JoVE Journal

Biochemistry

JoVE Biochemistry includes methods and experimental approaches to study the structure, function, and interactions of biological molecules.

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Determination of the Glycogen Content in Cyanobacteria

Alice De Porcellinis¹, Niels-Ulrik Frigaard², Yumiko Sakuragi³

¹Carlsberg Research Laboratory, ²Department of Biology, University of Copenhagen, ³Copenhagen Plant Science Center, Department of Plant and Environmental Sciences, University of Copenhagen

JoVE 56068

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Shashank Jariwala*¹, Lars Skjærven*², Xin-Qiu Yao¹, Barry J. Grant¹

¹Department of Computational Medicine and Bioinformatics, University of Michigan Medical School, ²Department of Biomedicine, University of Bergen

JoVE 55640

A Filtration-based Method of Preparing High-quality Nuclei from Cross-linked Skeletal Muscle for Chromatin Immunoprecipitation

Kazunari Nohara¹, Zheng Chen¹, Seung-Hee Yoo¹

¹Department of Biochemistry and Molecular Biology, University of Texas Health Science Center at Houston

JoVE 56013

Protein-tRNA Agarose Gel Retardation Assays for the Analysis of the N⁶-threonylcarbamoyladenosine TcdA Function

Francisco J. Fernández^1,2,3, Sara Gómez¹, Sergio Navas-Yuste¹, Miguel López-Estepa¹, M. Cristina Vega¹

¹Department of Physical Chemical Biology, Center for Biological Research (CIB-CSIC), Spanish National Research Council (CSIC), ²Department of Immunology, Complutense University School of Medicine, ³Abvance Biotech srl

JoVE 55638

Optimized Protocol for the Extraction of Proteins from the Human Mitral Valve

Cristina Banfi¹, Anna Guarino², Maura Brioschi¹, Stefania Ghilardi¹, Valeria Mastrullo¹, Elena Tremoli¹, Gianluca Polvani^2,3,4

¹Centro Cardiologico Monzino IRCCS, ²Cardiovascular Tissue Bank of Milan, Centro Cardiologico Monzino IRCCS, ³Department of Clinical Sciences and Community Health, Cardiovascular Section, University of Milan, ⁴Department of Cardiovascular Disease, Development and Innovation Cardiac Surgery Unit, Centro Cardiologico Monzino IRCCS

JoVE 55762

Combining Raman Imaging and Multivariate Analysis to Visualize Lignin, Cellulose, and Hemicellulose in the Plant Cell Wall

Xun Zhang¹, Sheng Chen¹, Feng Xu¹

¹Beijing Key Laboratory of Lignocellulosic Chemistry, Beijing Forestry University

JoVE 55910

Detection and Visualization of DNA Damage-induced Protein Complexes in Suspension Cell Cultures Using the Proximity Ligation Assay

Mahnoush Bahjat¹, Timon A. Bloedjes¹, Amélie van der Veen¹, Guus de Wilde¹, Chiel Maas¹, Jeroen E. J. Guikema¹

¹Department of Pathology, Academic Medical Center, University of Amsterdam, Lymphoma and Myeloma Center Amsterdam (LYMMCARE)

JoVE 55703

Measuring G-protein-coupled Receptor Signaling via Radio-labeled GTP Binding

Chirag Vasavda*¹, Nicholas W. Zaccor*¹, Paul C. Scherer¹, Charlotte J. Sumner^1,2, Solomon H. Snyder^1,3,4

¹The Solomon H. Snyder Department of Neuroscience, Johns Hopkins University School of Medicine, ²Department of Neurology and neurosurgery, Johns Hopkins University School of Medicine, ³Departments of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, ⁴Department of Psychiatry and Behavioral Sciences, Johns Hopkins University School of Medicine

JoVE 55561

Real-time Tracking of DNA Fragment Separation by Smartphone

Chunxian Tao¹, Bo Yang¹, Zhenqing Li¹, Dawei Zhang¹, Yoshinori Yamaguchi^1,2,3

¹Shanghai Key Lab of Modern Optical System, University of Shanghai for Science and Technology, ²Department of Applied Physics, Graduate School of Engineering, Osaka University, ³East China University of Science and Technology, Department of Physics Faculty of Science

JoVE 55926

A Simple Fractionated Extraction Method for the Comprehensive Analysis of Metabolites, Lipids, and Proteins from a Single Sample

Mohamed Salem^1,2, Michal Bernach¹, Krzysztof Bajdzienko¹, Patrick Giavalisco¹

¹Max Planck Institute of Molecular Plant Physiology, Golm, Germany, ²Department of Pharmacognosy, Faculty of Pharmacy, Cairo University

JoVE 55802

Analyzing Supercomplexes of the Mitochondrial Electron Transport Chain with Native Electrophoresis, In-gel Assays, and Electroelution

Gisela Beutner¹, George Arthur Porter Jr.¹

¹Department of Pediatrics-Division Cardiology, University of Rochester

JoVE 55738

Voltage-clamp Fluorometry in Xenopus Oocytes Using Fluorescent Unnatural Amino Acids

Tanja Kalstrup¹, Rikard Blunck^1,2

¹Department of Pharmacology and Physiology, University of Montréal, ²Department of Physics, University of Montréal

