Article
Chemistry, Multidisciplinary
Meifang Yang, Weiling Luo, Wei Zhang, Huixia Wang, Dongxiang Xue, Yiran Wu, Suwen Zhao, Fei Zhao, Xing Zheng, Houchao Tao
Summary: We report a new strategy based on Ugi reaction for the rapid expansion of detergent diversity. The new detergents were comprehensively evaluated in terms of physical properties and thermal stabilization, and were applied in the study of membrane proteins. The results not only have potential applications in membrane protein research, but also provide insights into the structural-physical relationship of detergents.
CHEMISTRY-AN ASIAN JOURNAL
(2022)
Article
Chemistry, Multidisciplinary
Fei Zhao, Zhihao Zhu, Linshan Xie, Feng Luo, Huixia Wang, Yanli Qiu, Weiling Luo, Fang Zhou, Dongxiang Xue, Zhihui Zhang, Tian Hua, Dong Wu, Zhi-Jie Liu, Zhiping Le, Houchao Tao
Summary: Detergents are commonly used in membrane protein studies, but the limited diversity of traditional detergents restricts their applications to structurally distinct proteins. In this study, the authors report the cross-conjugation of two series of monomeric detergents to construct a library of dimeric detergents for a wider range of applications. Optimum detergents were identified through systematic evaluation and hybrid detergents enabled high-quality studies of different proteins. The findings suggest that the use of cross-coupling chemistries can greatly expand the diversity of detergents for future studies on membrane proteins.
CHEMISTRY-A EUROPEAN JOURNAL
(2022)
Review
Biochemistry & Molecular Biology
Shuo Li
Summary: This review discusses the widely-used detergents and their properties and structures in membrane protein structure determination, and also explores the growing interest in membrane mimetic systems in cryo-EM studies, providing insights into the role of detergent alternatives in structure determination.
ACTA BIOCHIMICA ET BIOPHYSICA SINICA
(2022)
Article
Chemistry, Multidisciplinary
Leonhard H. Urner, Florian Junge, Francesco Fiorentino, Tarick J. El-Baba, Denis Shutin, Gideon Noelte, Rainer Haag, Carol V. Robinson
Summary: Membrane protein purification is crucial for isolating therapeutic targets. However, the role of detergent structure in this process is not well understood, leading to failed preparations and increased costs. This study evaluates the use of hydrophilic-lipophilic balance (HLB) concept to optimize dendritic oligoglycerol detergents. The findings provide qualitative HLB guidelines and enable investigation of lipid binding strengths and protein oligomerization.
CHEMISTRY-A EUROPEAN JOURNAL
(2023)
Article
Materials Science, Multidisciplinary
Leonhard H. Urner, Ehsan Mohammadifar, Kai Ludwig, Denis Shutin, Francesco Fiorentino, Idlir Liko, Fernando G. Almeida, Daniel Kutifa, Rainer Haag, Carol Robinson
Summary: dPGS-PCL serves as a novel purification agent for membrane protein research, allowing for the study and purification of membrane proteins. Results demonstrate that protein yields and delipidation outcomes are influenced by the properties of membrane mimetics and membranes.
ACS APPLIED POLYMER MATERIALS
(2021)
Article
Agriculture, Dairy & Animal Science
Abigail Krentz, Israel Garcia-Cano, Joana Ortega-Anaya, Rafael Jimenez-Flores
Summary: The study demonstrated the potential to improve solubility of pea protein in aqueous solutions by creating stable colloidal dispersion with casein micelles using low-temperature homogenization. The research highlights a promising application for incorporating plant-based proteins within the dairy industry to drive product innovation.
JOURNAL OF DAIRY SCIENCE
(2022)
Review
Biochemical Research Methods
Jan-Simon Behnke, Leonhard H. Urner
Summary: This article reviews the role of detergents in mass spectrometry for studying membrane proteins and highlights the importance of optimizing detergent chemistry and handling. It also introduces a new research direction: the optimization of mass spectrometry detergents for different applications in mass spectrometry-based membrane proteomics. The review focuses on qualitative design aspects, including their relevance in bottom-up proteomics, top-down proteomics, native mass spectrometry, and Nativeomics. In addition to established design aspects, such as charge, concentration, degradability, detergent removal, and exchange, detergent heterogeneity is identified as a promising driver for innovation. Rationalizing the role of detergent structures in membrane proteomics is expected to enable the analysis of challenging biological systems.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2023)
Review
Biochemistry & Molecular Biology
Bankala Krishnarjuna, Ayyalusamy Ramamoorthy
Summary: Atomic-resolution structural studies of membrane-associated proteins and peptides in a membrane environment are important for understanding their biological function and disease pathology. Recent advancements in NMR spectroscopy, cryoEM approaches, and the development of novel membrane mimetics have overcome the complexity of the cell membrane and enabled reconstitution and investigation of membrane proteins.
