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植物 MWpIDB:植物蛋白质组分子量和等电点的数据库。

PlantMWpIDB: a database for the molecular weight and isoelectric points of the plant proteomes.

机构信息

Natural and Medical Sciences Research Center, University of Nizwa, Nizwa, 616, Oman.

Department of Computer Science and IT, The Islamia University of Bahawalpur, Bahawalpur, Pakistan.

出版信息

Sci Rep. 2022 May 6;12(1):7421. doi: 10.1038/s41598-022-11077-z.

DOI:10.1038/s41598-022-11077-z
PMID:35523906
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9076895/
Abstract

The molecular weight and isoelectric point of the proteins are very important parameters that control their subcellular localization and subsequent function. Although the genome sequence data of the plant kingdom improved enormously, the proteomic details have been poorly elaborated. Therefore, we have calculated the molecular weight and isoelectric point of the plant proteins and reported them in this database. A database, PlantMWpIDB, containing protein data from 342 plant proteomes was created to provide information on plant proteomes for hypothesis formulation in basic research and for biotechnological applications. The Molecular weight and isoelectric point (pI) are important molecular parameters of proteins that are useful when conducting protein studies involving 2D gel electrophoresis, liquid chromatography-mass spectrometry, and X-ray protein crystallography. PlantMWpIDB provides an easy-to-use and efficient interface for search options and generates a summary of basic protein parameters. The database represents a virtual 2D proteome map of plants, and the molecular weight and pI of a protein can be obtained by searching on the name of a protein, a keyword, or by a list of accession numbers. The PlantMWpIDB database also allows one to query protein sequences. The database can be found in the following link https://plantmwpidb.com/ . The individual 2D virtual proteome map of the plant kingdom will enable us to understand the proteome diversity between different species. Further, the molecular weight and isoelectric point of individual proteins can enable us to understand their functional significance in different species.

摘要

蛋白质的分子量和等电点是非常重要的参数,控制着它们的亚细胞定位和随后的功能。尽管植物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阐述。因此,我们计算了植物蛋白质的分子量和等电点,并在这个数据库中进行了报告。创建了一个包含 342 个植物蛋白质组数据的数据库 PlantMWpIDB,为基础研究中的假说形成和生物技术应用提供了植物蛋白质组信息。分子量和等电点(pI)是蛋白质的重要分子参数,在涉及 2D 凝胶电泳、液相色谱-质谱和 X 射线蛋白质晶体学的蛋白质研究中非常有用。PlantMWpIDB 提供了一个易于使用和高效的搜索选项界面,并生成了基本蛋白质参数的摘要。该数据库代表了植物虚拟 2D 蛋白质组图谱,通过搜索蛋白质名称、关键词或通过访问号列表,可以获得蛋白质的分子量和 pI。PlantMWpIDB 数据库还允许查询蛋白质序列。该数据库可以在以下链接中找到:https://plantmwpidb.com/。植物王国的个体 2D 虚拟蛋白质组图谱将使我们能够理解不同物种之间的蛋白质组多样性。此外,个体蛋白质的分子量和等电点可以使我们了解它们在不同物种中的功能意义。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d12e/9076895/f291fe577f75/41598_2022_11077_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d12e/9076895/7f500c122f83/41598_2022_11077_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d12e/9076895/f291fe577f75/41598_2022_11077_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d12e/9076895/7f500c122f83/41598_2022_11077_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d12e/9076895/f291fe577f75/41598_2022_11077_Fig2_HTML.jpg

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本文引用的文献

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Proteome-pI 2.0: proteome isoelectric point database update.蛋白质组-pI 2.0:蛋白质组等电点数据库更新。
Nucleic Acids Res. 2022 Jan 7;50(D1):D1535-D1540. doi: 10.1093/nar/gkab944.
2
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Sci Rep. 2021 Mar 23;11(1):6676. doi: 10.1038/s41598-021-86201-6.
3
Blue Native Polyacrylamide Gel Electrophoresis (BN-PAGE) for the Analysis of Protein Oligomers in Plants.用于分析植物中蛋白质寡聚体的蓝色天然聚丙烯酰胺凝胶电泳(BN-PAGE)
PLoS One. 2022 Oct 3;17(10):e0275148. doi: 10.1371/journal.pone.0275148. eCollection 2022.
Curr Protoc Plant Biol. 2020 Jun;5(2):e20107. doi: 10.1002/cppb.20107.
4
The evolution of two-dimensional gel electrophoresis - from proteomics to emerging alternative applications.二维凝胶电泳的演变——从蛋白质组学到新兴的替代应用。
J Chromatogr A. 2020 Mar 29;1615:460763. doi: 10.1016/j.chroma.2019.460763. Epub 2019 Dec 2.
5
The molecular mass and isoelectric point of plant proteomes.植物蛋白质组的分子量和等电点。
BMC Genomics. 2019 Aug 5;20(1):631. doi: 10.1186/s12864-019-5983-8.
6
PlantMP: a database for moonlighting plant proteins.PlantMP:一个具有多重功能的植物蛋白数据库。
Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/baz050.
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SubCellBarCode: Proteome-wide Mapping of Protein Localization and Relocalization.亚细胞条码:蛋白质定位和重定位的蛋白质组学图谱绘制
Mol Cell. 2019 Jan 3;73(1):166-182.e7. doi: 10.1016/j.molcel.2018.11.035.
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Novel Genomic and Evolutionary Perspective of Cyanobacterial tRNAs.蓝藻tRNA的新基因组学和进化视角
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Nucleic Acids Res. 2017 Jan 4;45(D1):D1112-D1116. doi: 10.1093/nar/gkw978. Epub 2016 Oct 26.