Database of Protein Modifications: Enhancements for Visualization, Modeling and Internet Access

由Margaret Dayhoff在国家生物医学研究基金会（NBRF）建立的蛋白质信息资源（PIR）合作收集和出版了PIR国际蛋白质序列数据库，这是最古老的生物分子序列和注释数据库。作为其努力的一部分，以产生一个蛋白质序列数据库，是全面的，准确的，精确的和一致的，PIR维护了一些辅助注释数据库。RESID是一个原型辅助数据库，用于在PIR蛋白质序列数据库中注释为特征的修饰的氨基酸残基。由注释者和外部专家咨询，RESID数据库提供 比蛋白质序列数据库更详细的化学信息， 蛋白质序列数据库中伴随特征的适当注释，以及 一种计算修饰肽的正确分子量的方法。 它也被用作自动检查特征记录中的语法和词汇的标准。它是唯一公开可用的，人类和计算机可读的数据库，全面记录蛋白质结构修饰，并已被公认为是一种资源，可用于通过质谱法鉴定后修饰的肽。 拟议的两年期工作的目标是： 进行必要的改进，使RESID可在因特网上访问， 为数据库构建分子描述， 将使图形演示和协助研究人员 在生成后免疫的分子模型中， 修饰的肽，和 到 集成软件， 修饰残基的结构， 序列 数据库访问程序。 当这个项目完成后，增强的RESID数据库将为ATLAS和PIR万维网网站的用户提供以前没有的可视化显示和分子建模信息，一个全面的蛋白质翻译后修饰的集合。它还将支持PIR和其他生物分子结构数据库（如Brookhaven Protein Databank）之间的互操作性。 摘要 一九九八年七月二十五日 1

The Protein Information Resource (PIR), established at the National Biomedical Research Foundation (NBRF) by Margaret Dayhoff, collaboratively collects and publishes the PIR International Protein Sequence Database, the oldest database of biomolecular sequences and annotation. As part of its effort to produce a protein sequence database that is comprehensive, accurate, precise and consistent, the PIR maintains a number of auxiliary annotation databases. RESID a prototype auxiliary database was constructed for modified amino acid residues annotated as features in the PIR Protein Sequence Database. Consulted by annotators and outside experts the RESID Database provides more detailed chemical information than is possible in the protein sequence database, appropriate annotations to accompany features in the Protein Sequence Database, and a means to calculate correct molecular weights for modified peptides. It is also used as the standard for automatic checking of syntax and vocabulary in feature records. It is the only publicly available, human- and computer-readable database comprehensively documenting protein structural modifications, and has been recognized as a resource useful in identifying post-translationally modified peptides by mass-spectroscopy. The objectives of the proposed two-year effort are: to undertake the enhancements necessary to make RESID accessible on the Intemet, to construct molecular descriptions for the database that will enable graphical presentation and assist researchers in generating molecular models of post-translationally modified peptides, and to integrate software that will display the chemical structure of modified residues with existing sequence database access programs. When this project is completed, the enhanced RESID Database will provide users of ATLAS and the PIR World Wide Web Site with visual display and molecular modeling information not previously available, a comprehensive collection of protein post-translational modifications. It will also support interoperability between the PIR and other biomolecular structural databases such as the Brookhaven Protein Databank. Abstract July 25, 1998 1