Review
Chemistry, Multidisciplinary
Theresa Hoefurthner, Borja Mateos, Robert Konrat
Summary: NMR spectroscopy is a powerful tool for characterizing interactions between biological molecules at atomic resolution, even under near native conditions. In-cell NMR studies proteins and nucleic acids inside living cells, which are continuously modulated by external stimuli; characterizing interactions between membrane receptors and ligands at atomic resolution through on-cell NMR can provide valuable mechanistic information. Recent on-cell NMR tools summarize in this review can provide information on binding sites, affinity of membrane receptors to ligands, and their potential applications in in vivo drug screening systems.
Article
Biochemistry & Molecular Biology
Oleksandr P. Artykulnyi, Katarina Siposova, Manfred Kriechbaum, Andrey Musatov, Laszlo Almasy, Viktor Petrenko
Summary: The structure and interaction parameters of water-soluble cholesterol-based surfactant Chobimalt were studied using small-angle neutron and X-ray scattering techniques. The analysis revealed the formation of polydisperse spherical or moderately elongated ellipsoidal micelles with hard sphere interaction. The aggregation numbers were estimated to be in the range of 200-300, and the low pH had no noticeable effect on the micelle structure. The critical micelle concentrations of Chobimalt in water and H2O-HCl solutions were determined to be around 3 μM and 2.5 μM, respectively. In-depth understanding of the detergent micelle's structural properties is crucial for applications in bioscience and biotechnology.
Article
Agriculture, Multidisciplinary
Xiaxia Wang, Zhongna Yu, Xiaowei Zhao, Rongwei Han, Dongwei Huang, Yongxin Yang, Guanglong Cheng
Summary: In this study, cows producing different beta-casein variants were identified using a high-resolution melting method and their milk samples were analyzed using label-free proteomics. The study identified specific protein components associated with different beta-casein variants, providing new insights into their potential biological functions in dairy products and implications for human health. Hierarchical clustering and principal components analysis were used to visualize differences in protein components in milk containing different beta-casein variants.
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
(2021)
Article
Biochemistry & Molecular Biology
Cosmin L. Pocanschi, Joerg H. Kleinschmidt
Summary: Extraction of integral membrane proteins into detergents for structural and functional studies often results in protein instability. This study compares the stability of FhuA and its mutant form, FhuA Delta 5-160, in detergent and lipid bilayer conditions. The results show that reconstitution into lipid bilayers increases the stability of FhuA and raises the unfolding temperature of the protein.
JOURNAL OF MEMBRANE BIOLOGY
(2022)
Article
Chemistry, Applied
Michal Pancerz, Joanna Kruk, Magdalena Witek, Anna Ptaszek
Summary: This study investigates the properties of blackcurrant pectin and finds that it exhibits polyelectrolyte behavior and has a highly branched structure.
Article
Microbiology
Jorge M. A. Antunes, Marta A. Silva, Carlos A. Salgueiro, Leonor Morgado
Summary: Exoelectrogenic microorganisms are attracting attention due to their unique respiratory mechanisms and potential applications in biotechnology. They transfer electrons to the cell's exterior by establishing functional interfaces between different multiheme cytochromes.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Engineering, Biomedical
Aiman Sadaf, Seonghoon Kim, Hyoung Eun Bae, Haoqing Wang, Andreas Nygaard, Yuki Uegaki, Yang Du, Chastine F. Munk, Satoshi Katsube, Hyun Sung Lee, Jungnam Bae, Chul Won Choi, Hee-Jung Choi, Bernadette Byrne, Samuel H. Gellman, Lan Guan, Claus J. Loland, Brian K. Kobilka, Wonpil Im, Pil Seok Chae
Summary: Newly-designed maltoside detergents, GTMs, exhibit different behaviors in terms of detergent self-assembly and protein stabilization efficacy due to the polarity difference between hydrophobic and hydrophilic pendants. The high hydrophobic density in the detergent micelle interior of M-GTMs enhances their efficacy for protein stabilization compared to E-GTMs and a gold standard detergent DDM. This study introduces amphiphiles as biochemical tools in membrane protein studies, advancing protein science and facilitating structure-based drug design.
ACTA BIOMATERIALIA
(2021)
Article
Multidisciplinary Sciences
Shuanghong Chen, Mengjie Lu, Dongsheng Liu, Lingyun Yang, Cuiying Yi, Limin Ma, Hui Zhang, Qing Liu, Thomas M. Frimurer, Ming-Wei Wang, Thue W. Schwartz, Raymond C. Stevens, Beili Wu, Kurt Wuthrich, Qiang Zhao
NATURE COMMUNICATIONS
(2019)
Article
Biochemistry & Molecular Biology
Rajan Lamichhane, Jeffrey J. Liu, Kate L. White, Vsevolod Katritch, Raymond C. Stevens, Kurt Wuthrich, David P. Millar
Article
Biochemistry & Molecular Biology
Reto Horst, Kathleen A. Farley, Bethany L. Kormos, Jane M. Withka
JOURNAL OF BIOMOLECULAR NMR
(2020)
Article
Biochemistry & Molecular Biology
Bryan T. Martin, Robert D. Malmstrom, Rommie E. Amaro, Kurt Wuthrich
Summary: The study found that the OCRE domains of the splicing factors RBM5 and RBM10 exhibit symmetric H-1 NMR spectra for tyrosines at 25 degrees C, but some tyrosines show decreased flipping frequency at 4 degrees C. By combining H-1 NMR spectroscopy and molecular dynamics simulations, the researchers determined the range of tyrosine ring-flip frequencies in these domains.
