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.

开发了计算机方法来定义，分类和分析所有 不可能低组成复杂性的蛋白质序列的片段。 其中包括主要的一个或几个氨基酸的残留簇 类型通常包含均聚糖区或镶嵌物的类型， 低周期重复序列的基本模式和部分。丰富的 确定了序列数据库中的这些段，并将其属性 与生物学功能的证据有关。 A.方法：当地构图的不同形式定义 开发了复杂性，以允许公正地识别 低复杂性段，无论其特定残留集群不管 或重复模式。开发并完善算法以获得最佳 将序列划分为低复杂性和高复杂性段。 各个段的各种统计特性用作优化 和分类启发式方法，并调整为（a）选择的部分 进一步的研究和（b）在 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，大约15％的蛋白质残基 数据库处于典型长度15-50氨基的低复杂性段 酸，大约40％的蛋白质含有一个或多个此类蛋白质 细分市场。 它们在许多至关重要的真核蛋白中很丰富 形态发生和胚胎发育，转录调控， 信号转导和细胞外结构的各个方面 完整性和互动。序列显示分子多样 相互作用并倾向于迅速发展。 项目的意义：该项目强调了很高的丰度 低复杂性蛋白段的生物学重要性和 强调了对其分子结构的相对缺乏知识和 动力学。新的计算机方法正在增强序列数据库 搜索和分析。