352 results found
    1. Chromosomes and Gene Expression
    2. Evolutionary Biology

    Conservation of transcription factor binding specificities across 600 million years of bilateria evolution

    Kazuhiro R Nitta et al.
    Drosophila has almost all transcription factor binding specificities available to humans; and human transcription factors with divergent specificities operate in cell types that are not found in fruit flies.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    An atlas of the binding specificities of transcription factors in Pseudomonas aeruginosa directs prediction of novel regulators in virulence

    Tingting Wang et al.
    The transcription factor (TF)-binding specificities of Pseudomonas aeruginosa allow us to predict virulence-associated TFs and their target genes, which will facilitate to find effective treatment and prevention for its associated diseases.
    1. Immunology and Inflammation
    2. Microbiology and Infectious Disease

    High-resolution mapping of the neutralizing and binding specificities of polyclonal sera post-HIV Env trimer vaccination

    Adam S Dingens et al.
    HIV vaccine-induced binding and neutralizing antibody epitope specificities were mapped at high resolution directly from polyclonal sera, overcoming shortcomings in traditional serum mapping approaches and enabling highly detailed vaccine design.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    Mapping and analysis of Caenorhabditis elegans transcription factor sequence specificities

    Kamesh Narasimhan et al.
    Protein binding microarrays highlight the diversification of DNA-binding motifs for the nuclear hormone receptor and C2H2 zinc finger transcription factor families, and reveal unexpected diversity in motifs for the T-box and DM families.
    1. Computational and Systems Biology
    2. Chromosomes and Gene Expression

    Combinatorial bZIP dimers display complex DNA-binding specificity landscapes

    José A Rodríguez-Martínez et al.
    Cognate site identification uncovers the impact of combinatorial dimerization in specifying new DNA binding sites for human bZIP transcription factors and comprehensive specificity landscapes predict the impact of SNPs on bZIP binding at previously unannotated regulatory loci.
    1. Biochemistry and Chemical Biology
    2. Structural Biology and Molecular Biophysics

    Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima

    Ekaterina Morgunova et al.
    The epistasis observed in TF-DNA binding preferences can be explained by the presence of two optima of very similar Gibbs energy that are located relatively far from each other in sequence space.
    1. Immunology and Inflammation

    Response to comment on 'AIRE-deficient patients harbor unique high-affinity disease-ameliorating autoantibodies'

    Christina Hertel et al.
    We are writing to reply to the comment by Landegren et al., 2019 about our study (Meyer et al., 2016) on disease-ameliorating autoantibodies.
    1. Biochemistry and Chemical Biology
    2. Plant Biology

    Origin and evolution of transporter substrate specificity within the NPF family

    Morten Egevang Jørgensen et al.
    Phylogenetic and biochemical analyses reveals a shared evolutionary path between biosynthesis and transport of defense metabolites in plants.
    1. Biochemistry and Chemical Biology

    Immunoproteasome functions explained by divergence in cleavage specificity and regulation

    Michael B Winter et al.
    Divergence in immunoproteasome substrate specificity and regulation from the constitutive proteasome impacts peptide cleavage quantity and the cellular capacity of the ubiquitin-proteasome system.
    1. Computational and Systems Biology
    2. Evolutionary Biology

    Deep evolutionary analysis reveals the design principles of fold A glycosyltransferases

    Rahil Taujale et al.
    Deep mining of GT-A fold sequences provides an evolutionary framework for investigating complex relationships connecting GT-A fold sequence, structure, function and regulation.

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