JoVE 55598

Assaying Protein Kinase Activity with Radiolabeled ATP

Aroon S. Karra¹, Steve Stippec¹, Melanie H. Cobb¹

¹Department of Pharmacology, University of Texas Southwestern Medical Center

JoVE 55504

Oligopeptide Competition Assay for Phosphorylation Site Determination

Min Sung Joo¹, Ja Hyun Koo¹, Sol-Bi Shin², Hyungshin Yim², Sang Geon Kim¹

¹College of Pharmacy and Research Institute of Pharmaceutical Sciences, Seoul National University, ²College of Pharmacy and Institute of Pharmaceutical Science and Technology, Hanyang University

JoVE 55708

Isolation of Intermediate Filament Proteins from Multiple Mouse Tissues to Study Aging-associated Post-translational Modifications

Rachel A. Battaglia¹, Parijat Kabiraj¹, Helen H. Willcockson¹, Melinda Lian¹, Natasha T. Snider¹

¹Department of Cell Biology and Physiology, School of Medicine, University of North Carolina at Chapel Hill

JoVE 55655

Measuring Protein Binding to F-actin by Co-sedimentation

Jonathon A. Heier¹, Daniel J. Dickinson², Adam V. Kwiatkowski¹

¹Department of Cell Biology, University of Pittsburgh School of Medicine, ²Department of Biology, University of North Carolina at Chapel Hill

JoVE 55613

Recombinant Protein Expression, Crystallization, and Biophysical Studies of a Bacillus-conserved Nucleotide Pyrophosphorylase, BcMazG

Meong Il Kim¹, Choongdeok Lee¹, Minsun Hong¹

¹Division of Biological Science and Technology, Yonsei University

JoVE 55576

High-resolution Single Particle Analysis from Electron Cryo-microscopy Images Using SPHIRE

Toshio Moriya¹, Michael Saur¹, Markus Stabrin¹, Felipe Merino¹, Horatiu Voicu², Zhong Huang², Pawel A. Penczek², Stefan Raunser¹, Christos Gatsogiannis¹

¹Department of Structural Biochemistry, Max Planck Institute of Molecular Physiology, ²Department of Biochemistry and Molecular Biology, The University of Texas Medical School at Houston

JoVE 55448

High Precision FRET at Single-molecule Level for Biomolecule Structure Determination

Junyan Ma¹, Inna S. Yanez-Orozco², Soheila Rezaei Adariani², Drew Dolino³, Vasanthi Jayaraman³, Hugo Sanabria²

¹Department of Chemistry, Clemson University, ²Department of Physics and Astronomy, Clemson University, ³Department of Biochemistry and Molecular Biology, Center for Membrane Biology, Graduate School for Biomedical Sciences, University of Texas Health Science Center

JoVE 55623

Expression, Purification, and Antimicrobial Activity of S100A12

Emmanuel Jackson¹, Saffron Little¹, Dana S. Franklin¹, Jennifer A. Gaddy^2,3, Steven M. Damo^1,4

¹Department of Life and Physical Sciences, Fisk University, ²Tennessee Valley Healthcare Systems, U. S. Dept. of Veterans Affairs, ³Department of Medicine - Division of Infectious Diseases, Vanderbilt University Medical School, ⁴Department of Biochemistry, Vanderbilt University

JoVE 55557

Brain Membrane Fractionation: An Ex Vivo Approach to Assess Subsynaptic Protein Localization

Xavier Morató*^1,2, Marc López-Cano*^1,2, Paula M. Canas³, Rodrigo A. Cunha³, Francisco Ciruela^1,2

¹Unitat de Farmacologia, Departament Patologia i Terapèutica Experimental, Facultat de Medicina, IDIBELL, Universitat de Barcelona, L'Hospitalet de Llobregat, ²Institut de Neurociències, Universitat de Barcelona, ³Center for Neurosciences of Coimbra, Institute of Biochemistry, Faculty of Medicine, University of Coimbra

JoVE 55661

Multimer-PAGE: A Method for Capturing and Resolving Protein Complexes in Biological Samples

Tyler Rhinesmith¹, Bryan A. Killinger², Akhil Sharma³, Anna Moszczynska³

¹Physiology, Michigan State University, ²Center for Neurodegenerative Science Van Andel Institute, ³Pharmaceutical Sciences, Wayne State University

JoVE 55341

Identification of Plant Ice-binding Proteins Through Assessment of Ice-recrystallization Inhibition and Isolation Using Ice-affinity Purification

Melissa Bredow¹, Heather E. Tomalty¹, Virginia K. Walker^1,2,3

¹Department of Biology, Queen's University, ²Department of Biomedical and Molecular Sciences, Queen's University, ³School of Environmental Sciences, Queen's University

JoVE 55302

Enhanced Sample Multiplexing of Tissues Using Combined Precursor Isotopic Labeling and Isobaric Tagging (cPILOT)

Christina D. King¹, Joseph D. Dudenhoeffer¹, Liqing Gu², Adam R. Evans³, Renã A. S. Robinson¹

¹Department of Chemistry, University of Pittsburgh, ²SGS North America Inc., ³Large Molecule Analytical Development, Pharmaceutical Development & Manufacturing Science, Janssen Research and Development

JoVE 55406

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