ASPD (Artificially Selected Proteins/Peptides Database):: a database of proteins and peptides evolved in vitro
ASPD (Artificially Selected Proteins/Peptides Database):: a database of proteins and peptides evolved in vitro
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DOI：
10.1093/nar/30.1.200
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发表时间：
2002-01-01
影响因子：
14.9
通讯作者：
Kolchanov, NA
中科院分区：
文献类型：
--
作者：
Valuev, VP;Afonnikov, DA;Kolchanov, NA
ASPD是一个新的数据库，包含了通过体外定向进化过程（主要是通过噬菌体展示）获得的全长蛋白、蛋白结构域和肽的数据。目前，ASPD数据库包含195个选择实验的数据，这些实验在112篇原始论文中被描述。对于每个实验，给出如下信息：(i)结合靶点的描述，（ii）作为文库构建模板的蛋白质或肽的描述，以及结合靶点的天然蛋白质的描述，（iii）与主要蛋白质组学数据库（SWISS-PROT， PDB， PROSITE和ENZYME）的链接，（iv）参考实验生物学意义的关键词，(v)通过体外进化检索到的蛋白质或肽序列与相关天然或构建的序列的比对，（vi）选择/扩增的轮数和（vii）每个序列的克隆出现次数。文献数据包括完整的参考文献、MEDLINE数据库链接和通讯作者姓名及其电子邮件地址。ASPD有一个用户友好的界面，允许使用蛋白质和配体的名称进行简单的查询，以及描述所研究的相互作用的生物学作用的关键字，也允许基于作者姓名的查询。还可以通过SRS系统访问数据库，允许进行复杂的查询。有一个针对ASPD的BLAST搜索工具可以直接查找同源序列。ASPD的研究工具允许分析针对一个目标选择的蛋白质和肽序列的两两相关性。ASPD数据库的URL为http://www.sgi.sscc.ru/mgs/gnw/aspd/。
ASPD is a new curated database that incorporates data on full-length proteins, protein domains and peptides that were obtained through in vitro directed evolution processes (mainly by means of phage display). At present, the ASPD database contains data on 195 selection experiments, which were described in 112 original papers. For each experiment, the following information is given: (i) description of the target for binding, (ii) description of the protein or peptide which serves as the template for library construction and description of the native protein which binds the target, (iii) links to the major proteomic databases (SWISS-PROT, PDB, PROSITE and ENZYME), (iv) keywords referring to the biological significance of the experiment, (v) aligned sequences of proteins or peptides retrieved through in vitro evolution and relevant native or constructed sequences, (vi) the number of rounds of selection/amplification and (vii) the number of occurrences of clones with each sequence. The literature data include a full reference, a link to the MEDLINE database and the name of the corresponding author with his email address. ASPD has a user-friendly interface which allows for simple queries using the names of proteins and ligands, as well as keywords describing the biological role of the interaction studied, and also for queries based on authors' names. It is also possible to access the database by means of the SRS system, allowing complex queries. There is a BLAST search tool against the ASPD for looking directly for homologous sequences. Research tools of the ASPD allow the analysis of pairwise correlations in the sequences of proteins and peptides selected against one target. The URL for the ASPD database is http://www.sgi.sscc.ru/mgs/gnw/aspd/.