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3,524 results found
    1. Structural Biology and Molecular Biophysics

    Structural analyses at pseudo atomic resolution of Chikungunya virus and antibodies show mechanisms of neutralization

    Siyang Sun et al.
    Electron cryo-microscopy has been used to determine the structure of Chikungunya virus-like particles and to provide new insights into their interactions with four different antibodies.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    The gating cycle of a K+ channel at atomic resolution

    Luis G Cuello et al.
    X-ray crystallographic studies have completed the first atomic resolution description of the kinetic cycle of a potassium channel's pore domain.
    1. Structural Biology and Molecular Biophysics

    All-atom molecular dynamics of the HBV capsid reveals insights into biological function and cryo-EM resolution limits

    Jodi A Hadden et al.
    All-atom molecular dynamics of the HBV capsid supports a role for structural asymmetry in biological function, reveals the potential for triangular pores to mediate cellular signaling, and indicates that capsid flexibility may limit resolution attainable by cryo-EM.
    1. Evolutionary Biology
    2. Plant Biology

    Independent evolution of ancestral and novel defenses in a genus of toxic plants (Erysimum, Brassicaceae)

    Tobias Züst et al.
    A gain-of-function in a new chemical defense resulted in no trade-offs and and independent evolution between novel and ancestral defenses, suggesting low redundancy among different defensive chemicals.
    1. Structural Biology and Molecular Biophysics

    Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles

    Xiao-chen Bai et al.
    A combination of direct-electron detectors and statistical movie processing allows ribosome cryo-EM structures to be determined to resolutions that were previously only attainable by X-ray crystallography.
    1. Structural Biology and Molecular Biophysics
    2. Computational and Systems Biology

    Molecular dynamics-based refinement and validation for sub-5 Å cryo-electron microscopy maps

    Abhishek Singharoy et al.
    New hybrid structure determination methods leveraging the inherent biophysical properties of a macromolecule through molecular dynamics simulations provide accurate and cost-efficient ways of achieving atomic structures from high resolution cryo-electron density maps.
    1. Structural Biology and Molecular Biophysics

    Modelling dynamics in protein crystal structures by ensemble refinement

    B Tom Burnley et al.
    A combination of molecular dynamics simulations and X-ray diffraction data has been used to construct more realistic models of proteins and to provide new insights into their interactions with other proteins and biomolecules.
    1. Structural Biology and Molecular Biophysics

    Model-based local density sharpening of cryo-EM maps

    Arjen J Jakobi et al.
    Local sharpening of cryo-electron microscopy maps using atomic models can increase the interpretability of densities in cases of resolution variation and facilitates model building and refinement.
    1. Structural Biology and Molecular Biophysics

    2.8 Å resolution reconstruction of the Thermoplasma acidophilum 20S proteasome using cryo-electron microscopy

    Melody G Campbell et al.
    Water molecules and amino-acid side chain rotamers have been resolved in the cryoEM structure of T20S proteasome at 2.8 angstroms.
    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 et al.
    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.

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