Classes of fast and specific search mechanisms for proteins on DNA.
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Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcherMethod for the analysis of contribution of sliding and hopping to a facilitated diffusion of DNA-binding protein: Application to in vivo data.Positive and negative impacts of nonspecific sites during target location by a sequence-specific DNA-binding protein: origin of the optimal search at physiological ionic strength.In vivo facilitated diffusion model.Mesoscopic model and free energy landscape for protein-DNA binding sites: analysis of cyanobacterial promoters.Analysis of functional importance of binding sites in the Drosophila gap gene network model.Quantitative influence of macromolecular crowding on gene regulation kinetics.Mechanisms of fast and stringent search in homologous pairing of double-stranded DNA.Effect of DNA conformation on facilitated diffusion.Foundations for modeling the dynamics of gene regulatory networks: a multilevel-perspective review.Phase Behavior of DNA in the Presence of DNA-Binding Proteins.Extracting enzyme processivity from kinetic assays.Obstacles may facilitate and direct DNA search by proteins.Real sequence effects on the search dynamics of transcription factors on DNA.Optimal Length of Conformational Transition Region in Protein Search for Targets on DNA.RecA-mediated sequence homology recognition as an example of how searching speed in self-assembly systems can be optimized by balancing entropic and enthalpic barriers.Simplified biased random walk model for RecA-protein-mediated homology recognition offers rapid and accurate self-assembly of long linear arrays of binding sites.Geometry-induced bursting dynamics in gene expression.Looking for a promoter in 3D.Single-molecule DNA unzipping reveals asymmetric modulation of a transcription factor by its binding site sequence and context.Search efficiency of biased migration towards stationary or moving targets in heterogeneously structured environments.Acceleration of bursty multiprotein target search kinetics on DNA by colocalisation.Optimization and universality of Brownian search in a basic model of quenched heterogeneous media.Energetic funnel facilitates facilitated diffusion.Distance matters: the impact of gene proximity in bacterial gene regulation.Ephemeral Protein Binding to DNA Shapes Stable Nuclear Bodies and Chromatin Domains.How nonspecifically DNA-binding proteins search for the target in crowded environments.Nonequilibrium Diffusion and Capture Mechanism Ensures Tip Localization of Regulating Proteins on Dynamic Filaments.Conditions for positioning of nucleosomes on DNA.Molecular crowding effect on dynamics of DNA-binding proteins search for their targets.Optimal search in E. coli chemotaxis.DNA-binding protein searches for its target: Non-monotonic dependence of the search time on the density of roadblocks bound on the DNA chain.Intracellular facilitated diffusion: searchers, crowders, and blockers.Mechanisms of Protein Search for Targets on DNA: Theoretical Insights
P2860
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P2860
Classes of fast and specific search mechanisms for proteins on DNA.
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article científic
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article scientifique
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articol științific
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articolo scientifico
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artigo científico
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artigo científico
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artigo científico
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artikel ilmiah
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artículo científico
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name
Classes of fast and specific search mechanisms for proteins on DNA.
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type
label
Classes of fast and specific search mechanisms for proteins on DNA.
@en
prefLabel
Classes of fast and specific search mechanisms for proteins on DNA.
@en
P2093
P356
P1476
Classes of fast and specific search mechanisms for proteins on DNA.
@en
P2093
P304
P356
10.1088/0034-4885/75/2/026601
P407
P577
2012-01-24T00:00:00Z