GenOuest Platform, France.
Nucleic Acids Res. 2013 Jan;41(Database issue):D396-401. doi: 10.1093/nar/gks1091. Epub 2012 Nov 21.
CyanoLyase (http://cyanolyase.genouest.org/) is a manually curated sequence and motif database of phycobilin lyases and related proteins. These enzymes catalyze the covalent ligation of chromophores (phycobilins) to specific binding sites of phycobiliproteins (PBPs). The latter constitute the building bricks of phycobilisomes, the major light-harvesting systems of cyanobacteria and red algae. Phycobilin lyases sequences are poorly annotated in public databases. Sequences included in CyanoLyase were retrieved from all available genomes of these organisms and a few others by similarity searches using biochemically characterized enzyme sequences and then classified into 3 clans and 32 families. Amino acid motifs were computed for each family using Protomata learner. CyanoLyase also includes BLAST and a novel pattern matching tool (Protomatch) that allow users to rapidly retrieve and annotate lyases from any new genome. In addition, it provides phylogenetic analyses of all phycobilin lyases families, describes their function, their presence/absence in all genomes of the database (phyletic profiles) and predicts the chromophorylation of PBPs in each strain. The site also includes a thorough bibliography about phycobilin lyases and genomes included in the database. This resource should be useful to scientists and companies interested in natural or artificial PBPs, which have a number of biotechnological applications, notably as fluorescent markers.
藻蓝蛋白裂合酶数据库（http://cyanolyase.genouest.org/）是一个人工整理的藻蓝蛋白裂合酶和相关蛋白的序列和基序数据库。这些酶催化发色团（藻胆蛋白）与藻胆蛋白结合蛋白（PBPs）的特定结合位点的共价连接。后者构成了藻蓝体的构建块，藻蓝体是蓝藻和红藻的主要光收集系统。藻蓝蛋白裂合酶序列在公共数据库中的注释较差。数据库中包含的序列是通过使用生物化学特征酶序列进行相似性搜索，从这些生物体的所有可用基因组和其他一些基因组中检索到的，并分为 3 个族和 32 个家族进行分类。使用 Protomata learner 为每个家族计算了氨基酸基序。数据库还包括 BLAST 和一种新颖的模式匹配工具（Protomatch），允许用户从任何新基因组中快速检索和注释裂合酶。此外，它还提供了所有藻蓝蛋白裂合酶家族的系统发育分析，描述了它们的功能，以及它们在数据库中所有基因组中的存在/缺失情况（系统发育概况），并预测了每个菌株中 PBPs 的发色团化。该网站还包括一个关于藻蓝蛋白裂合酶和数据库中包含的基因组的全面文献目录。对于对天然或人工 PBPs 感兴趣的科学家和公司来说，这个资源应该是有用的，PBPs 具有许多生物技术应用，特别是作为荧光标记物。
