Berber Burak, Doluca Osman
Eskisehir Technical University, Department of Biology.
Massey University, New Zealand.
Brief Bioinform. 2021 Mar 22;22(2):1023-1037. doi: 10.1093/bib/bbaa379.
Dihydroorotate dehydrogenase (DHODH) is a key enzyme required for de novo pyrimidine synthesis and it is suggested as a target for COVID19 treatment due to high pyrimidine demand by the virus replication in the infected host cells as well as its proven effect of blocking of cytokine release by the immune cells to prevent inflammation leading to acute respiratory distress. There are a number of clinical trials underway for COVID19 treatment using DHODH inhibitors; however, there are only a small number of known DHODH antagonists available for testing. Here, we have applied a methodology to identify DHODH antagonist candidates, and compared them using in silico target prediction tools. A large set of 7900 FDA-approved and clinical stage drugs obtained from DrugBank were docked against 20 different structures DHODH available in PDB. Drugs were eliminated according to their predicted affinities by Autodock Vina. About 28 FDA-approved and 79 clinical trial ongoing drugs remained. The mode of interaction of these molecules was analyzed by repeating docking using Autodock 4 and DS Visualiser. Finally, the target region predictions of 28 FDA-approved drugs were determined through PASS and SwissTargetPrediction tools. Interestingly, the analysis of in silico target predictions revealed that serotonin-dopamine receptor antagonists could also be potential DHODH inhibitors. Our candidates shared a common attribute, a possible interaction with serotonin-dopamine receptors as well as other oxidoreductases, like DHODH. Moreover, the Bruton Tyrosine Kinase-inhibitor acalabrutunib and serotonin-dopamine receptor inhibitor drugs on our list have been found in the literature that have shown to be effective against Sars-CoV-2, while the path of activity is yet to be identified. Identifying an effective drug that can suppress both inflammation and virus proliferation will play a crucial role in the treatment of COVID. Therefore, we suggest experimental investigation of the 28 FDA-approved drugs on DHODH activity and Sars-CoV-2 virus proliferation. Those who are found experimentally effective can play an important role in COVID19 treatment. Moreover, we suggest investigating COVID19 case conditions in patients using schizophrenia and depression drugs.
二氢乳清酸脱氢酶(DHODH)是从头合成嘧啶所需的关键酶,由于受感染宿主细胞中病毒复制对嘧啶的高需求,以及其阻断免疫细胞释放细胞因子以防止炎症导致急性呼吸窘迫的已证实效果,它被认为是治疗COVID-19的一个靶点。目前有多项使用DHODH抑制剂治疗COVID-19的临床试验正在进行;然而,可供测试的已知DHODH拮抗剂数量很少。在这里,我们应用了一种方法来鉴定DHODH拮抗剂候选物,并使用计算机模拟靶点预测工具对它们进行比较。从DrugBank获得的一大组7900种FDA批准的和处于临床阶段的药物与PDB中可用的20种不同结构的DHODH进行对接。根据Autodock Vina预测的亲和力去除药物。大约剩下28种FDA批准的药物和79种正在进行临床试验的药物。使用Autodock 4和DS Visualiser通过重复对接分析这些分子的相互作用模式。最后,通过PASS和SwissTargetPrediction工具确定28种FDA批准药物的靶点区域预测。有趣的是,计算机模拟靶点预测分析表明,5-羟色胺-多巴胺受体拮抗剂也可能是潜在的DHODH抑制剂。我们的候选物有一个共同的特性,即可能与5-羟色胺-多巴胺受体以及其他氧化还原酶(如DHODH)相互作用。此外,我们名单上的布鲁顿酪氨酸激酶抑制剂阿卡拉布替尼和5-羟色胺-多巴胺受体抑制剂药物在文献中已被发现对Sars-CoV-2有效,但其活性途径尚未确定。确定一种既能抑制炎症又能抑制病毒增殖的有效药物将在COVID的治疗中发挥关键作用。因此,我们建议对这28种FDA批准的药物进行关于DHODH活性和Sars-CoV-2病毒增殖的实验研究。那些经实验证明有效的药物可以在COVID-19治疗中发挥重要作用。此外,我们建议研究使用精神分裂症和抑郁症药物的患者的COVID-19病例情况。