The effect of stereoisomerism on the 4D-QSAR study of some dipeptidyl boron derivatives. (February 2020)

• Record Type: Journal Article
• Authors: Çatalkaya, Sevinç; Sabancı, Nazmiye; Yavuz, Sevtap Çağlar; Sarıpınar, Emin
• Is Part Of: Computational biology and chemistry. Volume 84(2020)
• Publication Date: 2020-02
• Subjects: Dipeptidyl boron -- Electron conformational-genetic algorithm method -- Pharmacophore -- Stereoisomerism -- 4D-QSAR; Chemistry -- Data processing -- Periodicals; Biology -- Data processing -- Periodicals; Biochemistry -- Data processing; Biology -- Data processing; Molecular biology -- Data processing; Periodicals; Electronic journals; 542.85
• DOI: 10.1016/j.compbiolchem.2019.107190
• Languages: English
• ISSNs: 1476-9271

Abstract

Graphical abstract: Highlights: The biological activities of the stereoisomers of dipeptidyl boron derivatives were successfully distinguished for the first time. EC-GA method is capable of distinguishing between the stereoisomers including both enantiomers and diastereomers. The compound 99 which is the diastereomer of 27 is a promising candidate for future studies of more potent proteasome inhibitors. Abstract: The electron conformational genetic algorithm (EC-GA) method had been employed by distinguishing between enantiomers for the first time as a 4D-QSAR approach to reveal the pharmacophore (Pha) and to predict the bioactivity of the dipeptidyl boron compounds. The Electron Conformational Matrices of Congruity (ECMCs) were prepared for all conformers of compounds in the data set based on the quantum chemical calculations at HF/3−21 G level in an aqueous medium. The comparison of the ECMCs within the certain tolerances by the EMRE program revealed the pharmacophore for some dipeptidyl boron derivatives. For the selection of the most influential parameters on the activity and the calculation of theoretical activities, the genetic algorithm with the non-linear least square method was used. The final model was validated by the cross-validation method with the division of the data set into training and test items. The 12-parameter model gave excellent statistical results (R 2 training = 0.850, R 2 test = 0.809, q 2 = 0.755, q 2 ext1 = 0.776, q 2 ext2 = 0.759, q 2 ext3 = 0.735, CCCtr = 0.922, CCCtest = 0.846, CCCall = 0.905). Because of the inexistence of 4D-QSAR studies on the dipeptidyl boron derivatives and the stereoisomerism effect on the biological activity was examined for the first time for these compounds, this study plays an important role in the development of new boron-containing compounds.