核梭杆菌未鉴定蛋白的功能注释:毒力因子的鉴定。

Q2 Agricultural and Biological Sciences Genomics and Informatics Pub Date : 2023-06-01 DOI:10.5808/gi.22065
Kanchan Rauthan, Saranya Joshi, Lokesh Kumar, Divya Goel, Sudhir Kumar
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引用次数: 0

摘要

核梭杆菌是一种革兰氏阴性菌,与阑尾炎和结直肠癌等多种感染有关。它主要攻击被感染者口腔和喉咙的上皮细胞。它有一个2.7 Mb的单圆形基因组。许多蛋白质在F. nucleatum基因组中被列为“未表征”。这些蛋白的注释对于获得关于病原体的新事实,破译基因调控、功能和途径以及发现新的靶蛋白至关重要。在新的基因组信息的基础上,利用生物信息学工具对未表征蛋白进行理化参数预测、结构域和基序搜索、模式搜索和定位。接收机工作特性等程序决定了数据库对不同参数的预测效率为83.6%。对酶、转运蛋白、膜蛋白、结合蛋白等46种未鉴定蛋白进行了功能鉴定。除了功能预测外,还对蛋白质进行了字符串分析,以揭示相互作用的伙伴。利用Swiss PDB和Phyre2服务器对标记蛋白进行同源性结构预测和建模。还确定了两种可能的毒性因素,可以进一步调查以进行潜在的药物相关研究。将功能分配给未表征的蛋白质表明,其中一些蛋白质对宿主内的细胞存活很重要,并且可以作为有效的药物靶点。
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Functional annotation of uncharacterized proteins from Fusobacterium nucleatum: identification of virulence factors.

Fusobacterium nucleatum is a gram-negative bacteria associated with diverse infections like appendicitis and colorectal cancer. It mainly attacks the epithelial cells in the oral cavity and throat of the infected individual. It has a single circular genome of 2.7 Mb. Many proteins in F. nucleatum genome are listed as "Uncharacterized." Annotation of these proteins is crucial for obtaining new facts about the pathogen and deciphering the gene regulation, functions, and pathways along with discovery of novel target proteins. In the light of new genomic information, an armoury of bioinformatic tools were used for predicting the physicochemical parameters, domain and motif search, pattern search, and localization of the uncharacterized proteins. The programs such as receiver operating characteristics determine the efficacy of the databases that have been employed for prediction of different parameters at 83.6%. Functions were successfully assigned to 46 uncharacterized proteins which included enzymes, transporter proteins, membrane proteins, binding proteins, etc. Apart from the function prediction, the proteins were also subjected to string analysis to reveal the interacting partners. The annotated proteins were also put through homology-based structure prediction and modeling using Swiss PDB and Phyre2 servers. Two probable virulent factors were also identified which could be investigated further for potential drug-related studies. The assigning of functions to uncharacterized proteins has shown that some of these proteins are important for cell survival inside the host and can act as effective drug targets.

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来源期刊
Genomics and Informatics
Genomics and Informatics Agricultural and Biological Sciences-Ecology, Evolution, Behavior and Systematics
CiteScore
1.90
自引率
0.00%
发文量
0
审稿时长
12 weeks
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