細(xì)粒棘球絳蟲(chóng)延伸因子1生物信息學(xué)分析
發(fā)布時(shí)間：2018-07-29 12:01
【摘要】：目的利用生物信息學(xué)技術(shù)對(duì)細(xì)粒棘球絳蟲(chóng)的延伸因子1(EF-1)進(jìn)行分析,探討其診斷價(jià)值。方法通過(guò)Expasy系統(tǒng)預(yù)測(cè)EF-1的理化性質(zhì),使用DNAStar軟件分析蛋白親水性、柔性區(qū)域、抗原指數(shù)及表面可及性,利用ABCpred與IEDB軟件綜合預(yù)測(cè)B細(xì)胞線性抗原表位,通過(guò)DNAStar軟件預(yù)測(cè)T細(xì)胞表位,使用SOPMA軟件預(yù)測(cè)二級(jí)結(jié)構(gòu),SWISS-MODEL網(wǎng)站構(gòu)建EF-1的三級(jí)結(jié)構(gòu),使用MEGA軟件選擇neighbor joining法構(gòu)建EF-1氨基酸序列的系統(tǒng)發(fā)育樹(shù)。結(jié)果 EF-1基因序列全長(zhǎng)1 412 bp,含有2個(gè)內(nèi)含子;EF-1親水性得分較高的區(qū)域?yàn)?5~45、52~70、126~140、158~183、301~322、357~380、424~448;柔性區(qū)域?yàn)?6~45、54~71、162~176、300~318、357~381、432~448;抗原性指數(shù)得分較高的區(qū)域分布與柔性區(qū)域一致;表面可及性得分較高的區(qū)域較少,主要分布在39~54、62~76、128~132、161~170、220~234、315~329、354~372、424~448;可能的B細(xì)胞線性表位的氨基酸序列為120~130、286~295、306~320、365~378;可能的優(yōu)勢(shì)性T細(xì)胞表位區(qū)域?yàn)?4~48、164~177、222~244、280~290、321~330、396~407;EF-1的二級(jí)結(jié)構(gòu)中α螺旋占32.81%、β折疊占22.54%、β轉(zhuǎn)角占10.94%、無(wú)規(guī)則卷曲占33.71%;系統(tǒng)發(fā)育樹(shù)結(jié)果表明多房棘球絳蟲(chóng)為一枝,其余聚于一枝,且內(nèi)部形成許多梳齒狀分枝。結(jié)論得到4個(gè)可能形成B細(xì)胞表位的區(qū)域、6個(gè)優(yōu)勢(shì)性T細(xì)胞表位區(qū)域,EF-1具有較高的保守性,可作為免疫診斷和藥物治療靶點(diǎn)。
[Abstract]:Objective to study the diagnostic value of Echinococcus granulosus extension factor 1 (EF-1) by bioinformatics. Methods the physicochemical properties of EF-1 were predicted by Expasy system. The hydrophilicity, flexibility, antigen index and surface accessibility of protein were analyzed by DNAStar software. The linear antigen epitopes of B cells were predicted by ABCpred and IEDB software. DNAStar software was used to predict T cell epitopes, SOPMA software was used to predict secondary structure and SWISS-MODEL website was used to construct the tertiary structure of EF-1. The phylogenetic tree of EF-1 amino acid sequence was constructed by MEGA software neighbor joining method. Results the total length of EF-1 gene sequence was 1 412 BP, and the high hydrophilicity score of EF-1 containing two introns was 35455 / 5270126 / 1401586 / 143301/ 32235757380424/ 448, and the flexible region was 26455/ 555 / 5471162176300318357357381432 / 448 / 448 respectively. The area with higher score of antigenicity index was the same as that of flexible region, and the area with higher surface accessibility score was less. The main amino acid sequence of the possible linear epitope of B cell is 120,130286295306,3203130286295306,320365378; the potential dominant T cell epitope region is 3444816164177222222228240290321330396F-1 in which 偽 helix is 32.811e, 尾 folding is 22.54g, 尾 rotation is 10.9410.910.910.910.71H; the phylogenetic tree has a secondary structure of 32.811e, 尾 folding is 22.54g, 尾 turn is 10.9410.910.910.910.910.910.91.The phylogenetic tree has a secondary structure of "偽 helix" (32.811g), 尾 folding (22.54g), 尾 turning angle (10.9410.94) and irregular curling (33.71a); and phylogenetic tree development tree (phylogenetic tree). The results showed that Echinococcus multilocularis was one branch. The rest gather in one branch and form many comb-like branches inside. Conclusion there are 4 B cell epitopes and 6 dominant T cell epitopes, which are highly conserved and can be used as targets for immunological diagnosis and drug therapy.
【作者單位】： 青海大學(xué)醫(yī)學(xué)院病原生物學(xué)教研室;青海大學(xué)包蟲(chóng)病重點(diǎn)實(shí)驗(yàn)室;
【基金】：國(guó)家自然科學(xué)基金(81360255)
【分類(lèi)號(hào)】：R383.33
[Abstract]:Objective to study the diagnostic value of Echinococcus granulosus extension factor 1 (EF-1) by bioinformatics. Methods the physicochemical properties of EF-1 were predicted by Expasy system. The hydrophilicity, flexibility, antigen index and surface accessibility of protein were analyzed by DNAStar software. The linear antigen epitopes of B cells were predicted by ABCpred and IEDB software. DNAStar software was used to predict T cell epitopes, SOPMA software was used to predict secondary structure and SWISS-MODEL website was used to construct the tertiary structure of EF-1. The phylogenetic tree of EF-1 amino acid sequence was constructed by MEGA software neighbor joining method. Results the total length of EF-1 gene sequence was 1 412 BP, and the high hydrophilicity score of EF-1 containing two introns was 35455 / 5270126 / 1401586 / 143301/ 32235757380424/ 448, and the flexible region was 26455/ 555 / 5471162176300318357357381432 / 448 / 448 respectively. The area with higher score of antigenicity index was the same as that of flexible region, and the area with higher surface accessibility score was less. The main amino acid sequence of the possible linear epitope of B cell is 120,130286295306,3203130286295306,320365378; the potential dominant T cell epitope region is 3444816164177222222228240290321330396F-1 in which 偽 helix is 32.811e, 尾 folding is 22.54g, 尾 rotation is 10.9410.910.910.910.71H; the phylogenetic tree has a secondary structure of 32.811e, 尾 folding is 22.54g, 尾 turn is 10.9410.910.910.910.910.910.91.The phylogenetic tree has a secondary structure of "偽 helix" (32.811g), 尾 folding (22.54g), 尾 turning angle (10.9410.94) and irregular curling (33.71a); and phylogenetic tree development tree (phylogenetic tree). The results showed that Echinococcus multilocularis was one branch. The rest gather in one branch and form many comb-like branches inside. Conclusion there are 4 B cell epitopes and 6 dominant T cell epitopes, which are highly conserved and can be used as targets for immunological diagnosis and drug therapy.
【作者單位】： 青海大學(xué)醫(yī)學(xué)院病原生物學(xué)教研室;青海大學(xué)包蟲(chóng)病重點(diǎn)實(shí)驗(yàn)室;
【基金】：國(guó)家自然科學(xué)基金(81360255)
【分類(lèi)號(hào)】：R383.33
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