E-pRSA:嵌入改进了蛋白质序列中残基相对溶剂可及性的预测

IF 4.7 2区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY
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引用次数: 0

摘要

了解蛋白质中残基的溶剂可及性对不同的应用都至关重要,包括识别蛋白质-蛋白质相互作用中的相互作用表面和表征变异。我们介绍了 E-pRSA,这是一种新型网络服务器,可直接从蛋白质序列估算残基的相对溶剂可及性值(RSA)。该方法利用两个互补的蛋白质语言模型来提供快速准确的预测。在不同的盲测试集上进行基准测试时,E-pRSA 的得分达到了最先进水平,并优于我们之前开发的基于多重序列对齐后序列剖面的 DeepREx 方法。E-pRSA 网络服务器可在 https://e-prsa.biocomp.unibo.it/main/ 免费使用,用户可以提交单序列和批处理作业。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

E-pRSA: Embeddings Improve the Prediction of Residue Relative Solvent Accessibility in Protein Sequence

E-pRSA: Embeddings Improve the Prediction of Residue Relative Solvent Accessibility in Protein Sequence

Knowledge of the solvent accessibility of residues in a protein is essential for different applications, including the identification of interacting surfaces in protein–protein interactions and the characterization of variations. We describe E-pRSA, a novel web server to estimate Relative Solvent Accessibility values (RSAs) of residues directly from a protein sequence. The method exploits two complementary Protein Language Models to provide fast and accurate predictions. When benchmarked on different blind test sets, E-pRSA scores at the state-of-the-art, and outperforms a previous method we developed, DeepREx, which was based on sequence profiles after Multiple Sequence Alignments. The E-pRSA web server is freely available at https://e-prsa.biocomp.unibo.it/main/ where users can submit single-sequence and batch jobs.

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来源期刊
Journal of Molecular Biology
Journal of Molecular Biology 生物-生化与分子生物学
CiteScore
11.30
自引率
1.80%
发文量
412
审稿时长
28 days
期刊介绍: Journal of Molecular Biology (JMB) provides high quality, comprehensive and broad coverage in all areas of molecular biology. The journal publishes original scientific research papers that provide mechanistic and functional insights and report a significant advance to the field. The journal encourages the submission of multidisciplinary studies that use complementary experimental and computational approaches to address challenging biological questions. Research areas include but are not limited to: Biomolecular interactions, signaling networks, systems biology; Cell cycle, cell growth, cell differentiation; Cell death, autophagy; Cell signaling and regulation; Chemical biology; Computational biology, in combination with experimental studies; DNA replication, repair, and recombination; Development, regenerative biology, mechanistic and functional studies of stem cells; Epigenetics, chromatin structure and function; Gene expression; Membrane processes, cell surface proteins and cell-cell interactions; Methodological advances, both experimental and theoretical, including databases; Microbiology, virology, and interactions with the host or environment; Microbiota mechanistic and functional studies; Nuclear organization; Post-translational modifications, proteomics; Processing and function of biologically important macromolecules and complexes; Molecular basis of disease; RNA processing, structure and functions of non-coding RNAs, transcription; Sorting, spatiotemporal organization, trafficking; Structural biology; Synthetic biology; Translation, protein folding, chaperones, protein degradation and quality control.
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