| 引用本文: | 谢勇,洪晓昆,鄢仁祥,林娟.重组琼胶酶rAgaN3基因的生物信息学分析[J].生物信息学,2017,15(1):16-26. |
| XIE Yong,HONG Xiaokun,YAN Renxiang,LIN Juan.Bioinformatics analysis of the recombinant rAgaN3gene of agarase[J].Chinese Journal of Bioinformatics,2017,15(1):16-26. |
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| 摘要: |
| 利用生物信息学软件和数据库对从Microbulbifersp. BN中得到的琼胶酶rAgaN3全长基因进行预测分析,结果表明:重组琼胶酶 rAgaN3理论分子量为31.243 kDa,理论等电为4.81,不稳定系数为26.23,脂肪系数为62.35,平均疏水性系数为-0.662,无跨膜结构域,无信号肽；二级结构表明该蛋白无螺旋结构,有15个折叠结构,其余均为卷曲结构；序列相似性分析表明,蛋白rAgaN3属于糖苷水解酶GH16家族,为β-琼胶酶；以同源蛋白3wz1A(同源性88%)为模板,通过同源建模构建出了蛋白三级结构,并用拉式图进行了结构检验。琼胶酶rAgaN3基因的生物信息学分析,为琼胶酶的异源表达提供了指导,为琼胶酶的定点突变、深入研究其结构和功能的关系打下良好基础。 |
| 关键词: 琼胶酶 基因分析 生物信息学 蛋白结构 |
| DOI：10.3969/j.issn.1672-5565.2017.01.201608003 |
| 分类号:Q55 |
| 文献标识码:A |
| 基金项目:福建省企业技术创新项目(闽经信投资[2015]205号)；福州市科技计划项目(No.2016-G-42)。 |
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| Bioinformatics analysis of the recombinant rAgaN3gene of agarase |
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XIE Yong,HONG Xiaokun,YAN Renxiang,LIN Juan
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(Fujian Provincial Key Laboratory of Marine Enzyme Engineering(Fuzhou University), Fuzhou 350116,China)
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| Abstract: |
| In this paper, the agarase enzyme gene named rAgaN3is analyzed which is cloned from Microbulbifer sp. BN via various bioinformatics methods. The results show that the calculated molecular mass of reorganization of agarose rAgaN3is 31.243 kDa, the theoretical isoelectric point is 4.1,6.23 of the nstability coefficient, 62.35 of the fat index, and minus 0.662 of the average hydrophobic coefficient, and there is no transmembrane domain and no signal peptide. By analyzing the secondary structure of protein, we can find there are 15 β-sheet structures, other coiled structures, and no helical structure. According to the analysis of sequence similarities, we can know rAgaN3 is a β-agarase, belongs to glycoside hydrolase GH16 family. It is templated by a homologous protein 3wz1A (88 homology), sets up tertiary structure of protein by creating homology modeling and tests its structure by Ramachandran Plot and PROSA. The bioinformatics analysis of rAgaN3gene of Agarase can provide a guidance to heterologous expression of agarase and lay good foundations for the site-directed mutagenesis of agarase and comprehensive study on the relationship between structure and function. |
| Key words: Agarase Gene analysis Bioinformatics Protein structure |
