COMPUTER ANALYSIS OF LOW-COMPLEXITY AMINO ACID SEQUENCES

低复杂性氨基酸序列的计算机分析

• 批准号: 3845113
• 负责人: J WOOTTON
• 金额: --
• 依托单位: NATIONAL LIBRARY OF MEDICINE
• 依托单位国家: 美国
• 资助国家: 美国
• 起止时间: 至
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/3845113
• 关键词: biological signal transduction; computer assisted sequence analysis; computer data analysis; computer system design /evaluation; embryology; eukaryote; genetic transcription; intermolecular interaction; mathematics; protein sequence; protein structure function; statistics /biometry

Computer methods were developed to define, classify and analyze all segments of protein sequences of improbably low compositional complexity. These include residue clusters of predominantly one or a few amino acid types, which commonly contain homopolymeric tracts or mosaics of these, aperiodic patterns and sections of low-period repeats. The abundance of these segments in sequence databases was determined and their properties were related to evidence of biological functions. A. Methods: Different formal definitions of local compositional complexity were developed to permit unbiassed identification of low-complexity segments, irrespective of their specific residue clustering or repeat patterns. Algorithms were developed and refined for optimal partitioning of sequences into segments of low and high complexity. Various statistical properties of the segments were used as optimization and classification heuristics and were tuned to (a) select segments for further study and (b) filter out non-informative segments prior to database searches. B. Abundance and biological properties: Using a relatively stringent complexity threshold, approximately 15% of the residues in protein databases are in low-complexity segments of typical lengths 15-50 amino acids, and approximately 40% of proteins contain one or more such segments. They are highly abundant in many eukaryotic proteins crucial in morphogenesis and embryonic development, transcriptional regulation, signal transduction and aspects of cellular and extracellular structural integrity and interactions. The sequences show diverse molecular interactions and tend to evolve rapidly. Significance of project: The project has highlighted the high abundance and biological importance of low-complexity protein segments and emphasized the relative lack of knowledge of their molecular structure and dynamics. The new computer methods are enhancing sequence database searches and analysis.

发展了计算机方法来定义、分类和分析所有 组成复杂程度低得不可思议的蛋白质序列片段。 这些包括以一种或几种氨基酸为主的残基簇 类型，通常包含这些类型的同种多聚体区域或马赛克， 低周期重复的非周期模式和节段。丰富的…… 确定了序列数据库中的这些片段及其属性 与生物学功能的证据有关。 A.方法：局部成分的不同形式定义 复杂性被开发为允许无偏见地识别 低复杂性片段，与其特定残基聚类无关 或者重复模式。开发和改进算法以实现最优 将序列划分为低复杂度和高复杂度的片段。 使用分段的各种统计属性作为优化 和分类试探法，并被调整为(A)选择用于 进一步研究和(B)过滤掉不具信息性的部分 数据库搜索。 B.丰度和生物学特性：使用相对严格的 复杂性阈值，蛋白质中约15%的残基 数据库的复杂性较低，通常长度为15-50个氨基 酸，大约40%的蛋白质含有一个或多个这样的 细分市场。它们在许多真核生物蛋白质中高度丰富，这些蛋白质在 形态发生和胚胎发育，转录调控， 信号转导与细胞和细胞外结构 诚信和互动。这些序列显示了不同的分子 相互作用，并倾向于快速发展。 项目意义：项目突出了丰度之高 以及低复杂性蛋白质片段的生物学重要性 强调相对缺乏对它们的分子结构和 动力学。新的计算机方法是增强序列数据库 搜索和分析。