结核分枝杆菌CarD蛋白结构与功能的生物信息学分析

发布时间：2018-11-15 08:59

【摘要】：目的应用生物学信息分析软件预测结核分枝杆菌CarD蛋白的结构和功能。方法运用NCBI中Blast工具,将结核分枝杆菌H37Rv carD基因序列与GenBank中相似序列进行核苷酸比对;利用MEGA 6.06软件,采用邻位相连法构建N-J进化树;运用ClustalX 2.1软件,将结核分枝杆菌H37Rv CarD及与其同源性较高的分枝杆菌CarD氨基酸序列进行多重比对分析;登录ExPASy网站,运用ProtParam工具分析CarD蛋白的理化性质,运用ProtScale进行蛋白质疏水性分析,运用SignalP 4.1Server预测蛋白质信号肽,运用TMHMM Server v.2.0以及TMPred预测蛋白质跨膜螺旋区,运用SOPMA预测蛋白质二级结构,运用SWISS-MODEL进行蛋白质三级结构同源建模;运用NetPhos 3.1Server预测蛋白质磷酸化位点;运用NCBI中CDD工具预测CarD蛋白保守结构域。结果分枝杆菌carD基因序列相似度为100%,进化关系较近。H37Rv与田鼠分枝杆菌起源于同一物种,同源性较高。CarD分子在进化过程中高度保守,为稳定、亲水性蛋白,无跨膜区、无信号肽,蛋白序列中存在4个丝氨酸磷酸化位点,二级结构中以α-螺旋为主,三级结构同源建模成功。CarD蛋白是一种结合RNA聚合酶的转录调控因子,属于CarD/CdnL/TRCF家族。结论 CarD蛋白为RNA聚合酶结合蛋白,调控转录和控制结核分枝杆菌的生长。该蛋白序列保守稳定,是治疗结核病潜在的新靶标。
[Abstract]:Objective to predict the structure and function of Mycobacterium tuberculosis CarD protein by using biological information analysis software. Methods the sequence of H37Rv carD gene of Mycobacterium tuberculosis was compared with the similar sequence of GenBank by Blast tool in NCBI, and the N-J evolutionary tree was constructed by using MEGA 6.06 software. The amino acid sequences of Mycobacterium tuberculosis (H37Rv CarD) and Mycobacterium tuberculosis (CarD) with high homology were analyzed by ClustalX 2.1 software. Go to ExPASy website, use ProtParam tools to analyze the physical and chemical properties of CarD protein, use ProtScale to analyze protein hydrophobicity, use SignalP 4.1Server to predict protein signal peptide, use TMHMM Server v. 2.0 and TMPred to predict protein transmembrane helical region. SOPMA was used to predict protein secondary structure and SWISS-MODEL was used to model protein tertiary structure homology. Protein phosphorylation sites were predicted by NetPhos 3.1Server and conserved domains of CarD proteins were predicted by CDD tools in NCBI. Results the similarity of carD gene sequence of Mycobacterium was 100, and the evolutionary relationship was close. H37Rv and Mycobacterium vole originated from the same species and had high homology. The CarD molecule was highly conserved, stable, hydrophilic protein and no transmembrane region. There are four serine phosphorylation sites in the protein sequence without signal peptide. The secondary structure is 伪 -helix, and the tertiary structure homologous modeling is successful. CarD protein is a transcription regulator binding to RNA polymerase and belongs to the CarD/CdnL/TRCF family. Conclusion CarD protein is a RNA polymerase binding protein that regulates transcription and controls the growth of Mycobacterium tuberculosis. This protein sequence is conservative and stable, and it is a potential new target for tuberculosis treatment.
【作者单位】：潍坊医学院医学检验学系;潍坊医学院临床医学院病原生物学教研室;
【基金】：国家自然科学基金项目(No.30972639) 山东省自然科学基金项目(No.ZR2016HM09)
【分类号】：R378.911

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