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Rational Design and Cellular Synthesis of Proteins with Unconventional chemical topology

Chinese Journal of Chemistry 2023年第21期41卷 2873-2880页

作者： Tianzuo Li Fan Zhang Jing Fang Yajie Liu Wen-Bin Zhang Beijing National Laboratory for Molecular Sciences Key Laboratory of Polymer Chemistry&Physics of Ministry of EducationCenter for Soft Matter Science and EngineeringCollege of Chemistry and Molecular EngineeringPeking UniversityBeijing100871 China Beijing Academy of Artificial Intelligence Beijing100084 China

chemical topology refers to the three-dimensional arrangement(i.e.,connectivity and spatial relationship)of a molecule's constituent atoms and *** molecular mechanism for translation defines the linear configuration of all nascent *** protein topology arises only upon post-translational processing events and often imparts functional benefits such as enhanced stability,making topology a unique dimension for protein *** the assembly-reaction synergy,our group has developed several methods for the effective and convenient cellular synthesis of a variety of topological proteins,such as lasso proteins,protein rotaxanes,and protein *** work opens the access to new protein classes and paves the road toward illustrating the topological effects on structure-function relationship of proteins,which lays solid foundation for exploring topological proteins’practical application.

关键词： Active template Catenane Cellular synthesis chemical topology Lasso protein Protein engineering

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What Can topology Bring to Chemistry?

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CCS Chemistry 2024年第9期6卷 2084-2109页

作者： Wei Wang Songtao Zhou Xiujun Yu Qing-Hui Guo Yanhang Ma Jie Song Liang Zhang Xuzhou Yan Lu Han Qing Liao Xiaopeng Li Wen-Bin Zhang Yiyong Mai Shaodong Zhang Shunai Che Hai-Bo Yang Xuefeng Fu Mei-Xiang Wang School of Chemistry and Molecular Engineering East China Normal UniversityShanghai 200062 Hangzhou Institute of Medicine Chinese Academy of SciencesHangzhou 310022Zhejiang College of Chemistry and Environmental Engineering Shenzhen UniversityShenzhen 518060Guangdong MOE Key Laboratory of Bioorganic Phosphorous and chemical Biology Department of ChemistryTsinghua UniversityBeijing 100084 School of Physical Science and Technology and Shanghai Key Laboratory of High-Resolution Electron Microscopy ShanghaiTech UniversityShanghai 201210 School of Chemistry and chemical Engineering Frontiers Science Center for Transformative MoleculesState Key Laboratory of Composite MaterialsShanghai Key Laboratory for Molecular Engineering of Chiral DrugsShanghai Jiao Tong UniversityShanghai 200240 School of chemical Science and Engineering Tongji UniversityShanghai 200092 Beijing Key Laboratory for Optical Materials and Photonic Devices Department of ChemistryCapital Normal UniversityBeijing 100048 Beijing National Laboratory for Molecular Sciences Key Laboratory of Polymer Chemistry and Physics of Ministry of EducationCenter for Soft Matter Science and EngineeringCollege of Chemistry and Molecular EngineeringPeking UniversityBeijing 100871 Department of chemical Sciences National Natural Science Foundation of ChinaBeijing 10085

The unique mathematical perspectives and principal concepts of topology have not only promoted the development of other branches of mathematics but have also deeply influenced other subjects,particularly physics and *** minireview aims to elucidate the substantial influence of topology on chemistry by critically examining both the contributions of topology to current chemical science and its potential future *** will discuss the topology of molecular structures and assemblies across various scales—from small molecules and mechanically interlocked molecules to polymers,biomacromolecules,and supramolecular *** discussion will include an exploration of cutting-edge techniques for characterizing topological features,underscoring the role of topology as a novel paradigm for the design and synthesis of new molecular ***,a critical analysis of topology’s role in the development of functional materials—such as photonic materials,polymers,biomacromolecules,and chiral materials—will demonstrate its emerging significance as a crucial parameter in unveiling novel properties and *** topology’s formidable potential,it is anticipated to be used increasingly to address pivotal challenges within chemistry and adjacent disciplines.

关键词： chemical topology topological invariants molecular graphs links and knots structureproperty relationship

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A single-domain protein catenane of dihydrofolate reductase

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National Science Review 2023年第11期10卷 128-137页

作者： Jing Fang Tianzuo Li Jiyeon Lee Dahye Im Lianjie Xu Yajie Liu Jongcheol Seo Wen-Bin Zhang Beijing National Laboratory for Molecular Sciences Key Laboratory of Polymer Chemistry & Physics of Ministry of EducationCenter for Soft Matter Science and EngineeringCollege of Chemistry and Molecular EngineeringPeking University Department of Chemistry Pohang University of Science and Technology (POSTECH) Beijing Academy of Artificial Intelligence

A single-domain protein catenane refers to two mechanically interlocked polypeptide rings that fold synergistically into a compact and integrated structure, which is extremely rare in nature. Here, we report a single-domain protein catenane of dihydrofolate reductase(cat-DHFR). This design was achieved by rewiring the connectivity between secondary motifs to introduce artificial entanglement and synthesis was readily accomplished through a series of programmed and streamlined post-translational processing events in cells without any additional in vitro reactions. The target molecule contained few exogenous motifs and was thoroughly characterized using a combination of ultra-performance liquid chromatography–mass spectrometry, sodium dodecyl sulfate–polyacrylamide gel electrophoresis, protease cleavage experiments and ion mobility spectrometry–mass spectrometry. Compared with the linear control, cat-DHFR retained its catalytic capability and exhibited enhanced stability against thermal or chemical denaturation due to conformational restriction. These results suggest that linear proteins may be converted into their concatenated single-domain counterparts with almost identical chemical compositions, well-preserved functions and elevated stabilities, representing an entirely new horizon in protein science.

关键词： cellular synthesis catenane protein domain chemical topology DHFR

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The Rise and Promise of Molecular Nanotopology

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CCS Chemistry 2021年第7期3卷 1542-1572页

作者： Qing-Hui Guo Yang Jiao Yuanning Feng J.Fraser Stoddart Department of Chemistry Northwestern UniversityEvanstonIL 60208 Stoddart Institute of Molecular Science Department of ChemistryZhejiang UniversityHangzhou 310027 ZJU-Hangzhou Global Scientific and Technological Innovation Center Hangzhou 311215 School of Chemistry University of New South WalesSydneyNSW 2052

Molecular nanotopology—a term we coined recently—is a rapidly developing field of research that is emerging out of the confluence of chemical topology with the mechanical *** perusing the increased research activities in this field,it is clear that a new discipline is ready to receive recognition in its own *** this Mini-Review,we address the historical development of chemical topology and describe how the rational design and practical synthesis of molecular links and knots with mechanical bonds.

关键词： chemical topology helicates interwoven grids mechanical bonds molecular knots molecular links nanoconfinement networks template synthesis topological chirality

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人工分子机器的历史、现状、展望

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科学通报 2016年第36期61卷 3917-3923页

作者：李盛华张瀛溟刘育南开大学化学学院天津化学化工协同创新中心

2016年诺贝尔化学奖授予斯托达特、索瓦日和费林加以表彰其在"人工分子机器的设计与合成"领域的开创性研究.本文围绕分子机器的发展历史,从机器的运动方式入手,简述分子机器的研究进展以及相关化学家的杰出成就.

关键词： molecular machines chemical topology mechanical bond molecular motors

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