38 results found
    1. Structural Biology and Molecular Biophysics

    Observation of long-range tertiary interactions during ligand binding by the TPP riboswitch aptamer

    Van K Duesterberg et al.
    The combined use of optical trapping and single-molecule FRET permits the study of riboswitch structure formation and conformational dynamics at the same time.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Pausing guides RNA folding to populate transiently stable RNA structures for riboswitch-based transcription regulation

    Hannah Steinert et al.
    The discontinuous speed of transcription enables riboswitch molecules to adopt meta-stable structures in response to the presence of their cognate ligand, thereby gene-regulation by means of structure induced transcription termination can occur.
    1. Biochemistry and Chemical Biology

    Allosteric mechanism of the V. vulnificus adenine riboswitch resolved by four-dimensional chemical mapping

    Siqi Tian et al.
    A new biochemical method tests whether or not the pre-existing RNA structural correlations couple small molecule binding to gene expression in a paradigmatic riboswitch.
    1. Structural Biology and Molecular Biophysics

    Specific structural elements of the T-box riboswitch drive the two-step binding of the tRNA ligand

    Jiacheng Zhang et al.
    The glycine T-box riboswitch recognizes tRNAgly and senses its aminoacylation state by first interacting with the anticodon region and subsequently probing the 3' end of the ligand using both specific structural elements and conformational dynamics.
    1. Biochemistry and Chemical Biology

    A bacterial riboswitch class for the thiamin precursor HMP-PP employs a terminator-embedded aptamer

    Ruben M Atilho et al.
    Many bacteria use a tiny riboswitch aptamer to sense the thiamin precursor HMP-PP to regulate the production of another thiamin precursor HET-P to efficiently biosynthesize this essential coenzyme.
    1. Biochemistry and Chemical Biology

    Tandem riboswitches form a natural Boolean logic gate to control purine metabolism in bacteria

    Madeline E Sherlock et al.
    A riboswitch class has been discovered for phosphoribosyl pyrophosphate, the biochemical precursor of nucleotides, and this novel RNA sensor commonly operates in tandem with a guanine aptamer to function like a Boolean logic gate.
    1. Biochemistry and Chemical Biology

    Regulation of mRNA translation by a photoriboswitch

    Kelly A Rotstan et al.
    A synthetic riboswitch binding one isoform of a photoreversible ligand provides a photoregulatory tool for bacterial translation initiation.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Consistent global structures of complex RNA states through multidimensional chemical mapping

    Clarence Yu Cheng et al.
    A multidimensional chemical mapping strategy enables confident determination of the structures of non-coding RNAs at 1-nm resolution, including previously intractable riboswitch and human regulon states.
    1. Biochemistry and Chemical Biology

    Rational design of aptazyme riboswitches for efficient control of gene expression in mammalian cells

    Guocai Zhong et al.
    An empirically derived scoring system for identifying optimal communication modules of aptazymes accelerates the development of ligand-responsive RNA genetic switches functional in mammalian cells.

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