期刊名： Biophysica

期刊主页：https://www.mdpi.com/journal/biophysica

酶是维系生命复杂网络与代谢调控的核心分子机器，其催化效率、变构行为与底物特异性，直接主导着生理与病理过程的动态演进。在生物物理学的视角下，酶绝非静止的“结构模型”，而是始终处于构象涨落与动态重组之中的生命实体——活性位点的内在柔性、底物诱导契合的瞬态响应，以及催化循环中的多体协同运动，共同编织了酶的功能图谱与调控逻辑。近年来，随着计算建模、多尺度动力学模拟及多源数据融合等技术的突破性进展，酶学研究的范式正经历深刻跨越：从单一组分的静态刻画，迈向跨尺度动态交互与系统涌现特性的全景解析。本专题汇集了发表于 Biophysica 期刊的酶生物物理系列研究，系统展示了单分子力学、共振能量转移、分子动力学模拟及自由能计算等方法在酶学前沿探索中的应用。系列成果共同勾勒出生物物理赋能酶学研究的科学图景，为深入理解酶催化机制与实现精准调控提供了重要范式与理论支撑。透过生物物理的镜头，酶的微观世界正以前所未有的清晰度呈现在我们面前。

1. Silver Binding to Bacterial Glutaredoxins Observed by NMR

核磁共振观察到银与细菌谷胱甘肽还原酶的结合

https://www.mdpi.com/2673-4125/1/4/27

Bilinovich, S.M.; Morris, D.L.; Prokop, J.W.; Caporoso, J.A.; Taraboletti, A.; Duangjumpa, N.; Panzner, M.J.; Shriver, L.P.; Leeper, T.C. Silver Binding to Bacterial Glutaredoxins Observed by NMR. Biophysica 2021, 1, 359-376. https://doi.org/10.3390/biophysica1040027

2. Mechanistic Insights into the Inhibition of SARS-CoV-2 Main Protease by Clovamide and Its Derivatives: In Silico Studies

Clovamide及其衍生物抑制SARS-CoV-2主蛋白酶的机制研究：计算机模拟分析

https://www.mdpi.com/2673-4125/1/4/28

Ye, N.; Caruso, F.; Rossi, M. Mechanistic Insights into the Inhibition of SARS-CoV-2 Main Protease by Clovamide and Its Derivatives: In Silico Studies. Biophysica 2021, 1, 377-404. https://doi.org/10.3390/biophysica1040028

3. Effects of Ionic Liquids on Laccase from Trametes versicolor

离子液体对云芝漆酶的影响

https://www.mdpi.com/2673-4125/1/4/31

Patel, A.Y.; Clark, A.K.; Paradis, N.J.; Amin, M.; Vaden, T.D.; Wu, C.; Caputo, G.A. Effects of Ionic Liquids on Laccase from Trametes versicolor. Biophysica 2021, 1, 429-444. https://doi.org/10.3390/biophysica1040031

4. Glycosidic vs. Aglycol Form of Natural Products as Putative Tyrosinase Inhibitors

作为潜在酪氨酸酶抑制剂的天然产物：糖苷形式与非糖苷形式的比较

https://www.mdpi.com/2673-4125/1/4/33

Politi, M.E.; Bethanis, K.; Thireou, T.; Christoforides, E. Glycosidic vs. Aglycol Form of Natural Products as Putative Tyrosinase Inhibitors. Biophysica 2021, 1, 458-473. https://doi.org/10.3390/biophysica1040033

5. Old Enzyme, New Role: The β-Glucosidase BglC of Streptomyces scabiei Interferes with the Plant Defense Mechanism by Hydrolyzing Scopolin

老酶新职：链霉菌（Streptomyces scabiei）的β-葡萄糖苷酶BglC通过水解东莨菪苷干扰植物防御机制

https://www.mdpi.com/2673-4125/2/1/1

Deflandre, B.; Rigali, S. Old Enzyme, New Role: The β-Glucosidase BglC of Streptomyces scabiei Interferes with the Plant Defense Mechanism by Hydrolyzing Scopolin. Biophysica 2022, 2, 1-7. https://doi.org/10.3390/biophysica2010001

6. Analysis of Enzyme Conformation Dynamics Using Single-Molecule Förster Resonance Energy Transfer (smFRET)

利用单分子福斯特共振能量转移（smFRET）分析酶构象动力学

https://www.mdpi.com/2673-4125/2/2/14

Huynh, M.; Sengupta, B. Analysis of Enzyme Conformation Dynamics Using Single-Molecule Förster Resonance Energy Transfer (smFRET). Biophysica 2022, 2, 123-134. https://doi.org/10.3390/biophysica2020014

7. Physicochemical Characterization of the Catalytic Unit of Hammerhead Ribozyme and Its Relationship with the Catalytic Activity

锤头状核酶催化单元的理化性质表征及其与催化活性的关系

https://www.mdpi.com/2673-4125/2/3/22

Tanaka, Y.; Yamanaka, D.; Morioka, S.; Yamaguchi, T.; Morikawa, M.; Kodama, T.S.; Sychrovský, V.; Kojima, C.; Hattori, Y. Physicochemical Characterization of the Catalytic Unit of Hammerhead Ribozyme and Its Relationship with the Catalytic Activity. Biophysica 2022, 2, 221-239. https://doi.org/10.3390/biophysica2030022

