Single-molecule FRET investigation of binding and the comparative effect of DNA architectural proteins on Holliday junction conformational dynamics

F Islam - Biophysical Journal, 2024 - cell.com
Integration host factor (IHF) of E. coli is a nucleoid-associated protein, pivotal in DNA
packaging, viral DNA integration, and recombination. IHF binds to duplex DNA, forming a 13 …

Molecular Insight into the Structural Dynamics of Holliday Junctions Modulated by Integration Host Factor

F Islam, PP Mishra - The Journal of Physical Chemistry B, 2024 - ACS Publications
The integration host factor (IHF) in Escherichia coli is a nucleoid-associated protein with
multifaceted roles that encompass DNA packaging, viral DNA integration, and …

Unveiling the Holliday junction conformational dynamics upon binding with architectural proteins IHF

F Islam, PP Mishra - bioRxiv, 2023 - biorxiv.org
Integration host factor (IHF) is a vital nucleoid-associated protein that binds strongly to a 13-
base-pair consensus sequence, inducing a significant bend of approximately 160° upon …

Establishing a Single-Molecule FRET System for Studying DNA-Protein Interactions

D Zhao, I Mukerji, C Etson - Biophysical Journal, 2019 - cell.com
Integration host factor (IHF) is an E. Coli architectural protein that exists as a heterodimer,
composed of an α and β subunit. Originally identified in the integration of bacterial phage …

Integration Host Factor Binds DNA Holliday Junctions

SH Lin, D Zhao, V Deng, VK Birdsall, S Ho… - International Journal of …, 2022 - mdpi.com
Integration host factor (IHF) is a nucleoid-associated protein involved in DNA packaging,
integration of viral DNA and recombination. IHF binds with nanomolar affinity to duplex DNA …

[HTML][HTML] Site-Specific Investigation of DNA Holliday Junction Dynamics and Structure with 6-Methylisoxanthopterin, a Fluorescent Guanine Analog

Z Lombardo, I Mukerji - bioRxiv, 2024 - ncbi.nlm.nih.gov
Abstract DNA Holliday Junction (HJ) formation and resolution is requisite for maintaining
genomic stability in processes such as replication fork reversal and double-strand break …

Atomistic picture of opening–closing dynamics of DNA Holliday junction obtained by molecular simulations

Z Zhang, J Sponer, G Bussi, V Mlynsky… - Journal of Chemical …, 2023 - ACS Publications
Holliday junction (HJ) is a noncanonical four-way DNA structure with a prominent role in
DNA repair, recombination, and DNA nanotechnology. By rearranging its four arms, HJ can …

Direct observation of the external force mediated conformational dynamics of an IHF bound Holliday junction

SC Bera, T Paul, ANS Iyengar, PP Mishra - Faraday Discussions, 2018 - pubs.rsc.org
We have investigated the isomerization dynamics and plausible energy landscape of 4-way
Holliday junctions (4WHJs) bound to integration host factor (IHF, a DNA binding protein) …

Physical organization of DNA by multiple non-specific DNA-binding modes of integration host factor (IHF)

J Lin, H Chen, P Dröge, J Yan - PloS one, 2012 - journals.plos.org
The integration host factor (IHF) is an abundant nucleoid-associated protein and an
essential co-factor for phage λ site-specific recombination and gene regulation in E. coli …

Structure, dynamics, and branch migration of a DNA Holliday junction: a single-molecule fluorescence and modeling study

MA Karymov, M Chinnaraj, A Bogdanov… - Biophysical journal, 2008 - cell.com
The Holliday junction (HJ) is a central intermediate of various genetic processes, including
homologous and site-specific DNA recombination and DNA replication. Elucidating the …