Advancing protein structure prediction beyond AlphaFold2

IF 6.1 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Current opinion in structural biology Pub Date : 2025-02-01 DOI:10.1016/j.sbi.2025.102985

Sanggeun Park , Sojung Myung , Minkyung Baek

引用次数: 0

Abstract

Accurate prediction of protein structures is essential for understanding their biological functions. The release of AlphaFold2 in 2021 marked a significant breakthrough, delivering unprecedented accuracy. However, challenges remain, particularly for proteins with limited evolutionary data or complex molecular interactions. This review explores efforts to enhance AlphaFold2’s performance through advanced sequence search techniques and alternative approaches, including protein language models and frameworks that integrate diverse biomolecular interactions. We propose that future progress will depend on developing models grounded in fundamental physicochemical principles, offering more accurate and comprehensive predictions across a wider spectrum of biological systems.

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超越AlphaFold2推进蛋白质结构预测。

准确预测蛋白质结构对了解其生物学功能至关重要。2021年发布的AlphaFold2标志着一项重大突破，提供了前所未有的准确性。然而，挑战仍然存在，特别是对于进化数据有限或复杂分子相互作用的蛋白质。这篇综述探讨了通过先进的序列搜索技术和替代方法来提高AlphaFold2性能的努力，包括蛋白质语言模型和整合多种生物分子相互作用的框架。我们建议，未来的进展将取决于建立在基本物理化学原理基础上的模型，在更广泛的生物系统范围内提供更准确和全面的预测。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Current opinion in structural biology 生物-生化与分子生物学

CiteScore

12.20

自引率

2.90%

发文量

179

审稿时长

6-12 weeks

期刊介绍： Current Opinion in Structural Biology (COSB) aims to stimulate scientifically grounded, interdisciplinary, multi-scale debate and exchange of ideas. It contains polished, concise and timely reviews and opinions, with particular emphasis on those articles published in the past two years. In addition to describing recent trends, the authors are encouraged to give their subjective opinion of the topics discussed. In COSB, we help the reader by providing in a systematic manner: 1. The views of experts on current advances in their field in a clear and readable form. 2. Evaluations of the most interesting papers, annotated by experts, from the great wealth of original publications. [...] The subject of Structural Biology is divided into twelve themed sections, each of which is reviewed once a year. Each issue contains two sections, and the amount of space devoted to each section is related to its importance. -Folding and Binding- Nucleic acids and their protein complexes- Macromolecular Machines- Theory and Simulation- Sequences and Topology- New constructs and expression of proteins- Membranes- Engineering and Design- Carbohydrate-protein interactions and glycosylation- Biophysical and molecular biological methods- Multi-protein assemblies in signalling- Catalysis and Regulation