a Faculty of Medicine, Department of Medical Biochemistry , Omer Halisdemir University , Nigde , Turkey.
b Computational Biology and Molecular Simulations Laboratory, Department of Biophysics , School of Medicine, Bahcesehir University , Istanbul , Turkey.
J Biomol Struct Dyn. 2018 Mar;36(4):993-1008. doi: 10.1080/07391102.2017.1305297. Epub 2017 Apr 5.
In the present study, the changes that occur in rat liver tissue as a result of the use of grape seed extract (GSE) and low level laser therapy (LLLT) in intraoral wound (IW) healing are analyzed using biochemical parameters. Diode laser application groups received 8 J/cm dose LLLT once a day for 4 days (810 nm wavelength, continuous mode, 0.25 W, 9 s). As a result of the biological parameter analysis, it was determined that the oxidative damage caused by the IWs and recovery period on 7th and 14th days could be substantially removed with GSE applications that have antioxidant capacity especially in rat liver tissue. In addition, the active compound of grape seed, catechin is studied in the active site of glycogen synthase kinase 3 (GSK3) target using molecular modeling approaches. Post-processing molecular dynamics (MD) results for catechin is compared with a standard GSK3 inhibitor. MD simulations assisted for better understanding of inhibition mechanism and the crucial amino acids contributing in the ligand binding. These results along with a through free energy analysis of ligands using sophisticated simulations methods are quite striking and it suggests a greater future role for simulation in deciphering complex patterns of molecular mechanism in combination with methods for understanding drug-receptor interactions.
本研究通过生化参数分析了葡萄籽提取物(GSE)和低水平激光疗法(LLLT)在口腔内伤口(IW)愈合中对大鼠肝组织的影响。激光二极管应用组每天接受 8 J/cm 的 LLLT 治疗,共 4 天(810nm 波长,连续模式,0.25W,9s)。通过生物参数分析,发现 GSE 应用具有抗氧化能力,特别是在大鼠肝组织中,可以显著去除 IW 和第 7 天和第 14 天恢复期引起的氧化损伤。此外,使用分子建模方法研究了葡萄籽的活性化合物儿茶素在糖原合酶激酶 3(GSK3)靶标中的活性部位。儿茶素的后处理分子动力学(MD)结果与标准 GSK3 抑制剂进行了比较。MD 模拟有助于更好地理解抑制机制和在配体结合中起关键作用的重要氨基酸。这些结果以及使用复杂模拟方法对配体进行的详细自由能分析非常引人注目,这表明模拟在结合理解药物-受体相互作用的方法来破译分子机制的复杂模式方面具有更大的未来作用。