Article
Biochemistry & Molecular Biology
Bram Mylemans, Hiroki Noguchi, Els Deridder, Eveline Lescrinier, Jeremy R. H. Tame, Arnout R. D. Voet
Review
Chemistry, Medicinal
Jinfeng Zhang, Wenzhong Yan, Wenwen Duan, Kurt Wuthrich, Jianjun Cheng
Article
Biochemistry & Molecular Biology
Huixia Wang, Wanhui Hu, Dongsheng Liu, Kurt Wuthrich
Summary: GLP-1R and GCGR are human receptors activated by GLP-1 and GCG, involved in metabolism regulation. NMR studies provide insights into their molecular structures and interactions with ligands.
Article
Biochemistry & Molecular Biology
James Schiemer, Reto Horst, Yilin Meng, Justin I. Montgomery, Yingrong Xu, Xidong Feng, Kris Borzilleri, Daniel P. Uccello, Carolyn Leverett, Stephen Brown, Ye Che, Matthew F. Brown, Matthew M. Hayward, Adam M. Gilbert, Mark C. Noe, Matthew F. Calabrese
Summary: Heterobifunctional chimeric degraders are ligands that recruit target proteins to E3 ubiquitin ligases to induce protein degradation. This study characterized degrader-mediated ternary complexes of Bruton's tyrosine kinase and cIAP1 using biochemical, biophysical and structural studies, revealing new insights and showing that increased ternary complex stability or rigidity does not always correlate with increased degradation efficiency.
NATURE CHEMICAL BIOLOGY
(2021)
Review
Biochemical Research Methods
Gilbert S. Omenn
Summary: The HUPO Human Proteome Project celebrates its 10th anniversary by achieving the milestone of confident detection of proteins from 90% of predicted protein-coding genes. This global project has influenced data-sharing, quality assurance, and issued stringent guidelines for detecting missing proteins. The project's impact is highlighted in special issues of Nature Communications and Journal of Proteome Research.
MOLECULAR & CELLULAR PROTEOMICS
(2021)
Article
Biochemistry & Molecular Biology
Matthew T. Eddy, Bryan T. Martin, Kurt Wuthrich
Summary: In drug design, GPCR partial agonists can fine-tune receptor output levels, and NMR studies have revealed distinct structural differences between partial and full agonist complexes, indicating different structural rearrangements for different signaling pathways.
Article
Chemistry, Multidisciplinary
Kathleen A. Farley, Martin R. M. Koos, Ye Che, Reto Horst, Chris Limberakis, Justin Bellenger, Ricardo Lira, Leandro F. Gil-Silva, Roberto R. Gil
Summary: This study presents a novel gel for aligning small organic molecules and cyclic peptides in water, which has been proven effective in molecular conformation analysis. The identification of minor conformers that cannot be easily determined by conventional methods will facilitate the use of RDC experiments in structure-based drug design.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Biographical-Item
Biochemical Research Methods
Kurt Wuthrich
JOURNAL OF MAGNETIC RESONANCE
(2021)
Article
Biochemical Research Methods
Kurt Wuthrich
Summary: The development of protein structure determination by NMR in solution from 1968 to 1992 was driven by identifying NMR-accessible parameters and developing new experimental methods. Breakthroughs during the years 1976-1984 include the development of NOE experiments, solving the phase problem, generating distance geometry algorithms, and introducing two-dimensional NMR for improved spectral resolution.
JOURNAL OF MAGNETIC RESONANCE
(2021)
Article
Multidisciplinary Sciences
James Schiemer, Andrew Maxwell, Reto Horst, Shenping Liu, Daniel P. Uccello, Kris Borzilleri, Nisha Rajamohan, Matthew F. Brown, Matthew F. Calabrese
Summary: Targeted protein degradation using heterobifunctional chimeras can expand the druggable proteome and target proteins that are difficult to inhibit with small molecules. This study explores the role of covalent modification in targeted protein degradation using Bruton's tyrosine kinase, demonstrating its compatibility with the degradation mechanism.
NATURE COMMUNICATIONS
(2023)
Editorial Material
Biotechnology & Applied Microbiology
Reed B. Wickner
FEMS YEAST RESEARCH
(2019)