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Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2017-11-07 22:36:32 UTC
Update Date2022-03-07 03:18:13 UTC
HMDB IDHMDB0240214
Secondary Accession NumbersNone
Metabolite Identification
Common NamePonatinib
DescriptionPonatinib, also known as ap 24534, belongs to the class of organic compounds known as benzanilides. These are aromatic compounds containing an anilide group in which the carboxamide group is substituted with a benzene ring. They have the general structure RNC(=O)R', where R,R'= benzene. In humans, ponatinib is involved in the ponatinib inhibition of bcr-abl pathway. Ponatinib is a primary metabolite. Primary metabolites are metabolically or physiologically essential metabolites. They are directly involved in an organism’s growth, development or reproduction. Based on a literature review a significant number of articles have been published on Ponatinib.
Structure
Data?1563892730
Synonyms
ValueSource
AP 24534ChEBI
AP24534ChEBI
PonatinibumChEBI
IclusigMeSH, HMDB
3-(2-(imidazo(1,2-b)Pyridazin-3-yl)ethynyl)-4-methyl-N-(4-((4-methylpiperazin-y-1-yl)methyl)-3-(trifluoromethyl)phenyl)benzamideMeSH, HMDB
Ponatinib hydrochlorideMeSH, HMDB
Chemical FormulaC29H27F3N6O
Average Molecular Weight532.5595
Monoisotopic Molecular Weight532.219844131
IUPAC Name3-(2-{imidazo[1,2-b]pyridazin-3-yl}ethynyl)-4-methyl-N-{4-[(4-methylpiperazin-1-yl)methyl]-3-(trifluoromethyl)phenyl}benzamide
Traditional Nameponatinib
CAS Registry Number943319-70-8
SMILES
CN1CCN(CC2=CC=C(NC(=O)C3=CC(C#CC4=CN=C5C=CC=NN45)=C(C)C=C3)C=C2C(F)(F)F)CC1
InChI Identifier
InChI=1S/C29H27F3N6O/c1-20-5-6-22(16-21(20)8-10-25-18-33-27-4-3-11-34-38(25)27)28(39)35-24-9-7-23(26(17-24)29(30,31)32)19-37-14-12-36(2)13-15-37/h3-7,9,11,16-18H,12-15,19H2,1-2H3,(H,35,39)
InChI KeyPHXJVRSECIGDHY-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as benzanilides. These are aromatic compounds containing an anilide group in which the carboxamide group is substituted with a benzene ring. They have the general structure RNC(=O)R', where R,R'= benzene.
KingdomOrganic compounds
Super ClassBenzenoids
ClassBenzene and substituted derivatives
Sub ClassAnilides
Direct ParentBenzanilides
Alternative Parents
Substituents
  • Benzanilide
  • Trifluoromethylbenzene
  • Benzamide
  • Benzoic acid or derivatives
  • P-toluamide
  • Toluamide
  • Benzoyl
  • Benzylamine
  • Phenylmethylamine
  • Toluene
  • N-methylpiperazine
  • Aralkylamine
  • N-alkylpiperazine
  • 1,4-diazinane
  • N-substituted imidazole
  • Piperazine
  • Pyridazine
  • Heteroaromatic compound
  • Azole
  • Imidazole
  • Tertiary amine
  • Secondary carboxylic acid amide
  • Amino acid or derivatives
  • Tertiary aliphatic amine
  • Carboxamide group
  • Organoheterocyclic compound
  • Azacycle
  • Carboxylic acid derivative
  • Amine
  • Alkyl fluoride
  • Alkyl halide
  • Organohalogen compound
  • Organic oxide
  • Organopnictogen compound
  • Organic oxygen compound
  • Organic nitrogen compound
  • Organofluoride
  • Organonitrogen compound
  • Organooxygen compound
  • Hydrocarbon derivative
  • Aromatic heteropolycyclic compound
Molecular FrameworkAromatic heteropolycyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
Disposition
Process
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
logP3.94ALOGPS
logP4.97ChemAxon
logS-5.3ALOGPS
pKa (Strongest Acidic)13.51ChemAxon
pKa (Strongest Basic)7.62ChemAxon
Physiological Charge1ChemAxon
Hydrogen Acceptor Count5ChemAxon
Hydrogen Donor Count1ChemAxon
Polar Surface Area65.77 ŲChemAxon
Rotatable Bond Count7ChemAxon
Refractivity152.63 m³·mol⁻¹ChemAxon
Polarizability55.39 ųChemAxon
Number of Rings5ChemAxon
BioavailabilityYesChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
AllCCS[M+H]+226.9931661259
AllCCS[M-H]-213.73731661259
DeepCCS[M-2H]-243.70830932474
DeepCCS[M+Na]+219.13330932474
AllCCS[M+H]+227.032859911
AllCCS[M+H-H2O]+225.332859911
AllCCS[M+NH4]+228.532859911
AllCCS[M+Na]+229.032859911
AllCCS[M-H]-213.732859911
AllCCS[M+Na-2H]-214.332859911
AllCCS[M+HCOO]-215.132859911

