Novel Algorithms for Crystallographic Computing

晶体学计算的新算法

• 批准号: 7049376
• 负责人: Nikolaos Sahinidis
• 金额: $ 41.23万
• 依托单位: UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN
• 依托单位国家: 美国
• 财政年份: 2004
• 资助国家: 美国
• 起止时间: 2004-04-01 至 2009-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7049376
• 关键词: X ray crystallography; bioengineering /biomedical engineering; bioimaging /biomedical imaging; computational biology; computer program /software; computer system design /evaluation; macromolecule; mathematical model; method development; model design /development; molecular shape; protein structure; statistics /biometry; structural biology; three dimensional imaging /topography

DESCRIPTION (provided by applicant): Since the mid nineteen hundreds, analysis of X-ray diffraction data of crystals has been used extensively for the determination of molecular structure and properties. While the method is employed almost on a routine basis worldwide, it is often a major challenge to identify the three-dimensional structure that best fits the diffraction data. A key obstacle, in particular, is the identification of the phases of the diffracted rays from measurements of intensities alone. This problem is known as the "phase problem" in crystallography and its solution represents a major obstacle towards advancing the frontiers of macromolecular crystallography and structural biology. The primary goal of this project is the development of a systematic methodology for resolving the phase problem in crystallographic computing. Towards this goal, we plan to: (a) develop novel mathematical models for determining three-dimensional crystal structures from single crystal X-ray diffraction measurements; (b) devise mathematical optimization algorithms to solve the above models in a reliable and efficient way, thus increasing the size of tractable structures; (c) develop and make available to the research community a computational system implementing the above models and algorithms; and (d) apply the developed methodology to determine the three-dimensional structures of proteins and other important biological macromolecules. The project will build on a novel algorithm recently pioneered by the Principal Investigator to solve a model that has been demonstrated by the collaborating team to be capable of unraveling structures of biomolecules. The broader impacts of the project include mentoring of graduate students and postdoctoral trainees, integration of research results in a Bioinformatics course, and wide dissemination through on-line software implementing the results of this project. The proposed work promises to lay the foundations of a new generation of crystallographic computing systems that will reveal structures important in the understanding of life, materials science, and drug design. The long term impact to society could be immense as the project could lead to methodology capable of deciphering the secrets of life and playing a pivotal role in the development of new drugs.

描述（由申请人提供）：自20世纪中期以来，晶体的x射线衍射数据分析已被广泛用于确定分子结构和性质。虽然该方法在世界范围内几乎是一种常规方法，但确定最适合衍射数据的三维结构往往是一个主要挑战。特别是，一个关键的障碍是仅通过测量强度来确定衍射射线的相位。这个问题在晶体学中被称为“相问题”，它的解决是大分子晶体学和结构生物学向前发展的主要障碍。