5,443 results found
    1. Structural Biology and Molecular Biophysics

    DeepFRET, a software for rapid and automated single-molecule FRET data classification using deep learning

    Johannes Thomsen et al.
    An open-source user-friendly toolbox implementing machine learning for single-molecule FRET analysis enabling experts and non-experts to reproducibly provide dynamic structural biology insights.
    1. Biochemistry and Chemical Biology

    Stepwise nucleosome translocation by RSC remodeling complexes

    Bryan T Harada et al.
    Single molecule FRET reveals that the SWI/SNF-family remodeling enzyme RSC translocates nucleosomes along the DNA in steps of ~1-2 base pairs in size.
    1. Structural Biology and Molecular Biophysics

    Single-molecule view of coordination in a multi-functional DNA polymerase

    Raymond F Pauszek III et al.
    The primer extension and 5' flap processing activities of DNA polymerase I are physically coordinated by combined movements of the DNA substrate and the 5' nuclease domain of the enzyme.
    1. Structural Biology and Molecular Biophysics

    Single molecule FRET reveals pore size and opening mechanism of a mechano-sensitive ion channel

    Yong Wang et al.
    Observation by single molecule FRET of MscL, a prokaryotic mechanosensitive channel, reveals that MscL opens via the helix-tilt model and its pore reaches 2.8 nm in diameter.
    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 et al.
    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. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Cellular encoding of Cy dyes for single-molecule imaging

    Lilia Leisle et al.
    Cyanine fluorophores are encoded as non-canonical amino acids to produce functional proteins in cell-free translation systems and live cells for single-molecule imaging.
    1. Biochemistry and Chemical Biology

    Controlling protein function by fine-tuning conformational flexibility

    Sonja Schmid, Thorsten Hugel
    Specific and non-specific conformational confinement, via point mutation or cochaperone interaction or macro-molecular crowding, stimulates protein function in Hsp90 by reducing non-productive conformational flexibility.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices

    Eitan Lerner et al.
    A summary of the current “state-of-the-field” of single-molecule FRET used for probing biomolecular structural dynamics.
    1. Microbiology and Infectious Disease

    NSF-mediated disassembly of on- and off-pathway SNARE complexes and inhibition by complexin

    Ucheor B Choi et al.
    NSF is part of a membrane trafficking quality control system that disassembles both properly formed and off-pathway SNARE complexes, and the disassembly activity may be regulated by complexin.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Functional instability allows access to DNA in longer transcription Activator-Like effector (TALE) arrays

    Kathryn Geiger-Schuller et al.
    Single molecule DNA-binding trajectories and deterministic modeling analyses demonstrate a functional role for high energy partly folded states in Transcription Activator-Like Effectors that could improve future TALEN design.

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