × 2.1 mm; 1.7 μmparticle diameter). Predicted by Afia on May 17, 2022. Predicted by Afia on May 17, 2022.	4.13 minutes	32390414
Predicted by Siyang on May 30, 2022	13.8871 minutes	33406817
Predicted by Siyang using ReTip algorithm on June 8, 2022	3.1 minutes	32390414
AjsUoB = Accucore 150 Amide HILIC with 10mM Ammonium Formate, 0.1% Formic Acid	27.9 seconds	40023050
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid	1877.5 seconds	40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid	478.8 seconds	40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid	169.3 seconds	40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid	300.4 seconds	40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid	106.4 seconds	40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid	517.9 seconds	40023050
BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid	612.4 seconds	40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)	100.1 seconds	40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid	1093.6 seconds	40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid	398.5 seconds	40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid	1245.1 seconds	40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid	325.9 seconds	40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid	337.6 seconds	40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate	436.8 seconds	40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA	423.6 seconds	40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water	45.1 seconds	40023050

Predicted Kovats Retention Indices

Underivatized

Metabolite	SMILES	Kovats RI Value	Column Type	Reference
Methyl (R)-3-methyl-2-oxopentanoate	CCC(C)C(=O)C(=O)OC	1216.8	Standard polar	33892256
Methyl (R)-3-methyl-2-oxopentanoate	CCC(C)C(=O)C(=O)OC	870.8	Standard non polar	33892256
Methyl (R)-3-methyl-2-oxopentanoate	CCC(C)C(=O)C(=O)OC	967.5	Semi standard non polar	33892256

Derivatized

Derivative Name / Structure	SMILES	Kovats RI Value	Column Type	Reference
Methyl (R)-3-methyl-2-oxopentanoate,1TMS,isomer #1	CCC(C)=C(O[Si](C)(C)C)C(=O)OC	1198.4	Semi standard non polar	33892256
Methyl (R)-3-methyl-2-oxopentanoate,1TMS,isomer #1	CCC(C)=C(O[Si](C)(C)C)C(=O)OC	1210.0	Standard non polar	33892256
Methyl (R)-3-methyl-2-oxopentanoate,1TBDMS,isomer #1	CCC(C)=C(O[Si](C)(C)C(C)(C)C)C(=O)OC	1397.0	Semi standard non polar	33892256
Methyl (R)-3-methyl-2-oxopentanoate,1TBDMS,isomer #1	CCC(C)=C(O[Si](C)(C)C(C)(C)C)C(=O)OC	1390.0	Standard non polar	33892256

Spectra

GC-MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted GC-MS	Predicted GC-MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate GC-MS (Non-derivatized) - 70eV, Positive	splash10-0570-9100000000-2e190cec27fa82a2b022	2017-09-01	Wishart Lab	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate GC-MS (Non-derivatized) - 70eV, Positive	Not Available	2021-10-12	Wishart Lab	View Spectrum

MS/MS Spectra

Spectrum Type	Description	Splash Key	Deposition Date	Source	View
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 10V, Positive-QTOF	splash10-0002-5900000000-a1655463b076ae6290cb	2016-08-02	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 20V, Positive-QTOF	splash10-0a4i-9300000000-a525ff938cff0cdede56	2016-08-02	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 40V, Positive-QTOF	splash10-0a4i-9000000000-3152e917514c5f858e0b	2016-08-02	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 10V, Negative-QTOF	splash10-0006-1900000000-91d8595780ed56a189d1	2016-08-03	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 20V, Negative-QTOF	splash10-01ox-3900000000-6be07eec583c398e7aae	2016-08-03	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 40V, Negative-QTOF	splash10-0a59-9000000000-85a3b73bef84b2ba48dc	2016-08-03	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 10V, Negative-QTOF	splash10-0006-0900000000-c6b01cb8eb210d998304	2021-09-24	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 20V, Negative-QTOF	splash10-0btc-9600000000-c46f70e71bfc027cd1f2	2021-09-24	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 40V, Negative-QTOF	splash10-0a4i-9000000000-69c4cbff681796f7fa0f	2021-09-24	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 10V, Positive-QTOF	splash10-054k-9600000000-62527e3194fa1c271329	2021-09-24	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 20V, Positive-QTOF	splash10-0a4i-9000000000-dc5840768aef21437131	2021-09-24	Wishart Lab	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - Methyl (R)-3-methyl-2-oxopentanoate 40V, Positive-QTOF	splash10-0a4l-9000000000-7a979e8d4818a0fa0c34	2021-09-24	Wishart Lab	View Spectrum

