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Record Information
Version5.0
StatusDetected but not Quantified
Creation Date2021-09-11 07:23:28 UTC
Update Date2021-09-26 23:01:50 UTC
HMDB IDHMDB0250387
Secondary Accession NumbersNone
Metabolite Identification
Common NameCobicistat
DescriptionCobicistat belongs to the class of organic compounds known as n-carbamoyl-alpha amino acids and derivatives. N-carbamoyl-alpha amino acids and derivatives are compounds containing an alpha amino acid (or a derivative thereof) which bears an carbamoyl group at its terminal nitrogen atom. Based on a literature review a significant number of articles have been published on Cobicistat. This compound has been identified in human blood as reported by (PMID: 31557052 ). Cobicistat is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically Cobicistat is part of the human exposome. The exposome can be defined as the collection of all the exposures of an individual in a lifetime and how those exposures relate to health. An individual's exposure begins before birth and includes insults from environmental and occupational sources.
Structure
Thumb
Synonyms
ValueSource
N-[5-({hydroxy[(1,3-thiazol-5-yl)methoxy]methylidene}amino)-1,6-diphenylhexan-2-yl]-2-(N-methyl-N-{[2-(propan-2-yl)-1,3-thiazol-4-yl]methyl}-(C-hydroxycarbonimidoyl)amino)-4-(morpholin-4-yl)butanimidateHMDB
Chemical FormulaC40H53N7O5S2
Average Molecular Weight776.03
Monoisotopic Molecular Weight775.354960183
IUPAC Name(1,3-thiazol-5-yl)methyl N-[5-(2-{[methyl({[2-(propan-2-yl)-1,3-thiazol-4-yl]methyl})carbamoyl]amino}-4-(morpholin-4-yl)butanamido)-1,6-diphenylhexan-2-yl]carbamate
Traditional Namecobicistat
CAS Registry NumberNot Available
SMILES
CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)=CS1
InChI Identifier
InChI=1S/C40H53N7O5S2/c1-29(2)38-43-34(27-53-38)25-46(3)39(49)45-36(16-17-47-18-20-51-21-19-47)37(48)42-32(22-30-10-6-4-7-11-30)14-15-33(23-31-12-8-5-9-13-31)44-40(50)52-26-35-24-41-28-54-35/h4-13,24,27-29,32-33,36H,14-23,25-26H2,1-3H3,(H,42,48)(H,44,50)(H,45,49)
InChI KeyZCIGNRJZKPOIKD-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as n-carbamoyl-alpha amino acids and derivatives. N-carbamoyl-alpha amino acids and derivatives are compounds containing an alpha amino acid (or a derivative thereof) which bears an carbamoyl group at its terminal nitrogen atom.
KingdomOrganic compounds
Super ClassOrganic acids and derivatives
ClassCarboxylic acids and derivatives
Sub ClassAmino acids, peptides, and analogues
Direct ParentN-carbamoyl-alpha amino acids and derivatives
Alternative Parents
Substituents
  • N-carbamoyl-alpha-amino acid or derivatives
  • Alpha-amino acid amide
  • Amphetamine or derivatives
  • 2,4-disubstituted 1,3-thiazole
  • Fatty acyl
  • Benzenoid
  • Oxazinane
  • N-acyl-amine
  • Morpholine
  • Fatty amide
  • Monocyclic benzene moiety
  • Heteroaromatic compound
  • Carbamic acid ester
  • Thiazole
  • Azole
  • Urea
  • Tertiary aliphatic amine
  • Tertiary amine
  • Secondary carboxylic acid amide
  • Carbonic acid derivative
  • Carboxamide group
  • Oxacycle
  • Azacycle
  • Organoheterocyclic compound
  • Ether
  • Dialkyl ether
  • Organic nitrogen compound
  • Organic oxygen compound
  • Organopnictogen compound
  • Organic oxide
  • Hydrocarbon derivative
  • Organooxygen compound
  • Organonitrogen compound
  • Carbonyl group
  • Amine
  • Aromatic heteromonocyclic compound
Molecular FrameworkAromatic heteromonocyclic compounds
External DescriptorsNot Available
Ontology
Physiological effectNot Available
Disposition
ProcessNot Available
RoleNot Available
Physical Properties
StateNot Available
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
logP4.36ALOGPS
logP4.99ChemAxon
logS-5.8ALOGPS
pKa (Strongest Acidic)14.18ChemAxon
pKa (Strongest Basic)6.69ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count7ChemAxon
Hydrogen Donor Count3ChemAxon
Polar Surface Area138.02 ŲChemAxon
Rotatable Bond Count20ChemAxon
Refractivity211.49 m³·mol⁻¹ChemAxon
Polarizability84.81 ųChemAxon
Number of Rings5ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DeepCCS[M+H]+257.62730932474
DeepCCS[M-H]-255.48130932474
DeepCCS[M-2H]-288.71930932474
DeepCCS[M+Na]+263.36730932474
AllCCS[M+H]+273.532859911
AllCCS[M+H-H2O]+273.432859911
AllCCS[M+NH4]+273.532859911
AllCCS[M+Na]+273.532859911
AllCCS[M-H]-226.132859911
AllCCS[M+Na-2H]-230.332859911
AllCCS[M+HCOO]-234.932859911

