162 results found
    1. Cell Biology
    2. Physics of Living Systems

    Dependence of diffusion in Escherichia coli cytoplasm on protein size, environmental conditions, and cell growth

    Nicola Bellotto, Jaime Agudo-Canalejo ... Victor Sourjik
    Diffusion of differently sized proteins in bacterial cytoplasm is nearly Brownian and consistent with the Stokes-Einstein relation, once protein shape and cell geometry are taken into account, and effects of various perturbation can be described as changes in cytoplasmic viscosity.
    1. Physics of Living Systems

    Control of nuclear size by osmotic forces in Schizosaccharomyces pombe

    Joël Lemière, Paula Real-Calderon ... Fred Chang
    The volume of the nucleus is dictated by a balance of colloid osmotic forces from the nucleoplasm and cytoplasm.
    1. Cell Biology

    A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy

    Matthias Christoph Munder, Daniel Midtvedt ... Simon Alberti
    The cytoplasm behaves as an adaptable fluid that can reversibly transition into a protective solid-like state upon stress.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm

    Isseki Yu, Takaharu Mori ... Michael Feig
    Crowding and metabolites in a simulated cellular environment alter protein conformations, modulate interactions of functionally related proteins, and lead to significant dynamic heterogeneity.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Transient protein-protein interactions perturb E. coli metabolome and cause gene dosage toxicity

    Sanchari Bhattacharyya, Shimon Bershtein ... Eugene I Shakhnovich
    Weak yet highly species-specific protein-protein interactions enhance the activity of metabolically related enzymes in bacteria at endogenous conditions, but also mean that overexpression of one partner leads to permanent non-physiological complexes and gene dosage toxicity.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    A physicochemical perspective of aging from single-cell analysis of pH, macromolecular and organellar crowding in yeast

    Sara N Mouton, David J Thaller ... Liesbeth M Veenhoff
    In mitotically aging yeast cells, the cytosol acidifies, the distances between the organellar membranes decrease dramatically, but crowding on the scale of the average size protein is relatively stable.
    1. Physics of Living Systems

    Cell-sized confinement controls generation and stability of a protein wave for spatiotemporal regulation in cells

    Shunshi Kohyama, Natsuhiko Yoshinaga ... Nobuhide Doi
    A cell-sized fully confined space significantly controls the emergence and stability of a protein wave, resulting in intracellular spatiotemporal regulation driven by a reaction-diffusion mechanism.
    1. Structural Biology and Molecular Biophysics
    2. Microbiology and Infectious Disease

    Structure of bacterial cytoplasmic chemoreceptor arrays and implications for chemotactic signaling

    Ariane Briegel, Mark S Ladinsky ... Grant J Jensen
    Bacterial cytoplasmic chemoreceptors assemble into a sandwich of two hexagonally packed arrays.
    1. Chromosomes and Gene Expression

    Transcription factor clusters regulate genes in eukaryotic cells

    Adam JM Wollman, Sviatlana Shashkova ... Mark C Leake
    Transcription factors form clusters independently of the presence of DNA, which regulate target genes as opposed to individual monomers, addressing a longstanding question of how transcription factors can find gene targets so quickly.
    1. Biochemistry and Chemical Biology

    Ribosome surface properties may impose limits on the nature of the cytoplasmic proteome

    Paul E Schavemaker, Wojciech M Śmigiel, Bert Poolman
    The diffusion coefficients of proteins in the cytoplasm depend on their net charge and the distribution of charge over the protein surface, with positive proteins moving up to 100-fold slower because they bind to ribosomes.

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