Recognizing DNA
Recognizing DNA
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DOI：
10.1017/s0033583505004105
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发表时间：
2005-11-01
影响因子：
6.1
通讯作者：
Lavery, Richard
中科院分区：
文献类型：
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作者：
Lavery, Richard
很明显，蛋白质-DNA识别没有简单的“密码”，选择沿着DNA双螺旋的最佳结合序列不仅仅是形成一组特定的氢键或空间相互作用。然而，很难确定所谓的间接承认组成部分的特征。虽然DNA变形肯定是间接识别的基础，但要确定局部精细结构和变形能力如何取决于碱基序列，或者确切地将识别百分比归因于这些因素并不容易。分子模拟有助于将这些想法发展成定量模型，前提是计算速度足够快，能够对碱基序列效应进行全面调查。我在这里介绍了我们团队的一些最新结果及其对提高我们对蛋白质-DNA结合的理解的影响，以及它们预测并最终调控蛋白质-DNA结合的潜力。
It has become clear that there is no simple 'code' for protein-DNA recognition and that selecting an optimal binding sequence along the DNA double helix corresponds to more than simply forming a set of specific hydrogen bonds or steric interactions. However, it has been difficult to characterize the so-called indirect components of recognition. While DNA deformation certainly underlies indirect recognition, it is not easy to determine how local fine structure and deformability depend on base sequence or exactly what percentage of recognition should be attributed to such factor. Molecular modelling can help to develop these ideas into a quantitative model, provided the calculations can be carried out fast enough to enable a comprehensive survey of base-sequence effects. I present here some recent results from our group and their consequences for improving our understanding of protein-DNA binding, and their potential for predicting, and eventually modulating, protein-DNA binding.