Context-dependent, fuzzy protein interactions: Towards sequence-based insights

IF 6.1 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Current opinion in structural biology Pub Date : 2024-05-16 DOI:10.1016/j.sbi.2024.102834

Monika Fuxreiter

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引用次数: 0

Abstract

Predicting protein interactions in the cellular environment still remains a challenge in the AlphaFold era. Protein interactions, similarly to their structures, sample a continuum from ordered to disordered states, with specific partners in many bound configurations. A multiplicity of binding modes (MBM) enables transition between these states under different cellular conditions. This review focuses on how the cellular environment affects protein interactions, highlighting the molecular mechanisms, biophysical origin, and sequence-based principles of context-dependent, fuzzy interactions. It summarises experimental and computational approaches to address the challenge of interaction heterogeneity and its contribution to a wide range of biological functions. These insights will help in understanding complex cellular processes, involving conversions between protein assembly states, such as from liquid-like droplet state to the amyloid state.

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与上下文相关的模糊蛋白质相互作用：基于序列的洞察力

在 AlphaFold 时代，预测细胞环境中的蛋白质相互作用仍然是一项挑战。蛋白质相互作用与其结构类似，是一个从有序状态到无序状态的连续体，在许多结合构型中都有特定的伙伴。在不同的细胞条件下，多重结合模式（MBM）可实现这些状态之间的转换。本综述侧重于细胞环境如何影响蛋白质的相互作用，重点介绍了分子机制、生物物理起源以及基于序列的情境依赖性模糊相互作用原理。它总结了应对相互作用异质性挑战的实验和计算方法及其对各种生物功能的贡献。这些见解将有助于理解复杂的细胞过程，其中涉及蛋白质组装状态之间的转换，如从液滴状态到淀粉样状态。

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