title: Monte carlo method-based QSAR modeling of penicillins binding to human serum proteins.
abstract: The binding of penicillins to human serum proteins was modeled with optimal descriptors based on the Simplified Molecular Input-Line Entry System (SMILES). The concentrations of protein-bound drug for 87 penicillins expressed as percentage of the total plasma concentration were used as experimental data. The Monte Carlo method was used as a computational tool to build up the quantitative structure-activity relationship (QSAR) model for penicillins binding to plasma proteins. One random data split into training, test and validation set was examined. The calculated QSAR model had the following statistical parameters: r(2)  = 0.8760, q(2)  = 0.8665, s = 8.94 for the training set and r(2)  = 0.9812, q(2)  = 0.9753, s = 7.31 for the test set. For the validation set, the statistical parameters were r(2)  = 0.727 and s = 12.52, but after removing the three worst outliers, the statistical parameters improved to r(2)  = 0.921 and s = 7.18. SMILES-based molecular fragments (structural indicators) responsible for the increase and decrease of penicillins binding to plasma proteins were identified. The possibility of using these results for the computer-aided design of new penicillins with desired binding properties is presented.
authors.affiliation: Faculty of Medicine, Department of Chemistry, University of Niš, Niš, Serbia.
authors.forename: Jovana B
authors.initials: JB
authors.lastname: Veselinović
authors.forename: Andrey A
authors.initials: AA
authors.lastname: Toropov
authors.forename: Alla P
authors.initials: AP
authors.lastname: Toropova
authors.forename: Goran M
authors.initials: GM
authors.lastname: Nikolić
authors.forename: Aleksandar M
authors.initials: AM
authors.lastname: Veselinović
mesh_terms: D000900:Anti-Bacterial Agents / Q000737:chemistry / Q000378:metabolism*; D001665:Binding Sites; D001798:Blood Proteins / Q000737:chemistry / Q000378:metabolism*; D003198:Computer Simulation; D006801:Humans; D015394:Molecular Structure; D009010:Monte Carlo Method; D010406:Penicillins / Q000737:chemistry / Q000378:metabolism*; D011485:Protein Binding; D011487:Protein Conformation; D021281:Quantitative Structure-Activity Relationship
chemical_list: D000900:Anti-Bacterial Agents; D001798:Blood Proteins; D010406:Penicillins
keywords: CORAL software; Monte Carlo method; Penicillins; QSAR; SMILES