Dynamics and Mechanism of Water-Protein Interactions

水-蛋白质相互作用的动力学和机制

• 批准号: 8536854
• 负责人: DONGPING ZHONG
• 金额: $ 27.96万
• 依托单位: OHIO STATE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-09-01 至 2015-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8536854
• 关键词: Active Sites; Address; Amino Acids; Architecture; Benchmarking; Binding; Binding Sites; Biological Process; Catalysis; Chemical Structure; Chemicals; Complex; Coupled; Coupling; DNA; DNA-Directed DNA Polymerase; Data; Docking; Drug Design; Enzymes; Evolution; Future; Goals; Heterogeneity; Hydration status; Investigation; Isotopes; Knowledge; Lasers; Lead; Life; Maps; Mediation; Membrane Proteins; Methodology; Methods; Modeling; Molecular; Motion; Mutation; Nature; Neurodegenerative Disorders; Optics; Prevention; Property; Protein Dynamics; Protein Engineering; Proteins; Relaxation; Research; Resolution; Role; Scanning; Science; Series; Site-Directed Mutagenesis; Spectrum Analysis; Structural Protein; Structure; Surface; System; Temperature; Time; Tryptophan; Water; biological systems; flexibility; globular protein; improved; insight; interfacial; molecular dynamics; molecular recognition; mutant; novel; practical application; protein aggregation; protein protein interaction; protein structure; simulation

DESCRIPTION (provided by applicant): Protein hydration is a long-standing and unresolved problem in protein science and water-protein interactions/dynamics are essential to a protein's structure, dynamics and function. The elucidation of such coupling motions at the molecular level not only has fundamental significance in understanding protein stability and flexibility, folding, misfolding and aggregation, recognition and binding, and enzyme catalysis, but also has a significant impact on practical applications such as drug design. Various methods and strategies have been used to characterize water motions around proteins, but such studies have been challenging and difficult because the dynamics are ultrafast and heterogeneous. A general molecular picture has not been obtained yet. We have recently developed a methodology by integrating state-of-the-art femtosecond laser spectroscopy and site-directed mutagenesis and have reached femtosecond temporal resolution and single-residue spatial resolution. Using intrinsic amino acid tryptophan as a local optical probe, we have recently mapped out the global water motions around an a-helical globular protein with unprecedented details. In this proposal, we will systematically characterize water motions around small structural motifs, on surfaces of ¿-sheet globular proteins, and at interfaces of protein-DNA complexes. Specifically, Aim 1 is to elucidate the hydration dynamics evolution by systematic characterization of water motions from an a-helix, to a ¿-hairpin, to a small cage, and to a mini-protein. With the fundamental understanding of water motions around these elemental structure units, in Aim 2 we extend to characterize the global surface hydration dynamics around two ¿-sheet globular proteins. Combined with recently characterized water dynamics around the a-helical globular protein, we hope that such systematic comparisons will reveal the different dynamic nature of water motions around different protein architectures with different size, rigidity, chemical identity. Finally, in Aim 3, we investigate the interfacial hydration dynamics by systematic characterization of water motions at the interfaces of two protein-DNA complexes to address the dynamic role of water motions in mediation of protein-DNA recognition. The new knowledge obtained from these systematic investigations is fundamental to a wide variety of biological processes and also significant to a series of practical applications.

描述（由申请人提供）：蛋白质水合作用是蛋白质科学中一个长期存在且尚未解决的问题，水-蛋白质相互作用/动力学对蛋白质的结构、动力学和功能至关重要。在分子水平上阐明这种偶联运动，不仅对理解蛋白质的稳定性和柔韧性、折叠、错折叠和聚集、识别和结合、酶催化等具有重要意义，而且对药物设计等实际应用也有重要影响。各种方法和策略已经被用来表征蛋白质周围的水运动，但由于动力学是超快和异质的，这些研究一直具有挑战性和困难。目前还没有得到一个总的分子图。我们最近通过整合最先进的飞秒激光光谱和定点诱变开发了一种方法，并达到了飞秒时间分辨率和单残基空间分辨率。利用固有氨基酸色氨酸作为局部光学探针，我们最近以前所未有的细节绘制了a-螺旋球状蛋白周围的全球水运动。在这个提议中，我们将系统地描述水在小结构基序周围、在球状蛋白的表面和在蛋白质- dna复合物的界面上的运动。具体来说，目标1是通过系统表征水从a-螺旋到发夹，到小笼和迷你蛋白质的运动来阐明水合动力学的演变。随着对水在这些基本结构单元周围运动的基本理解，在Aim 2中，我们扩展到表征两层球状蛋白周围的全球表面水合动力学。结合最近表征的a-螺旋球形蛋白周围的水动力学，我们希望这种系统的比较将揭示具有不同大小，刚性，化学特性的不同蛋白质结构周围水运动的不同动力学性质。最后，在Aim 3中，我们通过系统表征两种蛋白质- dna复合物界面上的水运动来研究界面水合动力学，以解决水运动在蛋白质- dna识别中介中的动态作用。从这些系统的研究中获得的新知识是广泛的生物过程的基础，对一系列的实际应用也很重要。