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Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2012-09-12 01:18:39 UTC
Update Date2023-02-21 17:27:07 UTC
HMDB IDHMDB0039771
Secondary Accession Numbers
  • HMDB39771
Metabolite Identification
Common NameCyclopentanethiol
DescriptionCyclopentanethiol belongs to the class of organic compounds known as alkylthiols. These are organic compounds containing the thiol functional group linked to an alkyl chain. Cyclopentanethiol is an alliaceous, celery, and citrus tasting compound. Based on a literature review very few articles have been published on Cyclopentanethiol.
Structure
Data?1677000427
Synonyms
ValueSource
Cyclopentyl mercaptanHMDB
Cyclopentyl sulfideHMDB
CyclopentylthiolHMDB
FEMA 3262HMDB
MercaptocyclopentaneHMDB
Chemical FormulaC5H10S
Average Molecular Weight102.198
Monoisotopic Molecular Weight102.05032101
IUPAC Namecyclopentanethiol
Traditional Namecyclopentanethiol
CAS Registry Number1679-07-8
SMILES
SC1CCCC1
InChI Identifier
InChI=1S/C5H10S/c6-5-3-1-2-4-5/h5-6H,1-4H2
InChI KeyWVDYBOADDMMFIY-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as alkylthiols. These are organic compounds containing the thiol functional group linked to an alkyl chain.
KingdomOrganic compounds
Super ClassOrganosulfur compounds
ClassThiols
Sub ClassAlkylthiols
Direct ParentAlkylthiols
Alternative Parents
Substituents
  • Alkylthiol
  • Hydrocarbon derivative
  • Aliphatic homomonocyclic compound
Molecular FrameworkAliphatic homomonocyclic compounds
External DescriptorsNot Available
Ontology
Physiological effect
Disposition
ProcessNot Available
Role
Physical Properties
StateNot Available
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling Point41.00 to 42.00 °C. @ 16.00 mm HgThe Good Scents Company Information System
Water Solubility758 mg/L @ 25 °C (calc.)The Good Scents Company Information System
LogP2.377 (est)The Good Scents Company Information System
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility0.81 g/LALOGPS
logP2.54ALOGPS
logP1.98ChemAxon
logS-2.1ALOGPS
pKa (Strongest Acidic)10.07ChemAxon
pKa (Strongest Basic)-9.7ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count0ChemAxon
Hydrogen Donor Count1ChemAxon
Polar Surface Area0 ŲChemAxon
Rotatable Bond Count0ChemAxon
Refractivity30.75 m³·mol⁻¹ChemAxon
Polarizability12.1 ųChemAxon
Number of Rings1ChemAxon
BioavailabilityYesChemAxon
Rule of FiveYesChemAxon
Ghose FilterNoChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DarkChem[M+H]+119.26831661259
DarkChem[M-H]-112.26831661259
DeepCCS[M+H]+126.39730932474
DeepCCS[M-H]-124.46930932474
DeepCCS[M-2H]-159.87930932474
DeepCCS[M+Na]+134.36930932474
AllCCS[M+H]+123.232859911
AllCCS[M+H-H2O]+118.432859911
AllCCS[M+NH4]+127.832859911
AllCCS[M+Na]+129.132859911
AllCCS[M-H]-126.632859911
AllCCS[M+Na-2H]-130.532859911
AllCCS[M+HCOO]-134.832859911

Predicted Retention Times

Underivatized

Chromatographic MethodRetention TimeReference
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, 2022.3.3 minutes32390414
Predicted by Siyang on May 30, 202214.712 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20223.53 minutes32390414
AjsUoB = Accucore 150 Amide HILIC with 10mM Ammonium Formate, 0.1% Formic Acid80.8 seconds40023050
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid1979.7 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid570.9 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid221.0 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid398.8 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid301.4 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid548.6 seconds40023050
BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid646.7 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)494.0 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid1201.8 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid394.9 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid1263.0 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid432.6 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid396.2 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate737.6 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA617.1 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water181.5 seconds40023050

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
CyclopentanethiolSC1CCCC11122.4Standard polar33892256
CyclopentanethiolSC1CCCC1841.5Standard non polar33892256
CyclopentanethiolSC1CCCC1832.9Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Cyclopentanethiol,1TMS,isomer #1C[Si](C)(C)SC1CCCC11064.1Semi standard non polar33892256
Cyclopentanethiol,1TMS,isomer #1C[Si](C)(C)SC1CCCC11091.0Standard non polar33892256
Cyclopentanethiol,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)SC1CCCC11334.9Semi standard non polar33892256
Cyclopentanethiol,1TBDMS,isomer #1CC(C)(C)[Si](C)(C)SC1CCCC11305.3Standard non polar33892256
Spectra

GC-MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted GC-MSPredicted GC-MS Spectrum - Cyclopentanethiol GC-MS (Non-derivatized) - 70eV, Positivesplash10-016r-9100000000-f84522f41b31ae86ae032017-09-01Wishart LabView Spectrum
Predicted GC-MSPredicted GC-MS Spectrum - Cyclopentanethiol 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 - Cyclopentanethiol 10V, Positive-QTOFsplash10-0udi-4900000000-30e249a405770c2581c82016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 20V, Positive-QTOFsplash10-0udi-5900000000-d2a2bdccbb164450f30d2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 40V, Positive-QTOFsplash10-0a4l-9000000000-3133494c4ceb1ae374e02016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 10V, Negative-QTOFsplash10-0uxr-9800000000-1d44bb4cb3db90b4f5db2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 20V, Negative-QTOFsplash10-0uxr-7900000000-6b657a15c1a834da12862016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 40V, Negative-QTOFsplash10-053r-9000000000-ebefb96e422137c61eef2016-08-03Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 10V, Negative-QTOFsplash10-0udi-0900000000-8a3d491a8e03014f71422021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 20V, Negative-QTOFsplash10-0uxr-6900000000-c1eae8a8de5278116c532021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 40V, Negative-QTOFsplash10-001i-9300000000-6b3e3f7014020e1f0c572021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 10V, Positive-QTOFsplash10-014i-9300000000-edd002726ee71a086d612021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 20V, Positive-QTOFsplash10-014i-9100000000-e05d4c17314ff1d5404e2021-09-25Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cyclopentanethiol 40V, Positive-QTOFsplash10-01ox-9000000000-80479cda59d00743e4a22021-09-25Wishart 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 Locations
  • Membrane
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 IDFDB019419
KNApSAcK IDNot Available
Chemspider ID14757
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound15510
PDB IDNot Available
ChEBI IDNot Available
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDrw1015151
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General References
  1. (). Yannai, Shmuel. (2004) Dictionary of food compounds with CD-ROM: Additives, flavors, and ingredients. Boca Raton: Chapman & Hall/CRC.. .