Article
Cell Biology
Marta T. Borowska, Christopher T. Boughter, Jeffrey J. Bunker, Jenna J. Guthmiller, Patrick C. Wilson, Benoit Roux, Albert Bendelac, Erin J. Adams
Summary: This study investigates the molecular basis of polyreactivity in antibodies. It is found that polyreactive antigen-binding fragments (Fabs) bind their targets with low affinities, comparable to T cell receptor recognition. Mutagenic studies suggest that polyreactive antibodies use multiple strategies for engagement. The crystal structures and molecular dynamics simulations reveal increased rigidity in polyreactive Fabs, providing a neutral and accessible platform for diverse antigens to bind.
Article
Chemistry, Multidisciplinary
Tao Wang, Ravikumar Jimmidi, Benoit Roubinet, Ludovic Landemarre, Stephane P. Vincent
Summary: The study investigated the impact of gold nanoparticles of different sizes and ligand densities on multivalent carbohydrate-protein interactions. It was found that gold nanoparticles with a diameter of 20 nm bearing glycofullerenes exhibited the strongest binding ability towards both DC-SIGN and FimH, making them effective anti-adhesive materials for various bacterial and viral pathogens.
Article
Chemistry, Multidisciplinary
Tine Curk, Galina V. Dubacheva, Alain R. Brisson, Ralf P. Richter
Summary: In this study, a theoretical model is derived to investigate the impact of cofactors or competitors on multivalent interactions. It is found that the effect of participating moieties can be accurately captured by rescaling the affinity constant of ligand-receptor bonds. Experimental data support the theoretical predictions and demonstrate the superselectivity of multivalent binding in the presence of cofactors or competitors.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biochemistry & Molecular Biology
Margherita Duca, Diksha Haksar, Jacq van Neer, Dominique M. E. Thies-Weesie, Dania Martinez-Alarcon, Hans de Cock, Annabelle Varrot, Roland J. Pieters
Summary: This study synthesized multivalent compounds that can inhibit lung infections caused by fungal and bacterial pathogens by adhesion to glycoconjugates. The compounds showed strong inhibitory activity and aggregating mechanism, reducing the adhesion of pathogens to lung epithelial cells.
ACS CHEMICAL BIOLOGY
(2022)
Article
Chemistry, Organic
Debashis Mondal, Manzoor Ahmad, Prakash Panwaria, Avisikta Upadhyay, Pinaki Talukdar
Summary: A series of triazole-cyanostilbene receptors were designed and synthesized to bind with anions through CH⋯anion hydrogen bonding interactions, showing strong binding with SO42- anions. Anion recognition and foldamer formation were confirmed through experiments and geometry optimization studies. Additionally, the receptor efficiently transports Cl- anions across lipid bilayer membrane via a mobile carrier mechanism, compared to SO42- anions.
JOURNAL OF ORGANIC CHEMISTRY
(2022)
Article
Engineering, Chemical
Chengnan Huang, Jinliang Huang, Shuqian Zhu, Tianxin Tang, Youxin Chen, Feng Qian
Summary: The effects of linkers on the structure and binding affinity of multivalent antibodies were systematically investigated. It was found that flexible linkers improved the binding affinity of bivalent nanobodies, while rigid linkers required an optimal length. By analyzing and optimizing the linkers, tetravalent nanobodies with significantly enhanced binding affinity and VEGF-VEGFR pathway inhibition were successfully constructed compared to monovalent nanobodies.
CHEMICAL ENGINEERING SCIENCE
(2023)
Article
Chemistry, Physical
Alex Koetter, Henning D. Mootz, Andreas Heuer
Summary: SUMO targeted ubiqutin ligases (STUbLs) such as RNF4 or Arkadia/RNF111 can recognize SUMO chains through multiple SUMO interacting motifs (SIMs). The SIMs are typically located in the disordered regions of these enzymes, and the individual SUMO domains of SUMO chains can move relatively freely. Binding to the SIM region significantly restricts the conformational freedom of SUMO chains.
