Srinivas Vanishree, Gopal Shubha
Department of Studies in Microbiology, University of Mysore, Manasagangotri, Mysore 570006, Karnataka, India.
J Integr Bioinform. 2014 Sep 17;11(1):245. doi: 10.2390/biecoll-jib-2014-245.
There are a number of databases on the Listeria species and about their genome. However, these databases do not specifically address a set of network that is important in defence mechanism of the bacteria. Listeria monocytogenes EGDe is a well-established intracellular model organism to study host pathogenicity because of its versatility in the host environment. Here, we have focused on thiol disulphide redox metabolic network proteins, specifically in L. monocytogenes EGDe. The thiol redox metabolism is involved in oxidative stress mechanism and is found in all living cells. It functions to maintain the thiol disulphide balance required for protein folding by providing reducing power. Nevertheless, they are involved in the reversible oxidation of thiol groups in biomolecules by creating disulphide bonds; therefore, the term thiol disulphide redox metabolism (TDRM). TDRM network genes play an important role in oxidative stress mechanism and during host–pathogen interaction. Therefore, it is essential to have detailed information on these proteins with regard to other bacteria and its genome analysis to understand the presence of tRNA, transposons, and insertion elements for horizontal gene transfer. LmTDRM database is a new comprehensive web-based database on thiol proteins and their functions. It includes: Description, Search, TDRM analysis, and genome viewer. The quality of these data has been evaluated before they were aggregated to produce a final representation. The web interface allows for various queries to understand the protein function and their annotation with respect to their relationship with other bacteria. LmTDRM is a major step towards the development of databases on thiol disulphide redox proteins; it would definitely help researchers to understand the mechanism of these proteins and their interaction. Database URL: www.lmtdrm.com.
有许多关于李斯特菌属及其基因组的数据库。然而，这些数据库并未专门针对在细菌防御机制中重要的一组网络。由于单核细胞增生李斯特菌EGDe在宿主环境中的多样性，它是研究宿主致病性的一种成熟的细胞内模式生物。在这里，我们专注于硫醇二硫键氧化还原代谢网络蛋白，特别是在单核细胞增生李斯特菌EGDe中。硫醇氧化还原代谢参与氧化应激机制，存在于所有活细胞中。它通过提供还原力来维持蛋白质折叠所需的硫醇二硫键平衡。然而，它们通过形成二硫键参与生物分子中硫醇基团的可逆氧化；因此，术语为硫醇二硫键氧化还原代谢（TDRM）。TDRM网络基因在氧化应激机制以及宿主与病原体相互作用过程中发挥重要作用。因此，对于其他细菌及其基因组分析而言，掌握这些蛋白质的详细信息以了解tRNA、转座子和水平基因转移的插入元件的存在情况至关重要。LmTDRM数据库是一个基于网络的关于硫醇蛋白及其功能的全新综合数据库。它包括：描述、搜索、TDRM分析和基因组查看器。在汇总这些数据以生成最终呈现之前，已对其质量进行了评估。该网络界面允许进行各种查询，以了解蛋白质功能及其与其他细菌关系的注释。LmTDRM是朝着硫醇二硫键氧化还原蛋白数据库发展迈出的重要一步；它肯定会帮助研究人员了解这些蛋白质的机制及其相互作用。数据库网址：www.lmtdrm.com。
