Bioinformatics analysis of the main characteristics and epitopes of the gene encoding glyceraldehyde-3-phosphate dehydrogenase from Babesia microti
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摘要: 目的分析田鼠巴贝虫3-磷酸甘油醛脱氢酶（BmGAPDH）的蛋白特性和抗原表位。方法运用ORF Finder、PROSITE、ProtParam、SignalP、TMHMM Server、SOUSI、MotifScan、Bcepred、HNN等生物信息学软件分析预测BmGAPDH基因的开放阅读框和编码蛋白的特征结构域、理化性质、信号肽、跨膜结构域、稳定性、可溶性、翻译后修饰位点、亲水性、柔韧性、表面可及性、二级结构等特性；同时结合DNAStar和SWISS-MODEL软件分别预测蛋白的抗原表位和三维空间结构。结果BmGAPDH由1 074个核苷酸编码的357个氨基酸组成，其特征结构域位于170-177位氨基酸残基。编码蛋白相对分子质量为3.833 309×104，分子式为C1700H2723N457O514S17，理论等电点为6.98，不存在信号肽，有1个跨膜区，23个翻译后修饰位点，6个亲水性参数得分≥1.9的区域，3个柔韧性参数得分≥2.0的区域，10个表面可及性参数得分≥1.9的区域，8个潜在的B细胞抗原表位，19个潜在的T细胞抗原表位，在溶液中性质稳定，且为疏水性蛋白。BmGAPDH蛋白和人类的GAPDH蛋白序列覆盖率为56%，相似性为70%。结论BmGAPDH含有多种抗原表位，且含量丰富，具有成为巴贝虫病疫苗候选抗原的潜在特性。
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关键词:
- 田鼠巴贝虫 /
- 3-磷酸甘油醛脱氢酶 /
- 生物信息学分析 /
- 蛋白特性 /
- 抗原表位
Abstract: ObjectiveTo analyze the main characteristics and epitopes of the gene encoding GAPDH protein from Babesia microti (BmGAPDH). MethodsThe open reading frame, physic-chemical properties, signal peptide, cross membrane area, solubility, post-translational modification site, hydrophilicity, surface accessibility, flexibility, secondary structure and antigenic epitope of BmGAPDH protein were analyzed and predicted using bioinformatics analysis programs including ORF Finder, PROSITE, ProtParam, SignalP, TMHMM Server, SOSUI, MotifScan, Bcepred, HNN as well as DNAStar Protean. In addition, three dimensional structure of the protein was predicted by DNAStar and SWISS-MODEL. ResultsBmGAPDH is consisted of 357 amino acids encoded by 1 074 nucleotides. Its signature motif is located at 170-177 amino acids. Its molecular mass is 3.833 309×104, with a molecular formula of C1700H2723N457O514S17, and a theoretical isoelectric point of 6.98. Furthermore, there are 6 zones with ≥ 1.9 hydrophilicity, 3 zones with ≥ 2.0 flexibility, and 10 zones with ≥ 1.9 surface accessibility in BmGAPDH. Moreover, There are 8 zones with potential B cell antigenic epitopes, 19 zones with potential T cell antigenic epitopes, and 23 post-translational modification sites. The sequences of BmGAPDH and homo sapiens GAPDH protein have a query cover of 56% and identity of 70%. ConclusionsBmGAPDH protein has multiple antigenic epitopes, which can be used as a potential vaccine candidate for babesiosis. -
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[1] Vannier E, Krause PJ. Human babesiosis [J]. N Engl J Med, 2012,366(25):2397-2407.
[2] Zhou X, Li SG, Chen SB,et al. Co-infections with Babesia microti and Plasmodium parasites along the China-Myanmar border [J]. Infect Dis Poverty, 2013,2(1):24.
[3] Shih CM, Liu LP, Chung WC,et al. Human babesiosis in Taiwan: asymptomatic infection with a Babesia microti-like organism in a Taiwanese woman [J]. J Clin Microbiol, 1997,35(2):450-454.
[4] 吴家俊,周金林.巴贝斯虫病研究进展[J].动物医学进展,2013,34(12):173-178. [5] Wormser GP, Prasad A, Neuhaus E,et al. Emergence of resistance to azithromycin-atovaquone in immunocompromised patients with Babesia microti infection [J]. Clin Infect Dis, 2010,50(3):381-386.
[6] 白海鹏,孙维敏,任仟,等.我国巴贝虫病研究进展[J].哈尔滨师范大学自然科学学报,2014,30(5):100-103. [7] 廖申权,戚南山,吴彩艳,等.顶复门原虫3-磷酸甘油醛脱氢酶功能及其应用研究进展[J]. 中国畜牧兽医,2012,39(1):71-74. [8] Zhang WM, Wang HF, Gao K, et al. Lactobacillus reuteri glyceraldehyde-3-phosphate dehydrogenase functions in adhesion to intestinal epithelial cells [J]. Can J Microbiol, 2015,61(5):373-380.
[9] Cornillot E, Hadj-Kaddour K, Dassouli A,et al. Sequencing of the smallest Apicomplexan genome from the human pathogen Babesia microti [J]. Nucleic Acids Res, 2012,40(18):9102-9114.
[10] Garg A, Stein A, Zhao W, et al. Sequence and annotation of the apicoplast genome of the human pathogen Babesia microti [J/OL]. PLoS One, 2014,9(10):e107939.
[11] Appella E, Johansson J. Special issue: Protein structure and proteomics: introduction [J]. FEBS J, 2011,278(20):3795.
[12] 胡笳,郭燕婷,李艳梅.蛋白质翻译后修饰研究进展[J].科学通报,2005,50(11):1061-1072. [13] 马凡舒,张蕾,王洋,等.B细胞抗原表位预测方法的研究进展[J].中国畜牧兽医,2016,43(1)：63-67. [14] 江涛,马立安,赵俊龙.弓形虫MIC3蛋白质的二级结构及B细胞抗原表位预测[J].长江大学学报(自科版)医学卷,2007,4(1):1-4. [15] 吕燕波,万瑛,吴玉章.SARS病毒基因组所编码的E蛋白的二级结构和B细胞表位预测[J].免疫学杂志,2003,19(6):407-410.
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