Results 11 to 20 of about 12,600 (157)

Oncofetal HMGA2 effectively curbs unconstrained (+) and (−) DNA supercoiling [PDF]

Scientific Reports, 2017
HMGA2 belongs to the family of the high mobility group (HMG) proteins. It binds DNA via three AT-hook domains to the minor groove of adenine-thymine (AT) rich DNA.
Xiaodan Zhao, Sabrina Peter, Peter Dröge, Jie Yan   +3 more
doaj   +2 more sources

Supercoiling and looping promote DNA base accessibility and coordination among distant sites

Nature Communications, 2021
DNA supercoiling can result in underwinding with negative supercoiling or overwinding with positive supercoiling of the DNA double helix. Here the authors reveal insights into the dynamic relationship between DNA supercoiling-induced sequence-dependent ...
Jonathan M. Fogg, Allison K. Judge, Erik Stricker, Hilda L. Chan, Lynn Zechiedrich   +4 more
doaj   +1 more source

High-resolution, genome-wide mapping of positive supercoiling in chromosomes

eLife, 2021
Supercoiling impacts DNA replication, transcription, protein binding to DNA, and the three-dimensional organization of chromosomes. However, there are currently no methods to directly interrogate or map positive supercoils, so their distribution in ...
Monica S Guo, Ryo Kawamura, Megan L Littlehale, John F Marko, Michael T Laub   +4 more
doaj   +1 more source

Mitochondrial stress in advanced fibrosis and cirrhosis associated with chronic hepatitis B, chronic hepatitis C, or nonalcoholic steatohepatitis

Hepatology, EarlyView., 2022
Adaptive mitochondrial mechanisms allow mitochondrial resilience and prevent the worsening of fibrosis, while deregulation of these mechanisms promotes the progression from no/minimal‐mild (F0‐F2) fibrosis to advanced fibrosis and cirrhosis (F3‐F4). Abstract Background and Aims Hepatitis B virus (HBV) infection causes oxidative stress (OS) and alters ...
Dimitri Loureiro, Issam Tout, Stéphanie Narguet, Cheikh Mohamed Bed, Morgane Roinard, Ahmad Sleiman, Nathalie Boyer, Nathalie Pons‐Kerjean, Corinne Castelnau, Nathalie Giuly, Dorothy Tonui, Vassili Soumelis, Jamel El Benna, Patrick Soussan, Richard Moreau, Valérie Paradis, Abdellah Mansouri, Tarik Asselah   +17 more
wiley   +1 more source

A spatially resolved stochastic model reveals the role of supercoiling in transcription regulation.

PLoS Computational Biology, 2022
In Escherichia coli, translocation of RNA polymerase (RNAP) during transcription introduces supercoiling to DNA, which influences the initiation and elongation behaviors of RNAP.
Yuncong Geng, Christopher Herrick Bohrer, Nicolás Yehya, Hunter Hendrix, Lior Shachaf, Jian Liu, Jie Xiao, Elijah Roberts   +7 more
doaj   +1 more source

The balance between gyrase and topoisomerase I activities determines levels of supercoiling, nucleoid compaction, and viability in bacteria

Frontiers in Microbiology, 2023
Two enzymes are responsible for maintaining supercoiling in the human pathogen Streptococcus pneumoniae, gyrase (GyrA2GyrB2) and topoisomerase I. To attain diverse levels of topoisomerase I (TopoI, encoded by topA), two isogenic strains derived from wild-
Míriam García-López, Diego Megias, María-José Ferrándiz, Adela G. de la Campa, Adela G. de la Campa   +4 more
doaj   +1 more source

Interaction between transcribing RNA polymerase and topoisomerase I prevents R-loop formation in E. coli

Nature Communications, 2022
In E. coli, disruption of TopoI and RNAP interaction decreases cells viability and leads to hypernegative DNA supercoiling and R loops accumulation. TopoI and DNA gyrase bind around transcription units and TopoI recognizes cleavage sites by a specific ...
Dmitry Sutormin, Alina Galivondzhyan, Olga Musharova, Dmitrii Travin, Anastasiia Rusanova, Kseniya Obraztsova, Sergei Borukhov, Konstantin Severinov   +7 more
doaj   +1 more source

Role of the Discriminator Sequence in the Supercoiling Sensitivity of Bacterial Promoters

mSystems, 2021
DNA supercoiling acts as a global transcriptional regulator that contributes to the rapid transcriptional response of bacteria to many environmental changes.
Raphaël Forquet, Maïwenn Pineau, William Nasser, Sylvie Reverchon, Sam Meyer   +4 more
doaj   +1 more source

Structural interplay between DNA-shape protein recognition and supercoiling: The case of IHF

Computational and Structural Biotechnology Journal, 2022
The integration host factor (IHF) is a prominent example of indirect readout as it imposes one of the strongest bends on relaxed linear DNA. However, the relation between IHF and torsionally constrained DNA, as occurs physiologically, remains unclear. By
George D. Watson, Elliot W. Chan, Mark C. Leake, Agnes Noy   +3 more
doaj   +1 more source

Towards Conformation-Sensitive Inhibition of Gyrase: Implications of Mechanistic Insight for the Identification and Improvement of Inhibitors

Molecules, 2021
Gyrase is a bacterial type IIA topoisomerase that catalyzes negative supercoiling of DNA. The enzyme is essential in bacteria and is a validated drug target in the treatment of bacterial infections.
Dagmar Klostermeier
doaj   +1 more source