2,632 results found
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Linking time-series of single-molecule experiments with molecular dynamics simulations by machine learning

    Yasuhiro Matsunaga, Yuji Sugita
    A general machine learning scheme for integrating time-series data from single-molecule experiments and molecular dynamics simulations is proposed and successfully demonstrated for the folding dynamics of the WW domain.
    1. Structural Biology and Molecular Biophysics

    Top-down machine learning approach for high-throughput single-molecule analysis

    David S White et al.
    A new analysis algorithm (DISC) enables accurate analysis of data from high-throughput single-molecule paradigms and reveals a non-cooperative binding mechanism of cyclic nucleotide-binding domains from HCN ion channels.
    1. Structural Biology and Molecular Biophysics

    The CryoEM structure of the Saccharomyces cerevisiae ribosome maturation factor Rea1

    Piotr Sosnowski et al.
    The high-resolution structure of Rea1, an essential ribosome maturation factor in Saccharomyces cerevisiae, explains how the ATPase domain is regulated and reveals the linker domain, the mechanical element carrying out ribosome remodeling.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Topoisomerase VI senses and exploits both DNA crossings and bends to facilitate strand passage

    Timothy J Wendorff, James M Berger
    The engagement of DNA crossings is shown to license ATP hydrolysis and DNA cleavage by topoisomerase VI, a finding with mechanistic ramifications for related GHKL ATPases and meiotic recombination machineries.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    A single power stroke by ATP binding drives substrate translocation in a heterodimeric ABC transporter

    Erich Stefan et al.
    Single-turnover studies reveal quantitative insights into the inner mechanics and unfold hidden facets in the conformational coupling of ATP binding, hydrolysis, and substrate translocation by ABC transporters.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Moyamoya disease factor RNF213 is a giant E3 ligase with a dynein-like core and a distinct ubiquitin-transfer mechanism

    Juraj Ahel et al.
    RNF213 is a giant E3 ligase with a dynein-like core and a unique ubiquitination mechanism that proceeds in a RING-independent manner and is linked with the Moyamoya disease.
    1. Microbiology and Infectious Disease

    Prion propagation can occur in a prokaryote and requires the ClpB chaperone

    Andy H Yuan et al.
    The bacterium Escherichia coli possesses a permissive cytoplasmic environment and the requisite molecular machinery to support the propagation of prions.
    1. Neuroscience

    Capillary pericytes express α-smooth muscle actin, which requires prevention of filamentous-actin depolymerization for detection

    Luis Alarcon-Martinez et al.
    Pericytes surrounding capillaries in the retina contain α-smooth muscle actin, demonstrating that pericytes have the necessary molecular machinery to change capillary diameter during neurovascular coupling.
    1. Neuroscience

    Cerebral mGluR5 availability contributes to elevated sleep need and behavioral adjustment after sleep deprivation

    Sebastian C Holst et al.
    Multi-modal imaging, genetic and behavioral findings in humans and mice revealed that metabotropic glutamate receptors of subtype 5 contribute to the molecular machinery keeping track of sleep need and coping with physiological and behavioral consequences of sleep loss, pointing to novel targets for improved wakefulness and sleep.
    1. Structural Biology and Molecular Biophysics
    2. Cell Biology

    ER retention is imposed by COPII protein sorting and attenuated by 4-phenylbutyrate

    Wenfu Ma et al.
    The COPII coat protein, in association with p24 machinery molecules, actively excludes misfolded and resident proteins from endoplasmic reticulum-derived transport vesicles.

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