38 citations · 168 across the 11 of their papers we have counts for
12 papers
The finite size effects and the two-state paradigm of protein folding
Artem Badasyan, Matjaz Valant, Joze Grdadolnik +1
The coil to globule transition of the polypeptide chain is the physical phenomenon behind the folding of globular proteins. Globular proteins with a single domain usually consist o…
Statistical mechanics of DNA-nanotube adsorption
Shushanik Tonoyan, Davit Khechoyan, Yevgeni Mamasakhlisov +1
Attraction between the polycyclic aromatic surface elements of carbon nanotubes (CNT) and the aromatic nucleotides of deoxyribonucleic acid (DNA) leads to reversible adsorption (ph…
From polymers to proteins: effect of side chains and broken symmetry in the formation of secondary structures within a Wang-Landau approach
Tatjana Škrbić, Artem Badasyan, Trinh Xuan Hoang +2
We study the equilibrium properties of a single flexible homopolymers where consecutive monomers are represented by impenetrable hard spherical beads tangential to each other, and…
Solvent Effects in the Helix-Coil Transition Model can explain the Unusual Biophysics of Intrinsically Disordered Proteins
Artem Badasyan, Yevgeni Sh. Mamasakhlisov, Rudolf Podgornik +1
We analyze a model statistical description of the polypeptide chain helix-coil transition, where we take into account the specificity of its primary sequence, as quantified by the…
A unified description of solvent effects in the helix-coil transition
Artem Badasyan, Shushanik A. Tonoyan, Achille Giacometti +4
We analyze the problem of the helix-coil transition in explicit solvents analytically by using spin-based models incorporating two different mechanisms of solvent action: explicit…
One dimensional Potts model with many-body interactions and the Generalized Model of Polypeptide Chain for the helix-coil transition
Artem Badasyan, Achille Giacometti, Rudolf Podgornik +2
Helix-coil transition in polypeptides is an example of a spin model with a preferred spin direction, in the sense that a theoretical formulation of this problem requires to assign…
Osmotic pressure induced coupling between cooperativity and stability of a helix-coil transition
Artem Badasyan, Shushanik Tonoyan, Achille Giacometti +4
Most helix-coil transition theories can be characterized by a set of three parameters: energetic, describing the (free) energy cost of forming a helical state in one repeating unit…
Coil-globule transition of a homopolymer chain in a square-well potential: Comparison between Monte Carlo canonical replica exchange and Wang-Landau sampling
Artem Badasyan, Trinh Xuan Hoang, Rudolf Podgornik +1
We study the equilibrium properties of a flexible homopolymer where consecutive monomers are represented by impenetrable hard spheres that are tangent to each other, and non-consec…
Competition for hydrogen bond formation in the helix-coil transition and protein folding
Artem Badasyan, Shushanik A. Tonoyan, Yevgeni Sh. Mamasakhlisov +3
The problem of the helix-coil transition of biopolymers in explicit solvents, like water, with the ability for hydrogen bonding with solvent is addressed analytically using a suita…
Microscopic formulation of the Zimm-Bragg model for the helix-coil transition
A. V. Badasyan, A. Giacometti, Y. Sh. Mamasakhlisov +2
A microscopic spin model is proposed for the phenomenological Zimm-Bragg model for the helix-coil transition in biopolymers. This model is shown to provide the same thermophysical…
Stacking and Hydrogen Bonding. DNA Cooperativity at Melting
Vladimir F. Morozov, Artem V. Badasyan, Arsen V. Grigoryan +2
By taking into account base-base stacking interactions we improve the Generalized Model of Polypeptide Chain (GMPC). Based on a one-dimensional Potts-like model with many-particle…
Helix-coil Transition in Closed Circular DNA
V. F. Morozov, Shura Hayryan, E. Sh. Mamasakhlisov +3
A simplified model for the closed circular DNA (ccDNA) is proposed to describe some specific features of the helix-coil transition in such molecule. The Hamiltonian of ccDNA is rel…