IMPPAT Phytochemical information: 
Genipin

Genipin
Summary

SMILES: COC(=O)C1=CO[C@H]([C@H]2[C@@H]1CC=C2CO)O
InChI: InChI=1S/C11H14O5/c1-15-10(13)8-5-16-11(14)9-6(4-12)2-3-7(8)9/h2,5,7,9,11-12,14H,3-4H2,1H3/t7-,9-,11-/m1/s1
InChIKey: AZKVWQKMDGGDSV-BCMRRPTOSA-N
DeepSMILES: COC=O)C=CO[C@H][C@H][C@@H]6CC=C5CO)))))))O
Scaffold Graph/Node/Bond level: C1=CC2COC=CC2C1
Scaffold Graph/Node level: C1CC2CCOCC2C1
Scaffold Graph level: C1CCC2CCCC2C1
Functional groups: COC(=O)C1=CO[C@@H](O)CC1; CC=C(C)C; CO
Chemical classification
ClassyFire Kingdom: Organic compounds
ClassyFire Superclass: Lipids and lipid-like molecules
ClassyFire Class: Prenol lipids
ClassyFire Subclass: Monoterpenoids
NP Classifier Biosynthetic pathway: Terpenoids
NP Classifier Superclass: Monoterpenoids
NP Classifier Class: Iridoids monoterpenoids
Synonymous chemical names:
genipin
External chemical identifiers:
CID:CID_442424; ChEMBL:CHEMBL459016; ChEBI:CHEBI:5298; ZINC:ZINC000001681500; FDASRS:A3V2NE52YG; SureChEMBL:SCHEMBL34249; MolPort-009-684-194
Chemical structure download


Genipin
Physicochemical properties
Property name Tool Property value
Molecular weight (g/mol) RDKit 226.23
Log P RDKit -0.05
Topological polar surface area (Å2) RDKit 75.99
Number of hydrogen bond acceptors RDKit 5
Number of hydrogen bond donors RDKit 2
Number of carbon atoms RDKit 11
Number of heavy atoms RDKit 16
Number of heteroatoms RDKit 5
Number of nitrogen atoms RDKit 0
Number of sulfur atoms RDKit 0
Number of chiral carbon atoms RDKit 3
Stereochemical complexity RDKit 0.27
Number of sp hybridized carbon atoms RDKit 0
Number of sp2 hybridized carbon atoms RDKit 5
Number of sp3 hybridized carbon atoms RDKit 6
Shape complexity RDKit 0.55
Number of rotatable bonds RDKit 3
Number of aliphatic carbocycles RDKit 1
Number of aliphatic heterocycles RDKit 1
Number of aliphatic rings RDKit 2
Number of aromatic carbocycles RDKit 0
Number of aromatic heterocycles RDKit 0
Number of aromatic rings RDKit 0
Total number of rings RDKit 2
Number of saturated carbocycles RDKit 0
Number of saturated heterocycles RDKit 0
Number of saturated rings RDKit 0
Number of Smallest Set of Smallest Rings (SSSR) RDKit 2


Genipin
Drug-likeness
Property nameToolProperty value
Number of Lipinski’s rule of 5 violations RDKit 0
Lipinski’s rule of 5 filter RDKit Passed
Number of Ghose filter violations RDKit 0
Ghose filter RDKit Passed
Veber filter RDKit Good
Pfizer 3/75 filter RDKit Good
GSK 4/400 filter RDKit Good
Weighted quantitative estimate of drug-likeness (QEDw) score RDKit 0.5096


Genipin
ADME properties
Property nameToolProperty value
Bioavailability score SwissADME 0.56
Solubility class [ESOL] SwissADME Very soluble
Solubility class [Silicos-IT] SwissADME Soluble
Blood Brain Barrier permeation SwissADME No
Gastrointestinal absorption SwissADME High
Log Kp (Skin permeation, cm/s) SwissADME -8.21
Number of PAINS structural alerts SwissADME 0
Number of Brenk structural alerts SwissADME 1
CYP1A2 inhibitor SwissADME No
CYP2C19 inhibitor SwissADME No
CYP2C9 inhibitor SwissADME No
CYP2D6 inhibitor SwissADME No
CYP3A4 inhibitor SwissADME No
P-glycoprotein substrate SwissADME No


Genipin
Phytochemical - Human target proteins supported by experimental evidence associations
Human target proteins supported by experimental evidence
IMPPAT target identifierGene identifierHGNC symbolEntrez Gene identifierSource
TAR_EXP_001316ENSG00000179295PTPN115781NPASS
TAR_EXP_001308ENSG00000175354PTPN25771BindingDB, NPASS
TAR_EXP_001306ENSG00000196396PTPN15770BindingDB, NPASS
TAR_EXP_000846ENSG00000100299ARSA410NPASS
TAR_EXP_000349ENSG00000120738EGR11958ChEMBL
TAR_EXP_000004ENSG00000094631HDAC610013ChEMBL