使用计算工具鉴定和分析古细菌和细菌基因组细胞表面蛋白中的新型串联重复序列。
Identification and analysis of novel tandem repeats in the cell surface proteins of archaeal and bacterial genomes using computational tools.
作者信息
Adindla S, Inampudi K K, Guruprasad K, Guruprasad L
机构信息
School of Chemistry, University of Hyderabad, Hyderabad 500 046, India.
出版信息
Comp Funct Genomics. 2004;5(1):2-16. doi: 10.1002/cfg.358.
Abstract
We have identified four novel repeats and two domains in cell surface proteins encoded by the Methanosarcina acetivorans genome and in some archaeal and bacterial genomes. The repeats correspond to a certain number of amino acid residues present in tandem in a protein sequence and each repeat is characterized by conserved sequence motifs. These correspond to: (a) a 42 amino acid (aa) residue RIVW repeat; (b) a 45 aa residue LGxL repeat; (c) a 42 aa residue LVIVD repeat; and (d) a 54 aa residue LGFP repeat. The domains correspond to a certain number of aa residues in a protein sequence that do not comprise internal repeats. These correspond to: (a) a 200 aa residue DNRLRE domain; and (b) a 70 aa residue PEGA domain. We discuss the occurrence of these repeats and domains in the different proteins and genomes analysed in this work.
摘要
我们在嗜乙酸甲烷八叠球菌基因组以及一些古菌和细菌基因组编码的细胞表面蛋白中鉴定出了四种新的重复序列和两个结构域。这些重复序列对应于蛋白质序列中串联存在的一定数量的氨基酸残基，并且每个重复序列都具有保守的序列基序。它们分别是：(a) 一个42个氨基酸（aa）残基的RIVW重复序列；(b) 一个45个aa残基的LGxL重复序列；(c) 一个42个aa残基的LVIVD重复序列；以及(d) 一个54个aa残基的LGFP重复序列。这些结构域对应于蛋白质序列中一定数量的不包含内部重复序列的aa残基。它们分别是：(a) 一个200个aa残基的DNRLRE结构域；以及(b) 一个70个aa残基的PEGA结构域。我们讨论了这些重复序列和结构域在本研究分析的不同蛋白质和基因组中的出现情况。
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