IMPPAT Phytochemical information: 
Lysophosphatidylcholine

Lysophosphatidylcholine
Summary

SMILES: O[C@@H](COP(=O)(OCC[N+](C)(C)C)[O-])COC(=O)C
InChI: InChI=1S/C10H22NO7P/c1-9(12)16-7-10(13)8-18-19(14,15)17-6-5-11(2,3)4/h10,13H,5-8H2,1-4H3/t10-/m1/s1
InChIKey: RYCNUMLMNKHWPZ-SNVBAGLBSA-N
DeepSMILES: O[C@@H]COP=O)OCC[N+]C)C)C)))))[O-]))))COC=O)C
Functional groups: CO; COP(=O)([O-])OC; C[N+](C)(C)C; COC(C)=O
Chemical classification
ClassyFire Kingdom: Organic compounds
ClassyFire Superclass: Lipids and lipid-like molecules
ClassyFire Class: Glycerophospholipids
ClassyFire Subclass: Glycerophosphocholines
Synonymous chemical names:
choline, lysophosphatidyl, lysophosphatidylcholine
External chemical identifiers:
CID:CID_5311264; ChEBI:CHEBI:138424; SureChEMBL:SCHEMBL19821626
Chemical structure download


Lysophosphatidylcholine
Physicochemical properties
Property name Tool Property value
Molecular weight (g/mol) RDKit 299.26
Log P RDKit -0.88
Topological polar surface area (Å2) RDKit 105.12
Number of hydrogen bond acceptors RDKit 7
Number of hydrogen bond donors RDKit 1
Number of carbon atoms RDKit 10
Number of heavy atoms RDKit 19
Number of heteroatoms RDKit 9
Number of nitrogen atoms RDKit 1
Number of sulfur atoms RDKit 0
Number of chiral carbon atoms RDKit 1
Stereochemical complexity RDKit 0.1
Number of sp hybridized carbon atoms RDKit 0
Number of sp2 hybridized carbon atoms RDKit 1
Number of sp3 hybridized carbon atoms RDKit 9
Shape complexity RDKit 0.9
Number of rotatable bonds RDKit 10
Number of aliphatic carbocycles RDKit 0
Number of aliphatic heterocycles RDKit 0
Number of aliphatic rings RDKit 0
Number of aromatic carbocycles RDKit 0
Number of aromatic heterocycles RDKit 0
Number of aromatic rings RDKit 0
Total number of rings RDKit 0
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 0


Lysophosphatidylcholine
Drug-likeness properties
Property nameToolProperty value
Number of Lipinski’s rule of 5 violations RDKit 0
Lipinski’s rule of 5 RDKit Passed
Number of Ghose rule violations RDKit 1
Ghose rule RDKit Failed
Veber rule RDKit Good
Egan rule RDKit Good
GSK 4/400 rule RDKit Good
Pfizer 3/75 rule RDKit Good
Weighted quantitative estimate of drug-likeness (QEDw) score RDKit 0.33


Lysophosphatidylcholine
ADME properties
Property nameToolProperty value
Bioavailability score SwissADME 0.55
Solubility class [ESOL] SwissADME Highly soluble
Solubility class [Silicos-IT] SwissADME Soluble
Blood Brain Barrier permeation SwissADME No
Gastrointestinal absorption SwissADME High
Log Kp (Skin permeation, cm/s) SwissADME -9.33
Number of PAINS structural alerts SwissADME 0
Number of Brenk structural alerts SwissADME 2
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


Lysophosphatidylcholine
Human target proteins
Protein identifierHGNC symbolCombined score from STITCH database
ENSP00000328818GPR132800
ENSP00000332656ENPP7700
ENSP00000306512IL8800
ENSP00000264005LCAT883
ENSP00000361895MFSD2A700
The human target proteins were predicted using STITCH, a database of Chemical-Protein interaction networks.