植物法呢基焦磷酸合成酶的生物信息学分析

A Bioinformatics Analyses on Farnesyl Diphosphate Synthase

摘要:

采用生物信息学的方法和工具对已在GenBank上注册的番茄（Lycopersicon esculentum）、橡胶（Hevea brasiliensis）、香蕉（Musa acuminata）、苹果（Malus x domestica）、向日葵（Helianthus annuus）、葡萄（Vitis vinifera）等的法呢基焦磷酸合成酶的核苷酸及氨基酸序列进行分析，并对其组成成分、转运肽、跨膜拓朴结构域、疏水性/亲水性、蛋白质二级及三级结构、分子系统进化关系等进行预测和推断。结果表明：该酶基因的全长包括5’、3’非翻译区和一个开放阅读框；其编码的蛋白是一个无跨膜结构域、不具转运肽的亲水性蛋白，包括5个保守的结构motif，其中两个是富含天冬氨酸（Asp）的motif，α-螺旋和不规则盘绕是蛋白质二级结构最大量的结构元件，β-转角和延伸链散布于整个蛋白质中，蛋白质的功能域在空间布局上是由α-螺旋围绕形成的中间具一个“大空穴”的立体结构，“大空穴”的表面藏有五个功能保守motif，其中两个Asp-motif位于“空穴”的内壁。

Abstract:

The nucleic acid sequences and amino acid sequences of farnesyl diphosphate synthase (FPPS) from Lycopersicon esculentum, Hevea brasiliensis, Musa acuminata, Malus x domestica, Helianthus annuus and Vitis vinifera, which were registered in GenBank, were analyzed and predicted by the tools of bioinformatics in the following aspects: the composition of nucleic acid sequences and amino acid sequences, transit peptides, transmembrane topological structures, hydrophobicity or hydrophilicity, secondary and tertiary structure of protein, molecular phylogenetic evolution. The full-length gene of FPPS contains an opening reading frame, a 5’-untranslated region, and a 3’-untranslated region. FPPS is a hydrophilic and non-transmembrane protein without transit peptides at its N-terminal end. The amino acid sequences of FPPS include 5 conserved structural regions, out of which two are Asp-rich motifs. α-helix and random coil are the major motifs of predicted secondary structure of FPPS. β-turn and extended strands spread in the secondary structure of the protein. A large central cavity formed from the α-helices is present within the predicted tertiary structure of functional regions of FPPS. Five conserved amino acid sequences are on the surface of this cavity, two of which are conserved Asp-rich motifs on the inner walls of the cavity.