Molecular factors of ice growth inhibition for hyperactive and globular antifreeze proteins: Insights from molecular dynamics simulation

P Pal, R Aich, S Chakraborty, B Jana - Langmuir, 2022 - ACS Publications
The molecular mechanism behind the ice growth inhibition by antifreeze proteins (AFPs) is
yet to be understood completely. Also, what physical parameters differentiate between the …

Structural characteristics of low-density environments in liquid water

AV Muthachikavil, GM Kontogeorgis, X Liang, Q Lei… - Physical Review E, 2022 - APS
The existence of two structural forms in liquid water has been a point of discussion for a long
time. A phase transition between these two forms of liquid water has been proposed based …

Preferential ordering and organization of hydration water favor nucleation of ice by ice-nucleating proteins over antifreeze proteins

R Aich, P Pal, S Chakraborty… - The Journal of Physical …, 2023 - ACS Publications
Bacteria containing ice-nucleating proteins (INPs) evolved in nature to nucleate ice at the
high sub-zero ambiance. The ability of the INPs to induce order in the hydration layer and …

Genetic algorithm approach for the optimization of protein antifreeze activity using molecular simulations

DJ Kozuch, FH Stillinger… - Journal of Chemical …, 2020 - ACS Publications
Antifreeze proteins (AFPs) are of much interest for their ability to inhibit ice growth at low
concentrations. In this work, we present a genetic algorithm for the in silico design of AFP …

Ordered hydration layer mediated ice adsorption of a globular antifreeze protein: mechanistic insight

S Chakraborty, B Jana - Physical Chemistry Chemical Physics, 2019 - pubs.rsc.org
The ice/water interface recognition mechanism of antifreeze proteins (AFPs) is highly
contentious. Conventionally, protein adsorption on a solid surface is primarily driven by the …

Factors promoting the formation of clathrate-like ordering of water in biomolecular structure at ambient temperature and pressure

S Parui, B Jana - The Journal of Physical Chemistry B, 2019 - ACS Publications
Clathrate hydrate forms when a hydrophobic molecule is entrapped inside a water cage or
cavity. Although biomolecular structures also have hydrophobic patches, clathrate-like water …

Structural investigation, computational analysis, and theoretical cryoprotectant approach of antifreeze protein type IV mutants

A Eskandari, TC Leow, MBA Rahman… - European Biophysics …, 2024 - Springer
Antifreeze proteins (AFPs) have unique features to sustain life in sub-zero environments due
to ice recrystallization inhibition (IRI) and thermal hysteresis (TH). AFPs are in demand as …

Cold denaturation induced helix-to-helix transition and its implication to activity of helical antifreeze protein

S Parui, B Jana - Journal of Molecular Liquids, 2021 - Elsevier
Study of cold denaturation is relevant for understanding the freeze tolerant activity of
organism at sub-zero environment. The proteins responsible for the survival of these …

Differential hydration of ice‐binding surface of globular and hyperactive antifreeze proteins

P Pal, S Chakraborty, B Jana - Advanced Theory and …, 2021 - Wiley Online Library
Like hyperactive antifreeze proteins (AFPs), globular AFPs also illustrate thermal hysteresis
by specific binding to ice. The ice‐binding surface (IBS) topology and residue preferences …

[PDF][PDF] Antifreeze proteins: an unusual tale of structural evolution, hydration and function

S Chakraborty, B Jana - Proc Indian Natl Sci Acad, 2019 - researchgate.net
Organisms living in extreme cold conditions find a unique solution for cold adaptation. They
produce a group of proteins, called antifreeze proteins (AFPs) which cause depression of …