Distribution, classification, domain architectures and evolution of prolyl oligopeptidases in prokaryotic lineages.
Distribution, classification, domain architectures and evolution of prolyl oligopeptidases in prokaryotic lineages.
复制标题
原核谱系中丙酰寡肽酶的分布，分类，结构结构和进化。
DOI：
10.1186/1471-2164-15-985
复制
发表时间：
2014-11-18
期刊：
影响因子：
4.4
通讯作者：
Sowdhamini R
中科院分区：
文献类型：
--
作者：
Kaushik S;Sowdhamini R
脯氨酸寡肽酶（Prolyl oligopeptidases, POPs）是一种蛋白质水解酶，广泛分布于所有生命体中。细菌持久性有机污染物是重要的药物酶，但其功能和进化细节尚未得到充分探讨。因此，当前的分析旨在了解持久性有机污染物在细菌和古细菌谱系中的分布、结构域结构、可能的生物学功能和基因家族扩展。对1202个细菌基因组和91个古细菌基因组进行了详尽的序列分析，发现了约3000个POP同源物，其中只有638个POP有注释。我们在所有分析的细菌谱系中观察到广泛分布的持久性有机污染物。系统发育分析和对不同门持久性有机污染物的共聚表明它们在所有原核生物物种中具有共同的功能。此外，根据独特的序列基序，我们可以将细菌持久性有机污染物分为8个亚型。对持久性有机污染物共存结构域的分析强调了它们参与蛋白质相互作用和细胞信号传导。通过鉴定39个新的持久性有机污染物和158个新的α/β水解酶成员，我们发现了该基因家族的显著延伸。我们的研究反映了持久性有机污染物在细菌物种中的多样性和功能重要性。许多具有多个持久性有机污染物的基因组具有高序列变异和不同的细胞定位。POP基因在不同细菌基因组中的异常分布表明，POP基因家族的差异扩展主要是由多个水平基因转移事件引起的。本文的在线版本（doi:10.1186/1471-2164-15-985）包含补充材料，可供授权用户使用。
Prolyl oligopeptidases (POPs) are proteolytic enzymes, widely distributed in all the kingdoms of life. Bacterial POPs are pharmaceutically important enzymes, yet their functional and evolutionary details are not fully explored. Therefore, current analysis is aimed at understanding the distribution, domain architecture, probable biological functions and gene family expansion of POPs in bacterial and archaeal lineages. Exhaustive sequence analysis of 1,202 bacterial and 91 archaeal genomes revealed ~3,000 POP homologs, with only 638 annotated POPs. We observed wide distribution of POPs in all the analysed bacterial lineages. Phylogenetic analysis and co-clustering of POPs of different phyla suggested their common functions in all the prokaryotic species. Further, on the basis of unique sequence motifs we could classify bacterial POPs into eight subtypes. Analysis of coexisting domains in POPs highlighted their involvement in protein-protein interactions and cellular signaling. We proposed significant extension of this gene family by characterizing 39 new POPs and 158 new α/β hydrolase members. Our study reflects diversity and functional importance of POPs in bacterial species. Many genomes with multiple POPs were identified with high sequence variations and different cellular localizations. Such anomalous distribution of POP genes in different bacterial genomes shows differential expansion of POP gene family primarily by multiple horizontal gene transfer events. The online version of this article (doi:10.1186/1471-2164-15-985) contains supplementary material, which is available to authorized users.