Goldenberg Ofir, Erez Elana, Nimrod Guy, Ben-Tal Nir
Department of Biochemistry, George S. Wise Faculty of Life Sciences, Tel Aviv University, Israel.
Nucleic Acids Res. 2009 Jan;37(Database issue):D323-7. doi: 10.1093/nar/gkn822. Epub 2008 Oct 29.
ConSurf-DB is a repository for evolutionary conservation analysis of the proteins of known structures in the Protein Data Bank (PDB). Sequence homologues of each of the PDB entries were collected and aligned using standard methods. The evolutionary conservation of each amino acid position in the alignment was calculated using the Rate4Site algorithm, implemented in the ConSurf web server. The algorithm takes into account the phylogenetic relations between the aligned proteins and the stochastic nature of the evolutionary process explicitly. Rate4Site assigns a conservation level for each position in the multiple sequence alignment using an empirical Bayesian inference. Visual inspection of the conservation patterns on the 3D structure often enables the identification of key residues that comprise the functionally important regions of the protein. The repository is updated with the latest PDB entries on a monthly basis and will be rebuilt annually. ConSurf-DB is available online at http://consurfdb.tau.ac.il/
ConSurf-DB是一个用于对蛋白质数据库（PDB）中已知结构的蛋白质进行进化保守性分析的资源库。使用标准方法收集并比对了每个PDB条目的序列同源物。使用ConSurf网络服务器中实现的Rate4Site算法计算比对中每个氨基酸位置的进化保守性。该算法明确考虑了比对蛋白质之间的系统发育关系以及进化过程的随机性质。Rate4Site使用经验贝叶斯推断为多序列比对中的每个位置分配一个保守水平。通过对三维结构上保守模式的目视检查，通常能够识别构成蛋白质功能重要区域的关键残基。该资源库每月会更新最新的PDB条目，并将每年重建一次。可在http://consurfdb.tau.ac.il/在线获取ConSurf-DB。
