Integrated Resource for Nucleic Acid Structures

摘要 我们正在分析、注释、组织和集成核酸3D结构数据与序列和 功能数据并将其提供给生物医学研究人员。这项建议的意义在于突出了 核酸在一系列细胞和生理过程中的作用，通过与特定的DNA相互作用而介导。 和RNA结合蛋白。DNA编码遗传信息，参与复制、重组、 转录和修复。RNA传递遗传信息，参与基因调控的方方面面。核糖核酸 也是核糖体的关键组成部分，是制造蛋白质的通用纳米机器和重要靶标 用于药物设计。RNA/DNA杂交体存在于许多生物学环境中，包括转录复合体、起源 以及广为宣传的用于精确编辑基因的CRISPR-CAS系统(Wright 2016)。他们 形成不同于双螺旋RNA或DNA的独特结构。高吞吐量的方法已经编目 许多新的非编码RNA(NcRNAs)和RNA结合蛋白缺乏已知的RNA结合 域名。这项建议的具体目的是：1)为所有核酸3D创建更完整的注释 结构，2)为核酸-蛋白质复合体创建新的注释，以及3)创建核酸 允许对有关核酸的信息进行深入和广泛搜索的知识库(NAKB) 序列和结构。在这些目标下，我们将对所有类型的核酸三维结构进行分析和注释， 包括DNA、RNA和DNA/RNA杂交物，并提高我们从序列预测3D结构的能力。 NAKB资源将提供新的搜索功能、增强的报告和到外部数据的链接， 功能和工具。拟议的增强功能将极大地提高我们搜索和可视化现有 有关核酸序列和结构特征的数据，将进一步丰富用户体验并使 数据发现。该提案的创新之处在于为所有核酸3D创建了统一的资源 结构。

SUMMARY We are analyzing, annotating, organizing, and integrating nucleic acid 3D structural data with sequence and functional data and delivering it to biomedical researchers. The significance of the proposal lies in the prominent roles of nucleic acids in a host of cellular and physiological processes, mediated by interaction with specific DNA- and RNA-binding proteins. DNA encodes genetic information and takes part in replication, recombination, transcription, and repair. RNA transmits genetic information and takes part in all aspects of gene regulation. RNA is also the key component of the ribosome, the universal protein-making nano-machine and an important target for drug design. RNA/DNA hybrids occur in many biological contexts, including transcription complexes, origins of replication, and the widely heralded CRISPR-CAS systems for precision editing of genes (Wright 2016). They form unique structures different from double helical RNA or DNA. High throughput methods have catalogued many new non-coding RNAs (ncRNAs) and RNA-binding proteins lacking previously known RNA-binding domains. The Specific Aims of this proposal are: 1) Create more complete annotations for all nucleic acid 3D structures, 2) create new annotations for nucleic acid-protein complexes, and 3) create a Nucleic Acid Knowledge Base (NAKB) that allows for both deep and wide searching of information about nucleic acid sequences and structures. Under these aims, we will analyze and annotate all types of nucleic acid 3D structures, including DNA, RNA, and DNA/RNA hybrids, and improve our ability to predict 3D structures from sequence. The NAKB resource will provide new search capabilities, enhanced reports, and link-outs to external data, features and tools. The proposed enhancements will greatly improve our abilities to search and visualize existing data on nucleic acid sequence and structural features and will further enrich the user experience and enable data discovery. The innovation of the proposal is the creation of a unified resource for all nucleic acid 3D structures.