结核分枝杆菌PE＿PGRS47蛋白的生物信息学分析
|
摘要
目的获取结核分枝杆菌(H37Rv)的pe_pgrs47基因序列以及编码蛋白PE_PGRS47的氨基酸序列,对PE_PGRS47蛋白结构以及抗原表位进行预测。方法采用ORF Finger工具对pe_pgrs47基因的开放阅读框进行分析;利用Expasy PortParam,SignalP 4.0Server,SOPMA以及SWISS-MODEL等软件和工具分析PE_PGRS47蛋白的生物信息学特征。结果结核分枝杆菌(H37Rv)的pe_pgrs47基因GC含量较高,为74.8%,预测其有5个开放阅读框;PE_PGRS47蛋白由525个氨基酸构成,pl为4.40,属于稳定、疏水性蛋白,含有两个丝氨酸磷酸化位点;二级结构中无规则卷曲结构所占比例较高,为51.05%,预测含有一个结构域,19个B细胞抗原表位,11个限制性CTL表位和16个辅助性T细胞表位。结论 PE_PGRS47蛋白含有一个保守的结构域,其结构域可能与其抑制细胞自噬的功能密切相关,预测其含有丰富的T、B细胞抗原表位,为研究PE_PGRS47蛋白的功能奠定了基础。
Objective To obtain the sequence of the pe_pgrs47 gene of Mycobacterium tuberculosis and the amino acid sequence of the PE_PGRS47 protein,to analyze the basic features of the pe_pgrs47 gene from M.tuberculosis,and to predict and analyze the structure and epitopes of the PE_PGRS47 protein encoded by the pe_pgrs47 gene. Methods ORF Finger was used to analyze the open reading frame of the pe_pgrs47 gene.The biological features of the PE_PGRS47 protein were predicted and analyzed and using online software such as Expasy PortParam,SignalP 4.0 Server,TMHMM Server v.2.0,SOPMA,BLAST,SWISS-MODEL,ABCpred,SYFPEITHI,and NetMHCIIpan 3.1 Server.Results The pe_pgrs47 gene of M.tuberculosis was 1,578 bp in length and has 5 open reading frames.The longest one is read through and encoded 525 amino acids.The GC content of pe_pgrs47 in M.tuberculosis was 74.8%,which is consistent with the high GC content of M.tuberculosis.The PE_PGRS47 protein consisted of 525 amino acids.Its molecular formula was C1866 H2865 N587 O662 S3.The isoelectric point(PI)of the PE_PGRS47 protein was 4.40,so it is a stable and hydrophobic protein.PE_PGRS47 is predicted to contain two serine phosphorylation sites.Its secondary structure mostly consists of random coils,which account for about 51.05% of the structure.The predicted PE_PGRS47 protein has 19 B-cell epitopes,11 CTL epitopes,and 16 T-cell epitopes. Conclusion The PE_PGRS47 protein of M.tuberculosis has an abundance of T-and B-cell epitopes,it has a conserved structure,and that structure is predicted to be closely related to its function.
Objective To obtain the sequence of the pe_pgrs47 gene of Mycobacterium tuberculosis and the amino acid sequence of the PE_PGRS47 protein,to analyze the basic features of the pe_pgrs47 gene from M.tuberculosis,and to predict and analyze the structure and epitopes of the PE_PGRS47 protein encoded by the pe_pgrs47 gene. Methods ORF Finger was used to analyze the open reading frame of the pe_pgrs47 gene.The biological features of the PE_PGRS47 protein were predicted and analyzed and using online software such as Expasy PortParam,SignalP 4.0 Server,TMHMM Server v.2.0,SOPMA,BLAST,SWISS-MODEL,ABCpred,SYFPEITHI,and NetMHCIIpan 3.1 Server.Results The pe_pgrs47 gene of M.tuberculosis was 1,578 bp in length and has 5 open reading frames.The longest one is read through and encoded 525 amino acids.The GC content of pe_pgrs47 in M.tuberculosis was 74.8%,which is consistent with the high GC content of M.tuberculosis.The PE_PGRS47 protein consisted of 525 amino acids.Its molecular formula was C1866 H2865 N587 O662 S3.The isoelectric point(PI)of the PE_PGRS47 protein was 4.40,so it is a stable and hydrophobic protein.PE_PGRS47 is predicted to contain two serine phosphorylation sites.Its secondary structure mostly consists of random coils,which account for about 51.05% of the structure.The predicted PE_PGRS47 protein has 19 B-cell epitopes,11 CTL epitopes,and 16 T-cell epitopes. Conclusion The PE_PGRS47 protein of M.tuberculosis has an abundance of T-and B-cell epitopes,it has a conserved structure,and that structure is predicted to be closely related to its function.
