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Blocking the interactions between human ACE2 and coronavirus spike glycoprotein by selected drugs: a computational perspective

机译:选定药物阻断人 ACE2 和冠状病毒刺突糖蛋白之间的相互作用:计算视角

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The coronavirus disease of 2019 (COVID-19) has become a global pandemic with rapid rate of transmission and fatalities worldwide. Scientists have been investigating a host of drugs that may be rechanneled to fight this malaise. Thus, in this current computational study we carried out molecular docking experiments to assess the bridging potentials of some commercial drugs such as chloroquine, hydroxychloroquine, lopinavir, ritonavir, nafamostat, camostat, famotidine, umifenovir, nitazoxanide, ivermectin, and fluvoxamine at the interface between human ACE2 and the coronavirus spike glycoprotein complex. This is aimed at ascertaining the ability of these drugs to bridge and prevent the complexing of these two proteins. The crystal structure of human ACE2 and the coronavirus spike glycoprotein complex was retrieved from protein database, while the selected drugs were retrieved from PubChem data base. The proteins and drugs were prepared for docking using Cresset Flare software. The docking was completed via AutoDock Vina module in Python Prescription software. The best hit drugs with each receptor were selected and their molecular interactions were analyzed using BIOVIA’s Discovery Studio 2020. The best hit compounds on the human ACE2 were the lopinavir (-10.1 kcal/mol), ritonavir (-8.9 kcal/mol), and nafamostat (-8.7 kcal/mol). Ivermectin, nafamostat, and camostat with binding energy values -9.0 kcal/mol, -7.8 kcal/mol, and -7.4 kcal/mol respectively were the hit drugs on the coronavirus spike glycoprotein. Nafamostat showed a dual bridging potential against ACE2 and spike glycoprotein, and could therefore be a promising lead compound in the prevention and control of this disease.
机译:2019 年冠状病毒病 (COVID-19) 已成为一种全球大流行病,在全球范围内传播速度快,死亡率高。科学家们一直在研究许多可能被重新引导以对抗这种不适的药物。因此,在目前的这项计算研究中,我们进行了分子对接实验,以评估一些商业药物的桥接潜力,如氯喹、羟氯喹、洛匹那韦、利托那韦、萘莫司他、卡莫司他、法莫替丁、umifenovir、硝唑尼特、伊维菌素和氟伏沙明在人 ACE2 和冠状病毒刺突糖蛋白复合物之间的界面。这旨在确定这些药物桥接和防止这两种蛋白质复合的能力。从蛋白质数据库中检索人 ACE2 和冠状病毒刺突糖蛋白复合物的晶体结构,而从PubChem数据库中检索选定的药物。使用 Cresset Flare 软件制备用于对接的蛋白质和药物。通过 Python Prescription 软件中的 AutoDock Vina 模块完成对接。选择具有每种受体的最佳命中药物,并使用 BIOVIA 的 Discovery Studio 2020 分析它们的分子相互作用。对人 ACE2 反应最好的化合物是洛匹那韦 (-10.1 kcal/mol)、利托那韦 (-8.9 kcal/mol) 和萘莫司他 (-8.7 kcal/mol)。伊维菌素、萘莫司他和卡莫司他,结合能值为 -9.0 kcal/mol、-7.8 kcal/mol 和 -7。4 kcal/mol 分别是冠状病毒刺突糖蛋白的命中药物。萘莫司他显示出对 ACE2 和刺突糖蛋白的双重桥接潜力,因此可能成为预防和控制该病的有前途的先导化合物。

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