VISUALIZATION SOFTWARE FOR ELECTRON MICROSCOPY

电子显微镜可视化软件

• 批准号: 8170522
• 负责人: THOMAS GODDARD
• 金额: $ 1.79万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-07-01 至 2011-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8170522
• 关键词: 3-Dimensional; Chimera organism; Color; Computer Retrieval of Information on Scientific Projects Database; Computer software; Crystallography; Databases; Electron Microscopy; Filament; Funding; Grant; Institution; Life; Ligand Binding; Maps; Methods; Microtubules; Modeling; Molecular Machines; Molecular Models; Motor; Muscle; Organism; Proteins; Research; Research Personnel; Resolution; Resources; Ribosomes; Slice; Software Tools; Source; Structure; Surface; System; United States National Institutes of Health; Virus; Visualization software; Work; density; macromolecule; molecular assembly/self assembly; molecular modeling; software development

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. We are developing software for interactively analyzing 3-dimensional density maps obtained by electron microscopy (EM). The analysis aims to determine structures and inner workings of molecular machines such as viruses, ribosomes, microtubules and motors, muscle filaments, and dozens of others systems that are targets of current research. It is believed that most proteins in living organisms are parts of large molecular assemblies. Advances in experimental methods in the past several years have greatly accelerated research on these systems. The primary database of EM density maps (http://www.ebi.ac.uk/msd-srv/emsearch/index.html) was founded in 2002 and now (2010) has 773 entries. Software for deducing structures from these maps is being actively developed by many labs. Our software displays contour surfaces of density maps. Maps from electron microscopy have resolutions in the 5 - 100 Angstrom range which is too coarse to see atomic detail. Analysis involves fitting known atomic structures from crystallography into the maps, identifying structures in maps corresponding to unidentified proteins, and comparing maps of the same system under different experimental conditions to deduce conformational changes or binding of ligands or specific macromolecules. Our software tools, which are part of the UCSF Chimera molecular modeling package, support fitting, carving out density regions, coloring maps, and building coarse models in maps. In the past we have added the ability to slice maps along an arbitrarily oriented and movable plane displaying density values on the cut surface.

该副本是利用众多研究子项目之一 由NIH/NCRR资助的中心赠款提供的资源。子弹和 调查员（PI）可能已经从其他NIH来源获得了主要资金， 因此可以在其他清晰的条目中代表。列出的机构是 对于中心，这不一定是调查员的机构。 我们正在开发用于交互性分析3维的软件 通过电子显微镜（EM）获得的密度图。 分析目的 确定分子机的结构和内部工作 作为病毒，核糖体，微管和电动机，肌肉细丝，以及 其他数十个是当前研究的目标。 这是 认为活生物体中的大多数蛋白质是大型的一部分 分子组件。 过去实验方法的进步 几年来，对这些系统进行了极大的加速研究。 这 EM密度图的主要数据库 （http://www.ebi.ac.uk/msd-srv/emsearch/index.html）成立于2002年 现在（2010年）有773个条目。 用于推论结构的软件 这些地图是由许多实验室积极开发的。 我们的软件显示密度图的轮廓表面。 地图 电子显微镜在5-100 Angstrom范围内具有分辨率 太粗糙了，无法看到原子细节。 分析涉及安装 从晶体学到地图的已知原子结构， 识别与未识别蛋白相对应的地图中的结构， 并在不同的实验中比较同一系统的地图 推断配体的构象变化或结合的条件或 特定的大分子。 我们的软件工具是 UCSF Chimera分子建模套件，支撑配件，分解 密度区域，着色图和图中的粗模型。 过去，我们添加了沿着一个切片地图的能力 任意定向和可移动平面在 切割表面。