十字花科黑腐病菌中GGDEF结构域蛋白差异的insilico分析

in silico Analyses of GGDEF Domain Proteins Functioning Differently in Xanthomonas campestris

近年来,含有GGDEF结构域(含有甘氨酸(G)(2个),天冬氨酸(D),谷氨酸(E),苯丙氨酸(F)保守氨基酸)的蛋白受到重视,已证实含GGDEF结构域蛋白在细胞信号转导、生长和致病性等方面发挥了重要作用。十字花科黑腐菌8004菌株(Xanthomonas campestrispv.campestris str.8004,Xcc 8004)有32个基因编码含GGDEF结构域蛋白,实验证明其中部分蛋白与Xcc致病性、胞外酶产生、生物膜形成和泳动等生命活动相关。本文利用互联网提供的生物信息学资源,对Xcc8004不同功能含GGDEF结构域蛋白进行生物信息学分析,着重分析其结构域架构。对蛋白结构域架构整体比较显示,这些蛋白的整体结构域架构具有多样性,共有结构域架构仅有PAS_4-GGDEF-EAL(分布于参与致病的蛋白中);对结构域架构局部比较显示,在参与致病性的含GGDEF结构域蛋白中,PAS_4-GGDEF和GGDEF-EAL为共有结构域架构;在参与内切葡聚糖酶产生的蛋白中,PAS_4-PAS_4、PAS_4-GGDEF和GGDEF-EAL为共有结构域架构。本研究结果将为蛋白质功能预测提供线索。

It has been reported that GGDEF domain proteins （containing five conserve amino acid residues including two glycines （G） and a aspartic acid （D）, glutamic acid （E）, phenylalanine （F）） play key roles in essential cell process including signal transduction, growth and virulence. There were 32 GGDEF domain proteins predicted in Xanthomonas campestris pv. campestris str. 8004 （Xcc 8004）, and several of them were involved in different cell processes including virulence, extracellular enzyme production, biofilm formation and motility according to experimental evidence. In this work, we analyzed GGDEF domain proteins functioning differently in Xcc using bioinformatics web services, focusing on their domain architectures. The results revealed the proteins were almost different in their global domain architecture except PAS_4-GGDEF-EAL in the proteins associated with virulence. According to local comparison of protein structures, common domains architectures were found including PAS 4-GGDEF, GGDEF-EAL in the proteins involved in virulence and PAS_4-PAS_4, PAS_4-GGDEF, GGDEF-EAL in the proteins involved in endoglucanase production of Xcc, respectively. This work will provide clues to infer the functions of proteins with GGDEF domain.