7,897 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. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Hydrogen bonds as molecular timers for slow inactivation in voltage-gated potassium channels

    Stephan A Pless et al.
    Tuning the strength of inter- and intra-subunit hydrogen bonds can control potassium flux across biological membranes.
    1. Chromosomes and Gene Expression

    Bisulfite treatment and single-molecule real-time sequencing reveal D-loop length, position, and distribution

    Shanaya Shital Shah et al.
    D-loops are critical intermediates in homologous recombination, and the novel D-loop mapping assay defines position, length, and distribution of D-loops with near base-pair resolution.
    1. Structural Biology and Molecular Biophysics
    2. Chromosomes and Gene Expression

    CTCF and cohesin regulate chromatin loop stability with distinct dynamics

    Anders S Hansen et al.
    Single-molecule imaging of CTCF and cohesin in live cells suggests that chromatin loops are dynamic structures that frequently form and fall apart.
    1. Biochemistry and Chemical Biology
    2. Evolutionary Biology

    Protein sequences bound to mineral surfaces persist into deep time

    Beatrice Demarchi et al.
    A chemically unstable ostrich eggshell peptide survives for at least 3.8 million years at the equator, stabilized by strong mineral interactions.
    1. Structural Biology and Molecular Biophysics
    2. Chromosomes and Gene Expression

    Single-molecule tracking of the transcription cycle by sub-second RNA detection

    Zhengjian Zhang et al.
    A new technique called fastFISH enables nearly real-time and stoichiometric detection of nascent RNA and the tracking of individual stages of transcription at the level of single-molecules.
    1. Cell Biology

    Polo-like kinase acts as a molecular timer that safeguards the asymmetric fate of spindle microtubule-organizing centers

    Laura Matellán et al.
    Molecular and cell biology analyses reveal novel roles of Polo-like kinases in establishing non-random segregation patterns of spindle-associated microtubule-organizing centers during mitosis, a phenomenon linked with replicative cell aging.
    1. Structural Biology and Molecular Biophysics

    Single-molecule observation of ATP-independent SSB displacement by RecO in Deinococcus radiodurans

    Jihee Hwang et al.
    RecO efficiently displaces SSB from ssDNA without consuming ATPs using its two DNA-binding sites, even though SSB binds to ssDNA approximately 300 times more strongly than RecO does.
    1. Computational and Systems Biology

    Shape deformation analysis reveals the temporal dynamics of cell-type-specific homeostatic and pathogenic responses to mutant huntingtin

    Lucile Megret et al.
    Cell-type-specific molecular systems mapping reveals that striatal neuron degeneration in Huntington's disease is primarily driven by the loss of homeostatic responses.
    1. Structural Biology and Molecular Biophysics

    Sequence co-evolution gives 3D contacts and structures of protein complexes

    Thomas A Hopf et al.
    Interactions in protein complexes can be predicted from evolutionary information from genomic sequences.

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