山羊TRPM1基因CDS区生物信息学分析

Bioinformatics Analysis of CDS of TRPM1 Gene in Capra hircus

基于Gen Bank数据库中山羊TRPM1基因CDS区序列,使用Singnal P、TMHMM、Predict Protein、SWISS-MODEL、Prot Fun、PSORT等在线程序和DNAStar Lascrgene软件包预测TRPM1基因编码蛋白的结构和功能等,通过Clustal W进行序列比对,利用PHYML的最大似然法构建系统发育树,为该基因功能研究提供理论依据。结果表明,山羊TRPM1基因CDS区共编码1 634个氨基酸,无信号肽,含有6个跨膜区和较多的亲水区、柔韧区,抗原指数较高的区域与亲水区域的分布较为一致。二级结构以α螺旋和无规卷曲为主,大部分的氨基酸位点较为保守,可变区主要分布在近羧基端区。TRPM1蛋白主要在质膜中发挥运输和结合的作用,同时还作为运载体在细胞内发挥其生物学作用。系统进化情况和动物分类学基本一致,山羊和绵羊的亲缘关系最近。

The software of Singnal P,TMHMM,Predict Protein,SWISS-MODEL,Prot Fun,PSORT and DNAStar Lascrgene were used to predict the structure and function of TRPM1 gene coding protein. The phylogenetic tree of TRPM1 gene from different species was constructed by the method of maximum likelihood PHYML after multiple sequence alignment by Clustal W,which provided theoretical basis for function research of TRPM1 gene. The results showed that the CDS of goat TRPM1 gene coding 1 634 amino acids,no signal peptide,contained 6 transmembrane,more hydrophilicity plot,and flexible regions.The higher regional distribution of antigentic index was more uniform with hydrophilicity plot. The secondary structure was mainly composed of alpha helix and random coil,most of the amino acid sites were relatively conservative,variable area were mainly distributed in near the carboxyl end zone. This gene played an important role in the transport and binding,and exerted its biological function as the transporter in cell. Phylogenetic tree was consistent with taxonomic category of species,and the relationship between goats and sheep was the closest.