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首页> 外文期刊>Journal of Biomolecular Structure and Dynamics >Thiophenacetamide as a potential modulator to NF-kappa B: structure and dynamics study using in silico and molecular biology assays
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Thiophenacetamide as a potential modulator to NF-kappa B: structure and dynamics study using in silico and molecular biology assays

机译:噻吩乙酰胺作为NF-Kappa B的潜在调节剂:在硅和分子生物学测定中使用的结构和动力学研究

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Nuclear factor kappa B (NF-kappa B) plays critical roles in the regulation of many pathophysiological processes, including inflammation and immune responses, cell growth and apoptosis. This DNA-binding protein receptor is considered an important molecular target to treat many diseases through host-directed therapy. In this line, several drugs containing thiophene cores have been extensively evaluated due to their ability to interfere on NF-kappa B translocation to the nucleus. In this work, assays using drug affinity responsive target stability (DARTS) revealed that the parent compound N-(Aryl)-2-thiophen-2-ylacetamide referred to as thiophenacetamide (TAA) specifically binds to the p65 subunit of the NF-kappa B. Since no experimental binding mode of TAA with p65 is available, we explored TAA within putative sites in silico to gain insights into its possible binding mode and behavior. The binding mode of TAA found in Site 1 formed hydrogen bonds with Lys37 and Asp125 on p65, important residues near DNA-binding region. Molecular dynamics simulations showed the stability of this mode of binding in contrast to the other also tested modes. Our results suggest that TAA binding could occur in regions close to residues responsible for DNA binding, increasing NF-kappa B protein rigidity and affecting the association between DNA and NF-kappa B. Communicated by Ramaswamy H. Sarma
机译:核因子Kappa B(NF-Kappa B)在调节许多病理生理过程中起重要作用,包括炎症和免疫应答,细胞生长和凋亡。该DNA结合蛋白受体被认为是通过宿主定向治疗治疗许多疾病的重要分子靶标。在这条线中,由于它们干扰Nuc-Kappa B易位的能力,已经广泛评估了含有噻吩核心的几种药物。在这项工作中,使用药物亲和力响应靶标稳定性(DART)的测定表明,母体化合物N-(芳基)-2-噻吩-2-酰基乙酰胺称为噻吩乙酰胺(TAA)特异性结合NF-Kappa的P65亚基B.由于没有P65的TAA的实验结合模式,我们在硅的推定站点内探索了TAA,以获得其可能的绑定模式和行为的洞察力。在位点1中发现的TAA的结合模式形成氢键与LYS37和ASP125在P65上,在DNA结合区域附近的重要残留物。分子动力学模拟表明这种结合模式的稳定性与另一种也是测试的模式。我们的研究结果表明,TAA结合可能发生在接近负责DNA结合的残留物的区域中,增加NF-Kappa B蛋白刚性并影响DNA和NF-Kappa B之间的关联。通过ramaswamy H. Sarma沟通

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