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

    Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta

    Ray Yu-Ruei Wang, Yifan Song ... Frank DiMaio
    Extensive benchmarking reveals that errors made when manually building models into near-atomic-resolution cryoEM density may automatically be corrected using an improved Rosetta-based structure refinement method.
    1. Structural Biology and Molecular Biophysics

    Locating macromolecular assemblies in cells by 2D template matching with cisTEM

    Bronwyn A Lucas, Benjamin A Himes ... Nikolaus Grigorieff
    2D template matching complements 3D template matching of tomograms, providing fast and specific detection of molecules in cryo-EM images of cells, as well as generating 3D reconstructions from detected targets.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    Filament formation by metabolic enzymes is a specific adaptation to an advanced state of cellular starvation

    Ivana Petrovska, Elisabeth Nüske ... Simon Alberti
    A starvation-induced drop in cytosolic pH promotes assembly of budding yeast glutamine synthetase into enzymatically inactive filaments that function as enzyme storage depots.
    1. Cell Biology

    An amphipathic helix in Brl1 is required for nuclear pore complex biogenesis in S. cerevisiae

    Annemarie Kralt, Matthias Wojtynek ... Karsten Weis
    Genetic, proteomic, and structural analyses provide insight into the role of Brl1 during nuclear pore complex biogenesis, suggesting a function in the fusion of outer and inner nuclear membranes.
    1. Biochemistry and Chemical Biology

    Intrinsic disorder within AKAP79 fine-tunes anchored phosphatase activity toward substrates and drug sensitivity

    Patrick J Nygren, Sohum Mehta ... John D Scott
    Flexibility is a defining feature of AKAP kinase-phosphatase assemblies and points toward a mechanism whereby combinatorial recruitment of binding partners tailors the overall conformation of the macromolecular assembly, allowing customized physiological roles.
    1. Structural Biology and Molecular Biophysics

    All-atom molecular dynamics simulations of Synaptotagmin-SNARE-complexin complexes bridging a vesicle and a flat lipid bilayer

    Josep Rizo, Levent Sari ... Milo M Lin
    Novel insights into the molecular mechanisms underlying neurotransmitter release are provided by all-atom molecular dynamics simulations including SNARE proteins, synaptotagmin-1, complexin-1, a vesicle and a flat bilayer.
    1. Cell Biology

    Symmetric exchange of multi-protein building blocks between stationary focal adhesions and the cytosol

    Jan-Erik Hoffmann, Yessica Fermin ... Eli Zamir
    In the cytosol, the proteins constituting cell-matrix adhesion sites form multi-protein building blocks which enter and leave these sites unaltered, thereby contributing to their rapid and correct self-assembly.
    1. Physics of Living Systems

    Stochastic yield catastrophes and robustness in self-assembly

    Florian M Gartner, Isabella R Graf ... Erwin Frey
    Fluctuations in the availability of particles for binding can completely jeopardize yield in heterogeneous self-assembly.
    1. Structural Biology and Molecular Biophysics

    Enabling X-ray free electron laser crystallography for challenging biological systems from a limited number of crystals

    Monarin Uervirojnangkoorn, Oliver B Zeldin ... William I Weis
    Post-refinement methods enable the use of X-ray free electron lasers for biological crystallography of systems in which sample quantity is a limitation.
    1. Chromosomes and Gene Expression
    2. Physics of Living Systems

    Regulation of chromatin microphase separation by binding of protein complexes

    Omar Adame-Arana, Gaurav Bajpai ... Samuel Safran
    Chromatin-binding proteins regulate the effective solvent quality experienced by chromatin and impact global chromatin organization in the nucleus.

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