Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization.

Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization.

Molecular dynamics simulations are used to model proteins that diffuse to DNA, bind, and dissociate; in the absence of any explicit interaction between proteins, or between templates, binding spontaneously induces local DNA compaction and protein aggregation. Small bivalent proteins form into rows [...

书目详细资料
Main Authors:	Brackley, C, Taylor, S, Papantonis, A, Cook, P, Marenduzzo, D
格式:	Journal article
语言:	English
出版:	2013

相似书籍

The depletion attraction: an underappreciated force driving cellular organization.
由: Marenduzzo, D, et al.
出版: (2006)

The depletion attraction: an underappreciated force driving cellular organization
由: Marenduzzo, D, et al.
出版: (2006)

Ephemeral protein binding to DNA shapes stable nuclear bodies and chromatin domains.
由: Brackley, C, et al.
出版: (2017)

Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains
由: Brackley, C, et al.
出版: (2016)

Complex small-world regulatory networks emerge from the 3D organisation of the human genome
由: C. A. Brackley, et al.
出版: (2021-10-01)

Extrusion without a motor: a new take on the loop extrusion model of genome organization
由: Brackley, CA, et al.
出版: (2018)

Transcription factories: genome organization and gene regulation.
由: Papantonis, A, et al.
出版: (2013)

Entropy-driven genome organization.
由: Marenduzzo, D, et al.
出版: (2006)

Chemotactic sensing towards ambient and secreted attractant drives collective behaviour of E. coli.
由: Tine Curk, et al.
出版: (2013-01-01)

ParA-like protein uses nonspecific chromosomal DNA binding to partition protein complexes.
由: Roberts, M, et al.
出版: (2012)

The Biology of nonspecific DNA-protein interactions /
由: Revzin, Arnold
出版: (1990)

Shaping epigenetic memory via genomic bookmarking
由: Michieletto, D, et al.
出版: (2017)

Space exploration by the promoter of a long human gene during one transcription cycle.
由: Larkin, J, et al.
出版: (2013)

Transcription-driven genome organization: a model for chromosome structure and the regulation of gene expression tested through simulation
由: Cook, P, et al.
出版: (2018)

IGAP-integrative genome analysis pipeline reveals new gene regulatory model associated with nonspecific TF-DNA binding affinity
由: Alireza Sahaf Naeini, et al.
出版: (2020-01-01)

Removal of nonspecific binding proteins is required in co-immunoprecipitation with nuclear proteins
由: Xi Zeng, et al.
出版: (2022-12-01)

Fixing the model for transcription: the DNA moves, not the polymerase.
由: Papantonis, A, et al.
出版: (2011)

From nonspecific DNA-protein encounter complexes to the prediction of DNA-protein interactions.
由: Mu Gao, et al.
出版: (2009-03-01)

Genome architecture and the role of transcription.
由: Papantonis, A, et al.
出版: (2010)

Nonspecific uptake and homeostasis drive the oceanic cadmium cycle.
由: Horner, T, et al.
出版: (2013)

A unified-field theory of genome organization and gene regulation
由: Giuseppe Negro, et al.
出版: (2024-12-01)

Comparing effects of attractive interactions in crowded systems: nonspecific, hydrophobic, and hydrogen bond interactions
由: Saman Bazmi, et al.
出版: (2024-01-01)

Entropic organization of interphase chromosomes
由: Cook, P, et al.
出版: (2009)

Entropic organization of interphase chromosomes.
由: Cook, P, et al.
出版: (2009)

Forces driving the three‐dimensional folding of eukaryotic genomes
由: Alvaro Rada‐Iglesias, et al.
出版: (2018-06-01)

RNA polymerase clamp conformational dynamics: long-lived states and modulation by crowding, cations, and nonspecific DNA binding
由: Mazumder, A, et al.
出版: (2021)

Functional significance of calcium binding to tissue-nonspecific alkaline phosphatase.
由: Marc F Hoylaerts, et al.
出版: (2015-01-01)

Nonspecific high affinity binding of bile salts to carboxylester lipases.
由: T Tsujita, et al.
出版: (1987-12-01)

Looping and clustering model for the organization of protein-DNA complexes on the bacterial genome
由: Jean-Charles Walter, et al.
出版: (2018-01-01)

Simulating topological domains in human chromosomes with a fitting-free model
由: Brackley, C, et al.
出版: (2016)

BmCbZ, an insect-specific factor featuring a composite DNA-binding domain, interacts with BmC/EBPgamma.
由: Sourmeli, S, et al.
出版: (2005)

Exploiting native forces to capture chromosome conformation in mammalian cell nuclei
由: Lilija Brant, et al.
出版: (2016-12-01)

Insights into the sliding movement of the lac repressor nonspecifically bound to DNA.
由: Furini, S, et al.
出版: (2010)

Buffering effects of nonspecifically DNA-bound RNA polymerases in bacteria
由: Yichen Yan, et al.
出版: (2024-08-01)

Damaged-DNA Binding Protein-2 Drives Apoptosis Following DNA Damage
由: Raychaudhuri Pradip, et al.
出版: (2010-01-01)

Nonspecific reactivity of the rabbits organism when exposed to cysticercosis
由: Y. V. Duda
出版: (2019-07-01)

Cadherin clusters stabilized by a combination of specific and nonspecific cis-interactions
由: Connor J Thompson, et al.
出版: (2020-09-01)

Nonequilibrium chromosome looping via molecular slip links
由: Brackley, C, et al.
出版: (2017)

Suppressing Nonspecific Binding in Biolayer Interferometry Experiments for Weak Ligand–Analyte Interactions
由: Alyssa Dubrow, et al.
出版: (2022-03-01)

Nonspecific Networking
由: Philippe Solal, et al.
出版: (2011-02-01)