Radiolytic Footprinting Methods for Structural Mass Spectrometry

结构质谱的放射分解足迹方法

• 批准号: 8070036
• 负责人: MARK R CHANCE
• 金额: $ 27.16万
• 依托单位: CASE WESTERN RESERVE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-05-10 至 2014-02-28
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8070036
• 关键词: Actins; Algorithms; Amino Acids; Binding; Biological; Biology; Cell membrane; Cells; Chemistry; Collaborations; Complex; Computing Methodologies; Coupled; Data; Detection; Development; Disease; Dissociation; Docking; Dose; Electron Transport; Environment; Exhibits; Filament; Future; G Protein-Coupled Receptor Genes; G-Protein-Coupled Receptors; GTP-Binding Proteins; Goals; Health; Hydroxyl Radical; Ions; Label; Laboratories; Lead; Location; Mass Spectrum Analysis; Mediating; Medicine; Membrane Proteins; Methods; Modeling; Modification; Monitor; Myosin ATPase; Noise; Pharmaceutical Preparations; Post-Translational Protein Processing; Process; Property; Protein Footprinting; Proteins; Reaction; Resolution; Rhodopsin; Side; Signal Transduction; Signaling Protein; Site; Solutions; Solvents; State Interests; Structure; Techniques; Technology; Time; Transducin; Water; Work; alanylglutamine; aspartylglutamate; base; cofilin; density; dimer; innovation; instrumentation; lysylglutamic acid; macromolecular assembly; millisecond; monomer; multiple reaction monitoring; novel; novel strategies; protein complex; public health relevance; research study; response; technology development

DESCRIPTION (provided by applicant): We have developed innovative methods of structural mass spectrometry based on hydroxyl radical modification of proteins. These structural mass spectrometry methods have recently gained widespread acceptance and are ripe for further development. In this proposal we will: increase the sensitivity of protein footprinting methods ~1000 fold; integrate docking approaches with protein footprinting data to probe the structure of protein complexes and develop methods to examine the dynamics of water in proteins using footprinting. Our preliminary data has shown feasibility for the examination of the G- protein coupled receptor rhodopsin in its ground and photo-activated states using increased x-ray flux density and shorter exposure times. Within Aim 1 we will use increased x-ray flux density to further explore the structural and solvent dynamics accompanying GPCR activation and the structural mechanism of signaling that mediates information to downstream signaling proteins. Our guiding hypothesis is that highly conserved structural motifs that include bound waters are reorganized to provide a highly controlled signaling channel. In Aim 2 we will further develop a novel O18 water labeling- radiolysis technique to examine the locations and dynamics of structural waters and the exchange properties of bulk water in multiple biological states of interest for rhodopsin and actin. In Aim 3 we will perfect targeted MS approaches to detect low abundance modifications in protein footprinting experiments to enhance the number of amino acids side chains routinely detected by these experiments. In Aim 4 we will develop computational methods of docking that incorporate footprinting data in structure determination. Our hypothesis is that use of footprinting data will drive correct selection of the correct structure among competing docking solutions that are of comparable energies. Optimized algorithmic approaches will be used to model complexes of myosin or cofilin with actin and complexes of rhodopsin and transducin. PUBLIC HEALTH RELEVANCE: G-protein coupled receptors are the targets of close to half of all drugs; a better understanding of their activation mechanisms would have a major impact on health and disease. Advanced technologies to examine the structure and dynamics of all proteins are needed in biology and medicine to better correlate structure and function.

描述（由申请人提供）：我们开发了基于蛋白质羟基修饰的结构质谱分析的创新方法。这些结构质谱方法最近已得到广泛接受，并已成熟，可进一步发展。在本提案中，我们将：将蛋白质足迹法的灵敏度提高约1000倍;将对接方法与蛋白质足迹数据相结合，以探测蛋白质复合物的结构，并开发使用足迹法检查蛋白质中水动力学的方法。我们的初步数据已经显示了使用增加的X射线通量密度和更短的曝光时间检查G蛋白偶联受体视紫红质在其基态和光活化态的可行性。在目标1中，我们将使用增加的X射线通量密度来进一步探索伴随GPCR活化的结构和溶剂动力学以及将信息介导到下游信号蛋白的信号传导的结构机制。我们的指导假设是，高度保守的结构基序，包括结合沃茨重组，以提供一个高度控制的信号通道。在目标2中，我们将进一步开发一种新的O 18水标记-辐解技术，以研究结构沃茨的位置和动力学以及视紫红质和肌动蛋白在多种生物状态下的本体水的交换特性。在目标3中，我们将完善靶向MS方法，以检测蛋白质足迹实验中的低丰度修饰，以增加这些实验常规检测到的氨基酸侧链的数量。在目标4中，我们将开发将足迹数据纳入结构确定的对接计算方法。我们的假设是，使用足迹数据将驱动正确的选择之间的竞争对接解决方案，是可比的能量的正确结构。优化的算法方法将被用来模拟复合物的肌球蛋白或cofilin与肌动蛋白和复合物的视紫红质和transducin。 公共卫生关系：G蛋白偶联受体是近一半药物的靶点;更好地了解其激活机制将对健康和疾病产生重大影响。生物学和医学需要先进的技术来检查所有蛋白质的结构和动力学，以更好地将结构和功能联系起来。