ArticleBiophysical journal2011
The effect of linker histone's nucleosome binding affinity on chromatin unfolding mechanisms.
Article in Biophysical journal, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 34 citations in OpenAlex.
- Free energy spectroscopy reveals the mechanistic landscape of chromatin compaction.Nucleic acids research · 2026Article
- Regulation of chromatin architecture by protein binding: insights from molecular modeling.Biophysical reviews · 2024Review
- Chromatin transitions triggered by LH density as epigenetic regulators of the genome.Nucleic acids research · 2022Article
- Chromatin fiber breaks into clutches under tension and crowding.Nucleic acids research · 2022Article
- Sensitive effect of linker histone binding mode and subtype on chromatin condensation.Nucleic acids research · 2019Article
- Large-scale simulations of nucleoprotein complexes: ribosomes, nucleosomes, chromatin, chromosomes and CRISPR.Current opinion in structural biology · 2019Review
- Rigid Basepair Monte Carlo Simulations of One-Start and Two-Start Chromatin Fiber Unfolding by Force.Biophysical journal · 2018Article
- Transfer-matrix calculations of the effects of tension and torque constraints on DNA-protein interactions.Nucleic acids research · 2018Article
- Dependence of the Linker Histone and Chromatin Condensation on the Nucleosome Environment.The journal of physical chemistry. B · 2017Article
- Linking Chromatin Fibers to Gene Folding by Hierarchical Looping.Biophysical journal · 2017Review
- Chromatin Unfolding by Epigenetic Modifications Explained by Dramatic Impairment of Internucleosome Interactions: A Multiscale Computational Study.Journal of the American Chemical Society · 2015Article
- Quantitative analysis of single-molecule force spectroscopy on folded chromatin fibers.Nucleic acids research · 2015Article
- The chromatin fiber: multiscale problems and approaches.Current opinion in structural biology · 2015Review
- Forced unraveling of chromatin fibers with nonuniform linker DNA lengths.Journal of physics. Condensed matter : an Institute of Physics journal · 2015Article
- Dynamic condensation of linker histone C-terminal domain regulates chromatin structure.Nucleic acids research · 2014Article
- Chromatin fiber polymorphism triggered by variations of DNA linker lengths.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Histones and DNA compete for binding polyphosphoinositides in bilayers.Biophysical journal · 2014Article
- Insights into chromatin fibre structure by in vitro and in silico single-molecule stretching experiments.Biochemical Society transactions · 2013Review
- Effect of capsid confinement on the chromatin organization of the SV40 minichromosome.Nucleic acids research · 2013Article
- Nanoscale squeezing in elastomeric nanochannels for single chromatin linearization.Nano letters · 2012Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
Abstract
Eukaryotic gene activation requires selective unfolding of the chromatin fiber to access the DNA for processes such as DNA transcription, replication, and repair. Mutation/modification experiments of linker histone (LH) H1 suggest the importance of dynamic mechanisms for LH binding/dissociation, but the effects on chromatin's unfolding pathway remain unclear. Here we investigate the stretching response of chromatin fibers by mesoscale modeling to complement single-molecule experiments, and present various unfolding mechanisms for fibers with different nucleosome repeat lengths (NRLs) with/without LH that are fixed to their cores or bind/unbind dynamically with different affinities. Fiber softening occurs for long compared to short NRL (due to facile stacking rearrangements), dynamic compared to static LH/core binding as well as slow rather than fast dynamic LH rebinding (due to DNA stem destabilization), and low compared to high LH concentration (due to DNA stem inhibition). Heterogeneous superbead constructs--nucleosome clusters interspersed with extended fiber regions--emerge during unfolding of medium-NRL fibers and may be related to those observed experimentally. Our work suggests that fast and slow LH binding pools, present simultaneously in vivo, might act cooperatively to yield controlled fiber unfolding at low forces. Medium-NRL fibers with multiple dynamic LH pools offer both flexibility and selective DNA exposure, and may be evolutionarily suitable to regulate chromatin architecture and gene expression.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.