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真菌蛋白质组数据库:一个用于真菌蛋白质组分子量和等电点的数据库。

FungiProteomeDB: a database for the molecular weight and isoelectric points of the fungal proteomes.

机构信息

Department of Data Science, Faculty of Computing, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan.

Department of Computer Science, Faculty of Computing, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan.

出版信息

Database (Oxford). 2023 Mar 16;2023. doi: 10.1093/database/baad004.

Abstract

Proteins' molecular weight (MW) and isoelectric point (pI) are crucial for their subcellular localization and subsequent function. These are also useful in 2D gel electrophoresis, liquid chromatography-mass spectrometry and X-ray protein crystallography. Moreover, visualizations like a virtual 2D proteome map of pI vs. MW are worthwhile to discuss the proteome diversity among different species. Although the genome sequence data of the fungi kingdom improved enormously, the proteomic details have been poorly elaborated. Therefore, we have calculated the MW and pI of the fungi proteins and reported them in, FungiProteomeDB, an online database (DB) https://vision4research.com/fungidb/. We analyzed the proteome of 685 fungal species that contain 7 127 141 protein sequences. The DB provides an easy-to-use and efficient interface for various search options, summary statistics and virtual 2D proteome map visualizations. The MW and pI of a protein can be obtained by searching the name of a protein, a keyword or a list of accession numbers. It also allows querying protein sequences. The DB will be helpful in hypothesis formulation and in various biotechnological applications. Database URL https://vision4research.com/fungidb/.

摘要

蛋白质的分子量(MW)和等电点(pI)对于其亚细胞定位和随后的功能至关重要。它们在二维凝胶电泳、液相色谱-质谱和 X 射线蛋白质晶体学中也很有用。此外,像 pI 与 MW 的虚拟二维蛋白质组图谱等可视化方法值得讨论不同物种之间的蛋白质组多样性。尽管真菌王国的基因组序列数据有了巨大的提高,但蛋白质组学的细节却很少被详细阐述。因此,我们计算了真菌蛋白质的 MW 和 pI,并将其报告在在线数据库 FungiProteomeDB 中,网址为 https://vision4research.com/fungidb/。我们分析了包含 7127141 个蛋白质序列的 685 种真菌物种的蛋白质组。该数据库为各种搜索选项、汇总统计数据和虚拟二维蛋白质组图谱可视化提供了一个易于使用和高效的界面。通过搜索蛋白质名称、关键词或访问号列表,可以获得蛋白质的 MW 和 pI。它还允许查询蛋白质序列。该数据库将有助于假说的形成和各种生物技术应用。数据库网址:https://vision4research.com/fungidb/。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8b1f/10019025/edf10727e652/baad004f1.jpg

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