7 Mechanistic insight into the interactions between thiazolidinedione derivatives and PTP-1B combining 3D QSAR andmolecular docking in the treatment of type 2 diabetes
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Adedoyin Igunnu
Abstract
Protein tyrosine phosphatases (PTP) regulate various cellular processes and represent important targets for therapeutic intervention in various diseases. Studies have shown that partial or total cessation of the PTP-1B gene in normal and diabetic mice has led to resistance to weight gain and improved insulin response. Also, a further study showed that inhibition of PTP-1B or a reduction in its cellular abundance in mice resulted in similar effects and, as such, provided a rationale for the treatment strategy for type 2 diabetes. Thiazolidinedione (TZD) derivatives have been identified as new PTP-1B inhibitors but the mechanism of interaction between TZD derivatives and PTP-1B is still elusive. In this study, a three-dimensional quantitative structure-activity relationship (3D-QSAR) analysis was performed, including multiple linear regression (MLR) and cross-validation, on a set of TZD derivatives as antidiabetic agents. MLR analysis was performed on 23 PTP-1B TZD derivatives to determine the relationships between physicochemical properties and antidiabetic properties of TZD derivatives. The training data set creates a QSAR model with a correlation coefficient (R2) of 0.8516, a Q2 (Leave-One-Out) cross-validation factor of 0.6473, r2 (correlation coefficient) for the external dataset is 0.8367 while r2 of predicted dataset is 0.8934 by the MLR Method. The MLR model was also validated by the standardization approach. We observed a high correlation between predicted and observed activity (experimental values), thus confirming and proving the high quality of QSAR models. Finally, molecular docking analysis was performed to better understand the interactions between the PTP-1B target and TZD derivatives. The model proposed in this project can be used to design new TZD derivatives with specific PTP-1B inhibitory activity.
Abstract
Protein tyrosine phosphatases (PTP) regulate various cellular processes and represent important targets for therapeutic intervention in various diseases. Studies have shown that partial or total cessation of the PTP-1B gene in normal and diabetic mice has led to resistance to weight gain and improved insulin response. Also, a further study showed that inhibition of PTP-1B or a reduction in its cellular abundance in mice resulted in similar effects and, as such, provided a rationale for the treatment strategy for type 2 diabetes. Thiazolidinedione (TZD) derivatives have been identified as new PTP-1B inhibitors but the mechanism of interaction between TZD derivatives and PTP-1B is still elusive. In this study, a three-dimensional quantitative structure-activity relationship (3D-QSAR) analysis was performed, including multiple linear regression (MLR) and cross-validation, on a set of TZD derivatives as antidiabetic agents. MLR analysis was performed on 23 PTP-1B TZD derivatives to determine the relationships between physicochemical properties and antidiabetic properties of TZD derivatives. The training data set creates a QSAR model with a correlation coefficient (R2) of 0.8516, a Q2 (Leave-One-Out) cross-validation factor of 0.6473, r2 (correlation coefficient) for the external dataset is 0.8367 while r2 of predicted dataset is 0.8934 by the MLR Method. The MLR model was also validated by the standardization approach. We observed a high correlation between predicted and observed activity (experimental values), thus confirming and proving the high quality of QSAR models. Finally, molecular docking analysis was performed to better understand the interactions between the PTP-1B target and TZD derivatives. The model proposed in this project can be used to design new TZD derivatives with specific PTP-1B inhibitory activity.
Chapters in this book
- Frontmatter I
- Preface of the Book of Proceedings of the Virtual Conference on Computational Science (VCCS-2019) V
- Contents VII
- Corresponding authors XIII
- 1 Structural and spectroscopic properties of 3-halogenobenzaldehydes: DFT and TDDFT simulations 1
- 2 Atomistic insight into the significantly enhanced photovoltaic cells of monolayer GaTe2 via two-dimensional van der Waals heterostructures engineering 15
- 3 Fluorescent styryl chromophores with rigid (pyrazole) donor and rigid (benzothiophenedioxide) acceptor – complete density functional theory (DFT), TDDFT and nonlinear optical study 33
- 4 Comparative studies of excited state intramolecular proton transfer (ESIPT) and azohydrazone tautomerism in naphthalene-based fluorescent acid azo dyes by computational study 61
- 5 Theoretical examination of efficiency of anthocyanidins as sensitizers in dye-sensitized solar cells 83
- 6 Selection of oxypeucedanin as a potential antagonist from molecular docking analysis of HSP90 103
- 7 Mechanistic insight into the interactions between thiazolidinedione derivatives and PTP-1B combining 3D QSAR andmolecular docking in the treatment of type 2 diabetes 113
- 8 Review of research of nanocomposites based on graphene quantum dots 135
- 9 A computational study of the SNAr reaction of 2-ethoxy-3,5-dinitropyridine and 2-methoxy-3, 5-dinitropyridine with piperidine 161
- 10 Synthesis, characterization and computational studies of 1,3-bis[(E)-furan-2-yl)methylene]urea and 1,3-bis[(E)-furan-2-yl)methylene]thiourea 177
- 11 Computational studies of biologically active alkaloids of plant origin: an overview 187
- 12 Investigating the biological actions of some Schiff bases using density functional theory study 219
- 13 Molecular mechanics approaches for rational drug design: forcefields and solvation models 233
- Index 255
Chapters in this book
- Frontmatter I
- Preface of the Book of Proceedings of the Virtual Conference on Computational Science (VCCS-2019) V
- Contents VII
- Corresponding authors XIII
- 1 Structural and spectroscopic properties of 3-halogenobenzaldehydes: DFT and TDDFT simulations 1
- 2 Atomistic insight into the significantly enhanced photovoltaic cells of monolayer GaTe2 via two-dimensional van der Waals heterostructures engineering 15
- 3 Fluorescent styryl chromophores with rigid (pyrazole) donor and rigid (benzothiophenedioxide) acceptor – complete density functional theory (DFT), TDDFT and nonlinear optical study 33
- 4 Comparative studies of excited state intramolecular proton transfer (ESIPT) and azohydrazone tautomerism in naphthalene-based fluorescent acid azo dyes by computational study 61
- 5 Theoretical examination of efficiency of anthocyanidins as sensitizers in dye-sensitized solar cells 83
- 6 Selection of oxypeucedanin as a potential antagonist from molecular docking analysis of HSP90 103
- 7 Mechanistic insight into the interactions between thiazolidinedione derivatives and PTP-1B combining 3D QSAR andmolecular docking in the treatment of type 2 diabetes 113
- 8 Review of research of nanocomposites based on graphene quantum dots 135
- 9 A computational study of the SNAr reaction of 2-ethoxy-3,5-dinitropyridine and 2-methoxy-3, 5-dinitropyridine with piperidine 161
- 10 Synthesis, characterization and computational studies of 1,3-bis[(E)-furan-2-yl)methylene]urea and 1,3-bis[(E)-furan-2-yl)methylene]thiourea 177
- 11 Computational studies of biologically active alkaloids of plant origin: an overview 187
- 12 Investigating the biological actions of some Schiff bases using density functional theory study 219
- 13 Molecular mechanics approaches for rational drug design: forcefields and solvation models 233
- Index 255
