Research on phage λ: a lucky choice

DEA Lewis, S Adhya - EcoSal Plus, 2024 - journals.asm.org
Bacteriophage λ is a paradigm in the field of gene regulation and one of the best-understood
systems in genetic regulatory biology. A so-called Genetic Switch determines the …

Dynamical perspective of protein-DNA interaction

S Batabyal, S Choudhury, D Sao, T Mondol… - Biomolecular …, 2014 - degruyter.com
The interactions between protein-DNA are essential for various biological activities. In this
review, we provide an overview of protein-DNA interactions that emphasizes the importance …

Principles of Amino‐Acid‐Nucleotide Interactions Revealed by Binding Affinities between Homogeneous Oligopeptides and Single‐Stranded DNA Molecules

P Wang, X Fang, R Du, J Wang, M Liu, P Xu… - …, 2022 - Wiley Online Library
We have determined the binding strengths between nucleotides of adenine, thymine,
guanine and cytosine in homogeneous single stranded DNAs and homo‐octapeptides …

The FOXP2 forkhead domain binds to a variety of DNA sequences with different rates and affinities

H Webb, O Steeb, A Blane, L Rotherham… - The journal of …, 2017 - academic.oup.com
FOXP2 is a member of the P subfamily of FOX transcription factors, the DNA-binding domain
of which is the winged helix forkhead domain (FHD). In this work we show that the FOXP2 …

Ultrafast electron transfer in the recognition of different DNA sequences by a DNA-binding protein with different dynamical conformations

T Mondol, S Batabyal, SK Pal - Journal of Biomolecular Structure …, 2012 - Taylor & Francis
Ultrafast electron transfer (ET) phenomenon in protein and protein–DNA complex is very
much crucial and often leads to the regulation of various kinds of redox reactions in …

Picosecond-resolved solvent reorganization and energy transfer in biological and model cavities

S Batabyal, T Mondol, SK Pal - Biochimie, 2013 - Elsevier
Water molecules in hydrophobic biological cleft/cavities are of contemporary interest for the
biomolecular structure and molecular recognition of hydrophobic ligands/drugs. Here, we …

Modulation of ultrafast conformational dynamics in allosteric interaction of gal repressor protein with different operator DNA sequences

S Choudhury, G Naiya, P Singh, P Lemmens… - …, 2016 - Wiley Online Library
Although all forms of dynamical behaviour of a protein under allosteric interaction with
effectors are predicted, little evidence of ultrafast dynamics in the interaction has been …

Flexibility of the Binding Regions of a Protein–DNA Complex and the Structure and Ordering of Interfacial Water

S Mondal, S Bandyopadhyay - Journal of Chemical Information …, 2019 - ACS Publications
Noncovalent interactions between protein and DNA are important to comprehend different
biological activities in living organisms. One important issue is how the protein identifies the …

Molecular recognition of a model globular protein apomyoglobin by synthetic receptor cyclodextrin: effect of fluorescence modification of the protein and cavity size of …

R Saha, S Rakshit, SK Pal - Journal of Molecular Recognition, 2013 - Wiley Online Library
Labelling of proteins with some extrinsic probe is unavoidable in molecular biology
research. Particularly, spectroscopic studies in the optical region require fluorescence …

Ultrafast interfacial solvation dynamics in specific protein DNA recognition

S Batabyal, T Mondol, S Choudhury, A Mazumder… - Biochimie, 2013 - Elsevier
An overwhelming number of structural and functional studies on specific protein–DNA
complexes reveal the existence of water molecules at the interaction interface. What role …