IMPPAT Phytochemical information: 
Clivimine
Clivimine
Summary

SMILES: CN1CC[C@H]2[C@@H]1[C@H]1[C@H]([C@H](C2)OC(=O)c2cc(C(=O)O[C@H]3C[C@H]4CCN([C@H]4[C@H]4[C@H]3OC(=O)c3c4cc4c(c3)OCO4)C)c(nc2C)C)OC(=O)c2c1cc1OCOc1c2
InChI: InChI=1S/C43H43N3O12/c1-18-22(40(47)55-32-9-20-5-7-45(3)36(20)34-24-12-28-30(53-16-51-28)14-26(24)42(49)57-38(32)34)11-23(19(2)44-18)41(48)56-33-10-21-6-8-46(4)37(21)35-25-13-29-31(54-17-52-29)15-27(25)43(50)58-39(33)35/h11-15,20-21,32-39H,5-10,16-17H2,1-4H3/t20-,21-,32+,33+,34+,35+,36-,37-,38+,39+/m1/s1
InChIKey: CJYOGPFDNAEALZ-BVORSCEZSA-N
DeepSMILES: CNCC[C@H][C@@H]5[C@H][C@H][C@H]C6)OC=O)cccC=O)O[C@H]C[C@H]CCN[C@H]5[C@H][C@H]9OC=O)cc6cccc6)OCO5)))))))))))))C)))))))))cnc6C)))C))))))))OC=O)cc6ccOCOc5c9
Scaffold Graph/Node/Bond level: O=C(OC1CC2CCNC2C2c3cc4c(cc3C(=O)OC12)OCO4)c1cncc(C(=O)OC2CC3CCNC3C3c4cc5c(cc4C(=O)OC23)OCO5)c1
Scaffold Graph/Node level: OC(OC1CC2CCNC2C2C3CC4OCOC4CC3C(O)OC12)C1CNCC(C(O)OC2CC3CCNC3C3C4CC5OCOC5CC4C(O)OC23)C1
Scaffold Graph level: CC(CC1CC2CCCC2C2C1CC(C)C1CC3CCCC3CC12)C1CCCC(C(C)CC2CC3CCCC3C3C2CC(C)C2CC4CCCC4CC23)C1
Functional groups: CN(C)C; c1cOCO1; cC(=O)OC; cnc
Chemical classification
ClassyFire Kingdom: Organic compounds
ClassyFire Superclass: Alkaloids and derivatives
ClassyFire Class: Amaryllidaceae alkaloids
ClassyFire Subclass: Homolycorine-type amaryllidaceae alkaloids
NP Classifier Biosynthetic pathway: Alkaloids
NP Classifier Superclass: Tyrosine alkaloids
NP Classifier Class: Amarylidaceae alkaloids
Synonymous chemical names:
clivimine
External chemical identifiers:
CID:44559309; ChEMBL:CHEMBL451626; ZINC:ZINC000095543420
Chemical structure download
2D:2D MOL2D MOL22D SDF
3D:3D MOL3D MOL23D SDF3D PDB3D PDBQT
Clivimine
Physicochemical properties
Property name Tool Property value
Molecular weight (g/mol) RDKit 793.83
Log P RDKit 4.3
Topological polar surface area (Å2) RDKit 161.49
Number of hydrogen bond acceptors RDKit 15
Number of hydrogen bond donors RDKit 0
Number of carbon atoms RDKit 43
Number of heavy atoms RDKit 58
Number of heteroatoms RDKit 15
Number of nitrogen atoms RDKit 3
Number of sulfur atoms RDKit 0
Number of chiral carbon atoms RDKit 10
Stereochemical complexity RDKit 0.23
Number of sp hybridized carbon atoms RDKit 0
Number of sp2 hybridized carbon atoms RDKit 21
Number of sp3 hybridized carbon atoms RDKit 22
Shape complexity RDKit 0.51
Number of rotatable bonds RDKit 6
Number of aliphatic carbocycles RDKit 2
Number of aliphatic heterocycles RDKit 6
Number of aliphatic rings RDKit 8
Number of aromatic carbocycles RDKit 2
Number of aromatic heterocycles RDKit 1
Number of aromatic rings RDKit 3
Total number of rings RDKit 11
Number of saturated carbocycles RDKit 2
Number of saturated heterocycles RDKit 2
Number of saturated rings RDKit 4
Number of Smallest Set of Smallest Rings (SSSR) RDKit 11
Clivimine
Drug-likeness properties
Property nameToolProperty value
Number of Lipinski’s rule of 5 violations RDKit 2
Lipinski’s rule of 5 filter RDKit Failed
Number of Ghose filter violations RDKit 3
Ghose filter RDKit Failed
Veber filter RDKit Bad
Pfizer 3/75 filter RDKit Bad
GSK 4/400 filter RDKit Bad
Weighted quantitative estimate of drug-likeness (QEDw) score RDKit 0.2715
Clivimine
ADMET properties
Property nameToolProperty value
Bioavailability score SwissADME 0.17
Solubility class [ESOL] SwissADME Poorly soluble
Solubility class [Silicos-IT] SwissADME Poorly soluble
Blood Brain Barrier permeation SwissADME No
Gastrointestinal absorption SwissADME Low
Log Kp (Skin permeation, cm/s) SwissADME -7.41
Number of PAINS structural alerts SwissADME 0.0
Number of Brenk structural alerts SwissADME 1.0
CYP1A2 inhibitor SwissADME No
CYP2C19 inhibitor SwissADME No
CYP2C9 inhibitor SwissADME Yes
CYP2D6 inhibitor SwissADME No
CYP3A4 inhibitor SwissADME No
P-glycoprotein substrate SwissADME Yes