“Plasmo2D”：一种辅助蛋白质组学工具，用于协助鉴定恶性疟原虫中的蛋白质。

"Plasmo2D": an ancillary proteomic tool to aid identification of proteins from Plasmodium falciparum.

作者信息

Khachane Amit, Kumar Ranjit, Jain Sanyam, Jain Samta, Banumathy Gowrishankar, Singh Varsha, Nagpal Saurabh, Tatu Utpal

机构信息

Department of Biochemistry, Indian Institute of Science, Bangalore 560012, India.

出版信息

J Proteome Res. 2005 Nov-Dec;4(6):2369-74. doi: 10.1021/pr050289p.

DOI:10.1021/pr050289p

PMID:16335988

Abstract

Bioinformatics tools to aid gene and protein sequence analysis have become an integral part of biology in the post-genomic era. Release of the Plasmodium falciparum genome sequence has allowed biologists to define the gene and the predicted protein content as well as their sequences in the parasite. Using pI and molecular weight as characteristics unique to each protein, we have developed a bioinformatics tool to aid identification of proteins from Plasmodium falciparum. The tool makes use of a Virtual 2-DE generated by plotting all of the proteins from the Plasmodium database on a pI versus molecular weight scale. Proteins are identified by comparing the position of migration of desired protein spots from an experimental 2-DE and that on a virtual 2-DE. The procedure has been automated in the form of user-friendly software called "Plasmo2D". The tool can be downloaded from http://144.16.89.25/Plasmo2D.zip.

摘要

在后基因组时代，辅助基因和蛋白质序列分析的生物信息学工具已成为生物学不可或缺的一部分。恶性疟原虫基因组序列的发布使生物学家能够确定该寄生虫中的基因、预测的蛋白质含量及其序列。利用每种蛋白质特有的等电点（pI）和分子量作为特征，我们开发了一种生物信息学工具，以辅助鉴定恶性疟原虫中的蛋白质。该工具利用通过将疟原虫数据库中的所有蛋白质绘制在pI与分子量的尺度上生成的虚拟二维电泳（2-DE）。通过比较实验二维电泳中所需蛋白质斑点的迁移位置与虚拟二维电泳上的迁移位置来鉴定蛋白质。该程序已以名为“Plasmo2D”的用户友好软件的形式实现自动化。该工具可从http://144.16.89.25/Plasmo2D.zip下载。