引文
[1] WHO.Global tuberculosis control report[R].Geneva:WorldHealth Organization,2017.
[2] Barczak AK,Avraham R,Singh S,et al.Systematic,multipara-metric analysis of Mycobacterium tuberculosis intracellular infec-tion offers insight into coordinated virulence[J].PLoS Pathog,2017,13(5):e1006363.
[3] Lang R.Recognition of the mycobacterial cord factor by Mincle:relevance for granuloma formation and resistance to tuberculosis[J].Front Immunol,2013(4):5.
[4] Chen S,Yuan J,Yao S,et al.Lipopolysaccharides may aggra-vate apoptosis through accumulation of autophagosomes in alveo-lar macrophages of human silicosis[J].Autophagy,2015,11(12):2346-57.
[5] Campbell GR,Spector SA.Vitamin D inhibits human immunode-ficiency virustype 1and Mycobacterium tuberculosis infection inmacrophages through the induction of autophagy[J].PLoSPathog,2012,8(5):e1002689.
[6] Sun W,Zheng Y,Lu Z,et al.LL-37attenuates inflammatoryimpairment via mTOR signaling-dependent mitochondria protec-tion[J].Int J Biochem Cell Bio1,2014,54:26-35.
[7] Iantomasi R,Sali M,Cascioferro A,et al.PE_PGRS30is re-quired for the full virulence of Mycobacterium tuberculosis[J].Cell Microbiol,2012,14(3):356-67.
[8] Garrett CK,Broadwell LJ,Hayne CK,et al.Modulation of theactivity of Mycobacterium tuberculosis LipY by its PE domain[J].PLoS One,2015,10(8):e0135447.
[9] Saini NK,Baena A,Ng TW,et al.Suppression of autophagy andantigen presentation by Mycobacterium tuberculosis PE-PGRS47[J].Nat Microbiol,2016,1(9):16133.
[10] Copin R,CoscolláM,Seiffert SN,et al.Sequence diversity inthe pe_pgrs genes of Mycobacterium tuberculosis is independentof human T cell recognition[J].MBio,2014,5(1):e00960-13.
[11] 董娜,付玉荣,伊正君.结核分枝杆菌TrpD蛋白的生物信息学分析[J].中国病原生物学杂志,2016,11(12):1082-5.
[12] 宋通,付玉荣,伊正君.结核分枝杆菌调节蛋白RelA结构和功能的生物信息学分析[J].中国病原生物学杂志,2017,12(5):402-6.
[2] Barczak AK,Avraham R,Singh S,et al.Systematic,multipara-metric analysis of Mycobacterium tuberculosis intracellular infec-tion offers insight into coordinated virulence[J].PLoS Pathog,2017,13(5):e1006363.
[3] Lang R.Recognition of the mycobacterial cord factor by Mincle:relevance for granuloma formation and resistance to tuberculosis[J].Front Immunol,2013(4):5.
[4] Chen S,Yuan J,Yao S,et al.Lipopolysaccharides may aggra-vate apoptosis through accumulation of autophagosomes in alveo-lar macrophages of human silicosis[J].Autophagy,2015,11(12):2346-57.
[5] Campbell GR,Spector SA.Vitamin D inhibits human immunode-ficiency virustype 1and Mycobacterium tuberculosis infection inmacrophages through the induction of autophagy[J].PLoSPathog,2012,8(5):e1002689.
[6] Sun W,Zheng Y,Lu Z,et al.LL-37attenuates inflammatoryimpairment via mTOR signaling-dependent mitochondria protec-tion[J].Int J Biochem Cell Bio1,2014,54:26-35.
[7] Iantomasi R,Sali M,Cascioferro A,et al.PE_PGRS30is re-quired for the full virulence of Mycobacterium tuberculosis[J].Cell Microbiol,2012,14(3):356-67.
[8] Garrett CK,Broadwell LJ,Hayne CK,et al.Modulation of theactivity of Mycobacterium tuberculosis LipY by its PE domain[J].PLoS One,2015,10(8):e0135447.
[9] Saini NK,Baena A,Ng TW,et al.Suppression of autophagy andantigen presentation by Mycobacterium tuberculosis PE-PGRS47[J].Nat Microbiol,2016,1(9):16133.
[10] Copin R,CoscolláM,Seiffert SN,et al.Sequence diversity inthe pe_pgrs genes of Mycobacterium tuberculosis is independentof human T cell recognition[J].MBio,2014,5(1):e00960-13.
[11] 董娜,付玉荣,伊正君.结核分枝杆菌TrpD蛋白的生物信息学分析[J].中国病原生物学杂志,2016,11(12):1082-5.
[12] 宋通,付玉荣,伊正君.结核分枝杆菌调节蛋白RelA结构和功能的生物信息学分析[J].中国病原生物学杂志,2017,12(5):402-6.