NMR Spectra

Spectrum Type	Description	Deposition Date	Source	View
Predicted 1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 100 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 200 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 300 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 400 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 500 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 600 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 700 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 800 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum
Predicted 1D NMR	¹³C NMR Spectrum (1D, 900 MHz, D₂O, predicted)	2021-09-25	Wishart Lab	View Spectrum

IR Spectra

Spectrum Type	Description	Deposition Date	Source	View
Predicted IR Spectrum	IR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+H]+)	2023-02-04	FELIX lab	View Spectrum
Predicted IR Spectrum	IR Ion Spectrum (Predicted IRIS Spectrum, Adduct: [M+Na]+)	2023-02-04	FELIX lab	View Spectrum

Biological Properties

Cellular Locations

Cytoplasm
Extracellular
Membrane

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Pathways

Not Available

Name	SMPDB/PathBank	KEGG

Normal Concentrations

Not Available

Abnormal Concentrations

Not Available

Associated Disorders and Diseases

Disease References

None

Associated OMIM IDs

None

External Links

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB016107

KNApSAcK ID

Not Available

Chemspider ID

474461

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

545106

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

VMH ID

Not Available

MarkerDB ID

Not Available

Good Scents ID

rw1037581

References

Synthesis Reference

Not Available

Material Safety Data Sheet (MSDS)

Not Available

General References

Simons K, Toomre D: Lipid rafts and signal transduction. Nat Rev Mol Cell Biol. 2000 Oct;1(1):31-9. [PubMed:11413487 ]
Watson AD: Thematic review series: systems biology approaches to metabolic and cardiovascular disorders. Lipidomics: a global approach to lipid analysis in biological systems. J Lipid Res. 2006 Oct;47(10):2101-11. Epub 2006 Aug 10. [PubMed:16902246 ]
Sethi JK, Vidal-Puig AJ: Thematic review series: adipocyte biology. Adipose tissue function and plasticity orchestrate nutritional adaptation. J Lipid Res. 2007 Jun;48(6):1253-62. Epub 2007 Mar 20. [PubMed:17374880 ]
Lingwood D, Simons K: Lipid rafts as a membrane-organizing principle. Science. 2010 Jan 1;327(5961):46-50. doi: 10.1126/science.1174621. [PubMed:20044567 ]
(). Yannai, Shmuel. (2004) Dictionary of food compounds with CD-ROM: Additives, flavors, and ingredients. Boca Raton: Chapman & Hall/CRC.. .
Gunstone, Frank D., John L. Harwood, and Albert J. Dijkstra (2007). The lipid handbook with CD-ROM. CRC Press.

Showing metabocard for Methyl (R)-3-methyl-2-oxopentanoate (HMDB0037114)

MOL for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

3D MOL for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

3D SDF for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

3D-SDF for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

PDB for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

3D PDB for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

SMILES for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

INCHI for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

Structure for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

3D Structure for HMDB0037114 (Methyl (R)-3-methyl-2-oxopentanoate)

Predicted Collision Cross Sections

Predicted Retention Times

Underivatized

Predicted Kovats Retention Indices

Underivatized

Derivatized

GC-MS Spectra

MS/MS Spectra

NMR Spectra

IR Spectra