JOURNAL OF PHYSICAL CHEMISTRY B
(2023)
Article
Biochemical Research Methods
Harlei Martin, David Goyard, Anatte Margalit, Kyle Doherty, Olivier Renaudet, Kevin Kavanagh, Trinidad Velasco-Torrijos
Summary: The study found that a specific divalent galactoside glycomimetic 1 has inhibitory effects on the adhesion and biofilm formation of Candida albicans. The multivalent presentations of glycomimetic 1 showed varying effectiveness in inhibiting yeast adhesion and biofilm formation, with the core scaffold significantly influencing the activity of lower valency conjugates.
BIOCONJUGATE CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Masanori Nagao, Masaya Kichize, Yu Hoshino, Yoshiko Miura
Summary: This study evaluates the correlation between the monomer structures of glycopolymers and their interactions with ConA, finding that the acrylate-type glycopolymers exhibit stronger interaction due to the higher molecular mobility of mannose units resulting from the rotational freedom of ester bonds in their side chains.
Article
Chemistry, Physical
Tucker Burgin, Jim Pfaendtner, David A. C. Beck
Summary: Data science and machine learning are revolutionizing enzyme engineering. This study proposes a novel approach using molecular dynamics simulations to compare enzyme variants. The method simplifies the problem and achieves promising experimental results in two different enzymes.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Review
Chemistry, Multidisciplinary
Yujun Kim, Ji Young Hyun, Injae Shin
Summary: Glycan-protein interactions are crucial in physiological processes and disease development. Multivalent glycans have been widely utilized in studying biological processes and discovering biomedical agents.
CHEMICAL SOCIETY REVIEWS
(2021)
Article
Chemistry, Multidisciplinary
Qingqing Fang, Pan Guo, Yiting Zeng, Chenru Wang, Tao Jiang, Yunbao Jiang
Summary: Novel cell-targeting ligand structures with high avidity and low dosage have been constructed, which provide potential possibilities for applications such as cell detection and drug delivery.
CHEMICAL COMMUNICATIONS
(2022)
Review
Chemistry, Multidisciplinary
Jon I. Quintana, Unai Atxabal, Luca Unione, Ana Arda, Jesus Jimenez-Barbero
Summary: Nuclear Magnetic Resonance (NMR) is widely used to study glycan-protein molecular recognition events, providing qualitative and quantitative information at different levels of resolution and complexity. However, the weak affinity of lectin-sugar interactions is overcome by multivalency in biological processes. The application of NMR methods to monitor multivalent lectin-glycan interactions is challenging due to the disappearance of NMR signals when large macromolecular complexes are formed.
CHEMICAL SOCIETY REVIEWS
(2023)
Article
Chemistry, Multidisciplinary
Francesca Mastrotto, Marco Pirazzini, Samuele Negro, Alan Salama, Luisa Martinez-Pomares, Giuseppe Mantovani
Summary: This study uncovers and elucidates a previously unknown mechanism of CD206 blockade, providing new insights for the development of CD206 modulators in immunotherapy.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Hale Bila, Kaltrina Paloja, Vincenzo Caroprese, Artem Kononenko, Maartje M. C. Bastings
Summary: This article discusses the characteristics and features of super-selective multivalent ligand-receptor interactions, as well as the use of DNA nanotechnology for spatial design to control super-selectivity.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biochemistry & Molecular Biology