8. Insights into the Substrate Uptake Mechanism of Mycobacterium Tuberculosis Ribose 5-Phosphate Isomerase and Perspectives on Drug Development

结核分枝杆菌核糖-5-磷酸异构酶底物摄取机制的解析及药物开发展望

https://www.mdpi.com/2673-4125/3/1/10

Bartkevihi, L.; Caruso, Í.P.; Martins, B.; Pires, J.R.M.; Oliveira, D.M.P.; Anobom, C.D.; Almeida, F.C.L. Insights into the Substrate Uptake Mechanism of Mycobacterium Tuberculosis Ribose 5-Phosphate Isomerase and Perspectives on Drug Development. Biophysica 2023, 3, 139-157. https://doi.org/10.3390/biophysica3010010

9. Exploring the Dynamics of Holo-Shikimate Kinase through Molecular Mechanics

利用分子力学探索全酶态莽草酸激酶的动力学特性

https://www.mdpi.com/2673-4125/3/3/30

Ojeda-May, P. Exploring the Dynamics of Holo-Shikimate Kinase through Molecular Mechanics. Biophysica 2023, 3, 463-475. https://doi.org/10.3390/biophysica3030030

10. Never Fold to Fold Continuously: A Conundrum in Ubiquitin–Proteasome System (UPS)-Mediated Protein Quality Control (PQC)

从不折叠到持续折叠：泛素-蛋白酶体系统（UPS）介导的蛋白质质量控制（PQC）中的一个难题

https://www.mdpi.com/2673-4125/4/2/11

Magnati, S.; Bracco, E. Never Fold to Fold Continuously: A Conundrum in Ubiquitin–Proteasome System (UPS)-Mediated Protein Quality Control (PQC). Biophysica 2024, 4, 158-167. https://doi.org/10.3390/biophysica4020011

11. Choice of ATP Analogues for Biophysical Studies—A Systematic NMR-Based Investigation for the AAA Enzyme p97

生物物理研究中 ATP 类似物的选择——针对 AAA 酶 p97 的系统性 NMR 研究

https://www.mdpi.com/2673-4125/5/1/9

Droemer, M.A.; Shein, M.; Schütz, A.K. Choice of ATP Analogues for Biophysical Studies—A Systematic NMR-Based Investigation for the AAA Enzyme p97. Biophysica 2025, 5, 9. https://doi.org/10.3390/biophysica5010009

12. Probing the Interaction Between Icariin and Proteinase K: A Combined Spectroscopic and Molecular Modeling Study

淫羊藿苷与蛋白酶K相互作用的探究：光谱学与分子模拟相结合的研究

https://www.mdpi.com/2673-4125/5/3/32

Han, Z.; Zheng, H.; Qi, Y.; Usmanov, D.T.; Liu, L.; Yu, Z. Probing the Interaction Between Icariin and Proteinase K: A Combined Spectroscopic and Molecular Modeling Study. Biophysica 2025, 5, 32. https://doi.org/10.3390/biophysica5030032

13. Modulating Enzyme–Ligand Binding with External Fields

利用外部场调控酶-配体结合

https://www.mdpi.com/2673-4125/5/3/33

Ojeda-May, P. Modulating Enzyme–Ligand Binding with External Fields. Biophysica 2025, 5, 33. https://doi.org/10.3390/biophysica5030033

14. Biophysical Insights into the Binding Interactions of Inhibitors (ICA-1S/1T) Targeting Protein Kinase C-ι

靶向蛋白激酶C-ι的抑制剂（ICA-1S/1T）结合相互作用的生物物理学见解

https://www.mdpi.com/2673-4125/5/3/36

Noor, R.E.; Islam, S.; Smalley, T.; Mizgalska, K.; Eschenfelder, M.; Keramisanou, D.; Astalos, A.J.; Leahy, J.W.; Guida, W.C.; Karolak, A.; et al. Biophysical Insights into the Binding Interactions of Inhibitors (ICA-1S/1T) Targeting Protein Kinase C-ι. Biophysica 2025, 5, 36. https://doi.org/10.3390/biophysica5030036

15. Decoding Deubiquitinases: Roles, Mechanisms, and Therapeutic Implications

解码去泛素化酶：功能、机制与治疗意义

https://www.mdpi.com/2673-4125/6/2/35

Kabra, A. Decoding Deubiquitinases: Roles, Mechanisms, and Therapeutic Implications. Biophysica 2026, 6, 35. https://doi.org/10.3390/biophysica6020035

期刊介绍

主编：Prof. Dr. Matthias Buck

Case Western Reserve University, USA

Prof. Dr. Victor Muñoz

University of California Merced, USA

Biophysica (ISSN 2673-4125) 创刊于2021年，是一个国际化、经同行评审的开放获取期刊。期刊主要关注生物物理领域的最新技术和研究进展，旨在运用物理、化学和数学的方法和技术，理解生物系统的运作机制，并为探讨和整合生物物理科学与工程的所有层面提供一个多学科交流平台。

• 涵盖领域

包括但不限于以下方面：

生物物理学

生物物理方法和技术

生物分子及其组装的结构和动力学

检测、传感和成像技术的新方法

细胞生物物理学

生物系统理论与建模

生物工程、纳米技术和生物材料

量子生物学

生物物理学的起源和历史

生物力学、传感和信号传导

2025 Impact Factor：1.8

2025 CiteScore：2.6

Time to First Decision：19.1 Days

Acceptance to Publication：4.7 Days