3,064 results found
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Operon mRNAs are organized into ORF-centric structures that predict translation efficiency

    David H Burkhardt et al.
    Operonic mRNAs in bacteria are comprised of ORF (open reading frame)-wide units of secondary structure, which are intrinsically distinct between adjacent ORFs and encode a rough blueprint for ORF-specific translation efficiency.
    1. Chromosomes and Gene Expression

    An mRNA-binding channel in the ES6S region of the translation 48S-PIC promotes RNA unwinding and scanning

    Irene Díaz-López et al.
    The ES6S region of the small subunit ribosome makes a place for the threading and secondary structure unwinding of mRNA, which regulates genome-wide translation.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Structures in multiple conformations reveal distinct transition metal and proton pathways in an Nramp transporter

    Aaron T Bozzi et al.
    Nramp-family transporters adapt a common fold to a novel mechanism in which the spatial and temporal separation of like-charge transition metal and proton co-substrates circumvents the expected electrostatic repulsion.
    1. Structural Biology and Molecular Biophysics
    2. Neuroscience

    Coupled ion binding and structural transitions along the transport cycle of glutamate transporters

    Grégory Verdon et al.
    Crystal structures of an archaeal homologue of mammalian glutamate transporters in apo and ion-only bound outward- and inward-facing states reveal ion-coupled conformational changes supporting mechanisms of coupling, gating, and transport.
    1. Structural Biology and Molecular Biophysics
    2. Chromosomes and Gene Expression

    Structure of a Holliday junction complex reveals mechanisms governing a highly regulated DNA transaction

    Gurunathan Laxmikanthan et al.
    The structure of a multi-protein DNA recombination reaction intermediate reveals how regulation is achieved by protein-mediated DNA wrapping around a core enzyme-substrate complex.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Free-energy simulations reveal molecular mechanism for functional switch of a DNA helicase

    Wen Ma et al.
    Integration of structural bioinformatics and free-energy simulations reveals how a helicase switches its function from unwinding to rezipping DNA, during which a key metastable conformation is predicted and verified by single-molecule measurements.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Molecular mechanism of activation-triggered subunit exchange in Ca2+/calmodulin-dependent protein kinase II

    Moitrayee Bhattacharyya et al.
    Closed-ring and open-spiral assembly of the multi-subunit neuronal kinase CaMKII suggest a mechanism for how active subunits shuttle between individual assemblies, propagating stimulatory signals.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    The universally-conserved transcription factor RfaH is recruited to a hairpin structure of the non-template DNA strand

    Philipp K Zuber et al.
    Transcription factors can read out both the sequence and the structure of the non-template DNA strand in the transcription bubble, expanding the repertoire of mechanisms to control transcription.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Ensemble cryo-EM uncovers inchworm-like translocation of a viral IRES through the ribosome

    Priyanka D Abeyrathne et al.
    An ensemble of cryo-EM structures reveals how eukaryotic elongation factor 2 positions the first codon of a viral mRNA for translation.
    1. Biochemistry and Chemical Biology

    A dynamic RNA loop in an IRES affects multiple steps of elongation factor-mediated translation initiation

    Marisa D Ruehle et al.
    During initiation factor-independent RNA structure-driven translation initiation, a flexible RNA element drives the movement of a viral IRES through the ribosome's tRNA binding sites and promotes tRNA binding.

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