J. Wang, Y. Zhang, J. Hou, X. Qian, H. Zhang, Z. Zhang, M. Li, R. Wang, K. Liao, Y. Wang, Z. Li, D. Zhong, P. Wan, L. Dong, F. Liu, X. Wang, Y. Wan, W. Xiao, W. W. Zhang
CELL DEATH AND DIFFERENTIATION
(2016)
Article
Genetics & Heredity
Chenyu Xue, Ke Liang, Zhi Liu, Rui Wen, Wei Xiao
Article
Biochemistry & Molecular Biology
Jia Li, Michael Biss, Yu Fu, Xin Xu, Stanley A. Moore, Wei Xiao
JOURNAL OF BIOLOGICAL CHEMISTRY
(2015)
Review
Biotechnology & Applied Microbiology
Xin Xu, Susan Blackwell, Aiyang Lin, Fangfang Li, Zhoushuai Qin, Wei Xiao
MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH
(2015)
Article
Biochemistry & Molecular Biology
Shuang Li, Xiao-Xi Pan, James O. Berry, Yi Wang, Naren, Shuang Ma, Song Tan, Wei Xiao, Wei-Zhong Zhao, Xian-Yong Sheng, Li-Ping Yin
Article
Biochemistry & Molecular Biology
Shuang Li, Xi Zhang, Xiu-Yue Zhang, Wei Xiao, James O. Berry, Peng Li, Si Jin, Song Tan, Peng Zhang, Wei-Zhong Zhao, Li-Ping Yin
Article
Biochemistry & Molecular Biology
Chao Zhang, Zhouquan Li, Xiaohua Zhang, Li Yuan, Heping Dai, Wei Xiao
Article
Cell Biology
Zhoushuai Qin, Zhiqiang Bai, Ying Sun, Xiaohong Niu, Wei Xiao
Article
Genetics & Heredity
Li Fan, Wei Xiao
Article
Biochemistry & Molecular Biology
Xin Xu, Aiyang Lin, Cuiyan Zhou, Susan R. Blackwell, Yiran Zhang, Zihao Wang, Qianqian Feng, Ruifang Guan, Michelle D. Hanna, Zhucheng Chen, Wei Xiao
NUCLEIC ACIDS RESEARCH
(2016)
Article
Multidisciplinary Sciences
Shu Yuan, Zhong-Wei Zhang, Chong Zheng, Zhong-Yi Zhao, Yu Wang, Ling-Yang Feng, Guoqi Niu, Chang-Quan Wang, Jian-Hui Wang, Hong Feng, Fei Xu, Fang Bao, Yong Hu, Ying Cao, Ligeng Ma, Haiyang Wang, Dong-Dong Kong, Wei Xiao, Hong-Hui Lin, Yikun He
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2016)
Article
Plant Sciences
Huiping Guo, Rui Wen, Qianqian Wang, Raju Datla, Wei Xiao
FRONTIERS IN PLANT SCIENCE
(2016)
Article
Multidisciplinary Sciences
Song Tan, Fang Liu, Xiao-Xi Pan, Yue-Peng Zang, Fei Jin, Wei-Xi Zu, Xiao-Ting Qi, Wei Xiao, Li-Ping Yin
SCIENTIFIC REPORTS
(2016)
Article
Multidisciplinary Sciences
C. J. Markin, D. A. Mokhtari, F. Sunden, M. J. Appel, E. Akiva, S. A. Longwell, C. Sabatti, D. Herschlag, P. M. Fordyce
Summary: A high-throughput microfluidic enzyme kinetics platform, HT-MEK, was studied for simultaneous expression, purification, and characterization of over 1500 enzyme variants. Through more than 670,000 reactions on 1036 mutants of alkaline phosphatase PafA, over 5000 kinetic and physical constants were determined, uncovering underlying enzyme architecture.
Article
Multidisciplinary Sciences
Craig J. Markin, Daniel A. Mokhtari, Siyuan Du, Tzanko Doukov, Fanny Sunden, Jordan A. Cook, Polly M. Fordyce, Daniel Herschlag
Summary: Using high-throughput microfluidic enzyme kinetics, the impacts of single site mutations on the alkaline phosphatase PafA's affinity for two transition state analogs were measured. Active site and active-site-contacting residues had similar effects on catalysis and analog binding, while distal residues that reduced catalysis had little impact on binding and some even increased affinity. A model suggests that distal mutations alter the enzyme's conformation, accommodating larger analogs. These findings indicate the importance of both active site and distal residues in enzyme engineering.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)