序列异源性加速蛋白质在DNA上的靶标搜索
Sequence Heterogeneity Accelerates Protein Search for Targets on DNA
摘要：
蛋白质寻找DNA上特定结合位点的过程非常重要，因为它标志着所有主要生物过程的开始。我们提出了一个理论研究，探讨DNA序列的对称性，异质性和化学组成的蛋白质搜索动力学的作用。使用离散状态随机方法与第一次通过事件分析，考虑到最相关的物理-化学过程，得到一个完整的分析描述的搜索动态。结果发现，与现有的观点相反，蛋白质搜索通常是更快的DNA与更多的异质性序列。此外，搜索动力学可能会受到目标站点附近化学成分的影响。这些现象的物理起源进行了讨论。我们的研究结果表明，生物过程可能会有效地调节通过修改化学组成，对称性和异质性的基因组。
英文摘要：
The process of protein search for specific binding sites on DNA is fundamentally important since it marks the beginning of all major biological processes. We present a theoretical investigation that probes the role of DNA sequence symmetry, heterogeneity and chemical composition in the protein search dynamics. Using a discrete-state stochastic approach with a first-passage events analysis, which takes into account the most relevant physical-chemical processes, a full analytical description of the search dynamics is obtained. It is found that, contrary to existing views, the protein search is generally faster on DNA with more heterogeneous sequences. In addition, the search dynamics might be affected by the chemical composition near the target site. The physical origins of these phenomena are discussed. Our results suggest that biological processes might be effectively regulated by modifying chemical composition, symmetry and heterogeneity of a genome.
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