1,539 results found
    1. Structural Biology and Molecular Biophysics

    Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch

    My-Tra Le, Wojciech K Kasprzak ... Anne E Simon
    Folding and unfolding pathways are described for a ribosome-binding 3' cap-independent translation enhancer at the center of a conformational rearrangement that is implicated in the transition from translation to replication of an RNA virus.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    An improved fluorescent noncanonical amino acid for measuring conformational distributions using time-resolved transition metal ion FRET

    William N Zagotta, Brandon S Sim ... Sharona E Gordon
    Time-resolved transition metal ion fluorescence resonance energy transfer using a fluorescent, noncanonical amino acid donor and metal ion acceptor measures distances and distance distributions in proteins, allowing the equilibrium distributions among conformational states to be accurately determined.
    1. Cell Biology

    Nucleotide binding is the critical regulator of ABCG2 conformational transitions

    Zsuzsanna Gyöngy, Gábor Mocsár ... Katalin Goda
    The conformational switch of ABCG2 from the high substrate affinity inward-facing to a low substrate affinity outward-facing state is induced by nucleotide binding and accelerated by transported substrates.
    1. Structural Biology and Molecular Biophysics

    Structural dynamics determine voltage and pH gating in human voltage-gated proton channel

    Shuo Han, Sophia Peng ... Shizhen Wang
    Visualization of the real-time conformational transitions of the human voltage-gated proton channel hHv1 provided novel insights into how voltage and pH gradients modify the dynamic behaviors of channel structures to control proton flow across membrane.
    1. Structural Biology and Molecular Biophysics

    Ligand-coupled conformational changes in a cyclic nucleotide-gated ion channel revealed by time-resolved transition metal ion FRET

    Pierce Eggan, Sharona E Gordon, William N Zagotta
    Time-resolved tmFRET revealed structural and energetic changes induced by ligand binding with full agonist cAMP and partial agonist cGMP in the cyclic nucleotide-binding domain of the bacterial ion channel SthK.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    The inherent flexibility of receptor binding domains in SARS-CoV-2 spike protein

    Hisham M Dokainish, Suyong Re ... Yuji Sugita
    Computer simulations explore the experimentally unknown S-protein structures, revealing novel drug binding sites.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Free-energy simulations reveal molecular mechanism for functional switch of a DNA helicase

    Wen Ma, Kevin D Whitley ... Klaus Schulten
    Integration of structural bioinformatics and free-energy simulations reveals how a helicase switches its function from unwinding to rezipping DNA, during which a key metastable conformation is predicted and verified by single-molecule measurements.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    The selectivity of the Na+/K+-pump is controlled by binding site protonation and self-correcting occlusion

    Huan Rui, Pablo Artigas, Benoît Roux
    Computations based on detailed atomic models explain how the ATP-driven sodium-potassium pump avoids transporting the wrong type of ions in order to maintain the physiological concentration of sodium and potassium ions across the cell membrane.
    1. Structural Biology and Molecular Biophysics

    Single molecule compression reveals intra-protein forces drive cytotoxin pore formation

    Daniel M Czajkowsky, Jielin Sun ... Zhifeng Shao
    Compressive force spectroscopy of single molecules reveals that intra-protein forces underlie the long-distance coordination of structural changes within a cytotoxin during pore formation.
    1. Structural Biology and Molecular Biophysics

    Wide transition-state ensemble as key component for enzyme catalysis

    Gabriel E Jara, Francesco Pontiggia ... Dorothee Kern
    Computational and experimental evidence shows that the reaction catalyzed by adenylate kinase operates through a broad transition-state ensemble (TSE), utilizing protein conformational diversity to reduce activation entropy.

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