Predicted Retention Times

Underivatized

Chromatographic MethodRetention TimeReference
Predicted by Siyang on May 30, 202214.8967 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20222.24 minutes32390414
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid2941.3 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid140.3 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid252.1 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid158.3 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid139.0 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid444.7 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 Acid564.2 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)395.2 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid1357.6 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid639.8 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid1976.5 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid397.2 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid388.4 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate144.5 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA232.1 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water8.6 seconds40023050

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
CobicistatCC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)=CS15872.2Standard polar33892256
CobicistatCC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)=CS14509.1Standard non polar33892256
CobicistatCC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)=CS15974.3Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Cobicistat,1TMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS15793.0Semi standard non polar33892256
Cobicistat,1TMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS14860.4Standard non polar33892256
Cobicistat,1TMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS17844.7Standard polar33892256
Cobicistat,1TMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS15954.2Semi standard non polar33892256
Cobicistat,1TMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS14906.7Standard non polar33892256
Cobicistat,1TMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C)=CS17933.9Standard polar33892256
Cobicistat,1TMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C)CC2=CC=CC=C2)=CS15901.0Semi standard non polar33892256
Cobicistat,1TMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C)CC2=CC=CC=C2)=CS14946.1Standard non polar33892256
Cobicistat,1TMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C)CC2=CC=CC=C2)=CS17963.1Standard polar33892256
Cobicistat,1TBDMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS16000.0Semi standard non polar33892256
Cobicistat,1TBDMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS14962.8Standard non polar33892256
Cobicistat,1TBDMS,isomer #1CC(C)C1=NC(CN(C)C(=O)N(C(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS17777.5Standard polar33892256
Cobicistat,1TBDMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS16138.2Semi standard non polar33892256
Cobicistat,1TBDMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS15025.1Standard non polar33892256
Cobicistat,1TBDMS,isomer #2CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)N(C(CCC(CC2=CC=CC=C2)NC(=O)OCC2=CN=CS2)CC2=CC=CC=C2)[Si](C)(C)C(C)(C)C)=CS17863.1Standard polar33892256
Cobicistat,1TBDMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C(C)(C)C)CC2=CC=CC=C2)=CS16096.9Semi standard non polar33892256
Cobicistat,1TBDMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C(C)(C)C)CC2=CC=CC=C2)=CS15068.9Standard non polar33892256
Cobicistat,1TBDMS,isomer #3CC(C)C1=NC(CN(C)C(=O)NC(CCN2CCOCC2)C(=O)NC(CCC(CC2=CC=CC=C2)N(C(=O)OCC2=CN=CS2)[Si](C)(C)C(C)(C)C)CC2=CC=CC=C2)=CS17888.6Standard polar33892256
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 10V, Positive-QTOFsplash10-004i-0000000900-0084a04180bdb48d4a4b2021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 20V, Positive-QTOFsplash10-002f-2900101200-51a8a0fd87b8002157412021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 40V, Positive-QTOFsplash10-0fic-0920001200-e0fe0ffc1bd399fc98712021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 10V, Negative-QTOFsplash10-00di-0200000900-45444e39dee19491fd772021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 20V, Negative-QTOFsplash10-00dl-9300043400-c3b7ad5061e5171ce7332021-10-12Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Cobicistat 40V, Negative-QTOFsplash10-05o0-8900021100-122b9492c9fa8bad88cd2021-10-12Wishart LabView Spectrum
Biological Properties
Cellular LocationsNot Available
Biospecimen Locations
  • Blood
Tissue LocationsNot Available
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected but not QuantifiedNot QuantifiedNot SpecifiedNot SpecifiedNormal details
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 ID28538442
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkCobicistat
METLIN IDNot Available
PubChem Compound24950485
PDB IDNot Available
ChEBI IDNot Available
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 References
  1. Barupal DK, Fiehn O: Generating the Blood Exposome Database Using a Comprehensive Text Mining and Database Fusion Approach. Environ Health Perspect. 2019 Sep;127(9):97008. doi: 10.1289/EHP4713. Epub 2019 Sep 26. [PubMed:31557052 ]