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, 2022.3.39 minutes32390414
Predicted by Siyang on May 30, 202210.9725 minutes33406817
Predicted by Siyang using ReTip algorithm on June 8, 20222.29 minutes32390414
Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid1379.9 seconds40023050
Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid165.1 seconds40023050
Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid193.5 seconds40023050
Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid164.5 seconds40023050
RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid77.8 seconds40023050
Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid471.1 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 Acid538.0 seconds40023050
HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate)281.3 seconds40023050
UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid1019.0 seconds40023050
BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid370.3 seconds40023050
UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid1040.7 seconds40023050
SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid327.0 seconds40023050
RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid334.6 seconds40023050
MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate259.5 seconds40023050
KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA262.1 seconds40023050
Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water65.5 seconds40023050

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
PonatinibCN1CCN(CC2=CC=C(NC(=O)C3=CC(C#CC4=CN=C5C=CC=NN45)=C(C)C=C3)C=C2C(F)(F)F)CC15033.9Standard polar33892256
PonatinibCN1CCN(CC2=CC=C(NC(=O)C3=CC(C#CC4=CN=C5C=CC=NN45)=C(C)C=C3)C=C2C(F)(F)F)CC14209.3Standard non polar33892256
PonatinibCN1CCN(CC2=CC=C(NC(=O)C3=CC(C#CC4=CN=C5C=CC=NN45)=C(C)C=C3)C=C2C(F)(F)F)CC14493.6Semi standard non polar33892256

Derivatized

Derivative Name / StructureSMILESKovats RI ValueColumn TypeReference
Ponatinib,1TMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C)C=C1C#CC1=CN=C2C=CC=NN124182.0Semi standard non polar33892256
Ponatinib,1TMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C)C=C1C#CC1=CN=C2C=CC=NN123461.3Standard non polar33892256
Ponatinib,1TMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C)C=C1C#CC1=CN=C2C=CC=NN125007.5Standard polar33892256
Ponatinib,1TBDMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C(C)(C)C)C=C1C#CC1=CN=C2C=CC=NN124361.8Semi standard non polar33892256
Ponatinib,1TBDMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C(C)(C)C)C=C1C#CC1=CN=C2C=CC=NN123653.8Standard non polar33892256
Ponatinib,1TBDMS,isomer #1CC1=CC=C(C(=O)N(C2=CC=C(CN3CCN(C)CC3)C(C(F)(F)F)=C2)[Si](C)(C)C(C)(C)C)C=C1C#CC1=CN=C2C=CC=NN125034.8Standard polar33892256
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Experimental LC-MS/MSLC-MS/MS Spectrum - Ponatinib , positive-QTOFsplash10-014i-1490100000-181c36e7111f139a09cd2017-09-14HMDB team, MONAView Spectrum
Experimental LC-MS/MSLC-MS/MS Spectrum - Ponatinib , positive-QTOFsplash10-03e9-0290150000-ab2ecf1ddb48e116ad862017-09-14HMDB team, MONAView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 10V, Positive-QTOFsplash10-001i-0050390000-64038b46e41e719fda3b2017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 20V, Positive-QTOFsplash10-03e9-0091410000-d3d39f28b2e30f41d8da2017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 40V, Positive-QTOFsplash10-03e9-3190000000-e9fd592a159c87f87d2b2017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 10V, Negative-QTOFsplash10-001i-1010090000-78898b8c1027002694b92017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 20V, Negative-QTOFsplash10-0f8a-3050090000-407a5960c1ec9fad0f8a2017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 40V, Negative-QTOFsplash10-000x-9130010000-13ad74ef9521c4e5779e2017-07-26Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 10V, Negative-QTOFsplash10-001i-0000090000-92da9af4049b50a094562021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 20V, Negative-QTOFsplash10-001i-0120490000-ade5b8432aa91f8c8a042021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 40V, Negative-QTOFsplash10-0udi-1010790000-1fdb94844e659503a7da2021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 10V, Positive-QTOFsplash10-001i-0000090000-32da3e42aa87b6da86632021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 20V, Positive-QTOFsplash10-0gx1-9870270000-1d13956b46e1e365c3472021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Ponatinib 40V, Positive-QTOFsplash10-01si-2192820000-e8c3f9dc0f96eb68b48e2021-09-24Wishart 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 IDDB08901
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID24747381
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkPonatinib
METLIN IDNot Available
PubChem CompoundNot Available
PDB IDNot Available
ChEBI ID78543
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