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目的利用生物信息学方法对食管癌易感新基因C20orf54进行特征分析和功能预测,以获得该基因及其编码蛋白更多的功能提示。方法应用Blat、Blast、ProtParam、SOPMA、ScanProsite、SignalP4.1、TMHMM、PSORT和UniGene等软件或数据库,进行染色体定位、序列的相似性比较、理化性质、二级结构、亚细胞定位、功能位点识别。采用逆转录-聚合酶链反应(RTPCR),验证C20orf54基因在食管癌细胞和鼻咽癌细胞中的表达情况。结果 C20orf54基因进化保守,蛋白质不稳定,具有疏水性,定位于细胞膜的可能性最高,序列中预测有蛋白激酶C、酪蛋白激酶Ⅱ磷酸化位点和N-糖基化位点及N-豆蔻酰化位点。二级结构主要是α螺旋和无规则卷曲。C20orf54基因可在食管癌细胞和鼻咽癌细胞中表达。结论人类C20orf54蛋白是定位于细胞膜上的不稳定疏水蛋白,可能在体内参与多种生物学过程,但可能并不是在食管癌组织特异表达的分子标志。
OBJECTIVE: To characterize and predict the function of esophageal cancer-susceptible new gene C20orf54 by using bioinformatics methods to gain more functional indications of the gene and its encoded protein. Methods The softwares such as Blat, Blast, ProtParam, SOPMA, ScanProsite, SignalP4.1, TMHMM, PSORT and UniGene were used to perform chromosome mapping, sequence similarity analysis, physicochemical properties, secondary structure, subcellular localization, Recognize. Reverse transcription - polymerase chain reaction (RTPCR) was used to verify the expression of C20orf54 gene in esophageal cancer cells and nasopharyngeal carcinoma cells. Results C20orf54 gene was evolutionarily conserved, protein was unstable, hydrophobic and had the highest possibility of localization in the cell membrane. Protein kinase C, casein kinase Ⅱ phosphorylation site, N-glycosylation site and N-cardamine were predicted Acylation sites. The secondary structure is mainly α-helix and random curl. The C20orf54 gene is expressed in esophageal and nasopharyngeal carcinoma cells. Conclusion Human C20orf54 protein is an unstable hydrophobin located on the cell membrane and may participate in many biological processes in vivo, but it may not be a molecular marker that is specifically expressed in esophageal cancer tissues.