Related papers: Atomic Scale Fractal Dimensionality in Proteins
Thermodynamic tools are well suited to connecting evolution of protein functionalities to mutations of amino acid sequences, especially for neuronal network structures. These tools enable one to quantify changes in modular structure and…
We provide evidence that the energy landscapes of folded proteins do not shift with temperature, but the onset of functional dynamics is associated with its effective sampling. The motion of the backbone is described by three distinct…
We report a clear evidence of atomic fractals in the nonlinear motion of a two-level atom in a standing-wave microcavity. Fractal-like structures, typical for chaotic scattering, are numerically found in the dependencies of outgoing…
Proteins are regularly described with some general indices (mass fractal dimension, surface fractal dimension, entropy, enthalpy, free energies, hydrophobicity, denaturation temperature etc..), which are inherently statistical in nature.…
The experimental thermal neutron cross sections of the twenty proteinogenic amino acids have been measured over the incident-neutron energy range spanning from 1 meV to 10 keV and data have been interpreted using the multi-phonon expansion…
The behavior of nuclear matter is studied at low densities and temperatures using classical molecular dynamics with three different sets of potentials with different compressibility. Nuclear matter is found to arrange in crystalline…
The formation length of particles produced in the relativistic collisions of hadrons and nuclei has relevance to fundamental principles of physics at small interaction distances. The relation is expressed by z scaling observed in the…
We present an analysis of the effects of global topology on the structural stability of folded proteins in thermal equilibrium with a heat bath. For a large class of single domain proteins, we computed the harmonic spectrum within the…
We study algorithmic problems on subsets of Euclidean space of low fractal dimension. These spaces are the subject of intensive study in various branches of mathematics, including geometry, topology, and measure theory. There are several…
We propose a novel method to measure the fractal dimension of a submonolayer metal adatom system grown under conditions of limited diffusivity on a surface. The method is based on measuring the specular peak attenuation of He atoms…
Inspired by the similarity between the fractal Weierstrass function and quantum systems with discrete scaling symmetry, we establish general conditions under which the dynamics of a quantum system will exhibit fractal structure in the time…
The understanding of dynamics and functioning of biological membranes and in particular of membrane embedded proteins is one of the most fundamental problems and challenges in modern biology and biophysics. In particular the impact of…
Analysis of experimental kinetic dependences and results of the computer modeling of pairwise interactions in the heterogeneous system have shown that a character of its fractal property variation in the evolution process would be different…
We examine Frostman-type characterisations and other extremal measure criteria for a range of fractal dimensions of sets. In particular we derive properties of the less familiar modified lower box dimension and upper correlation dimension.…
We suggest a duality between the standard (dynamical) and statistical distributions of partons in the nucleons. The temperature parameter entering into the statistical form for the quark distributions is estimated. It is found that this…
The free-energy landscape of two peptides is evaluated at various temperatures and an estimate for its fractal dimension at these temperatures calculated. We show that monitoring this quantity as a function of temperature allows to…
Measurements of lateral diffusion of proteins in a membrane typically assume that the movement of the protein occurs in a flat plane. Real membranes, however, are subject to thermal fluctuations, leading to movement of an inclusion into the…
Friction is one of the fundamental issues in physics, mechanics and material science with lots of practical applications. However, the understanding of macroscopic friction phenomena from microscopic aspect is still on the way. In this…
We study the dynamics of hydration water/protein association in folded proteins, using lysozyme and myoglobin as examples. Extensive molecular dynamics simulations are performed to identify underlying mechanisms of the dynamical transition…
There are three important types of structural properties that remain unchanged under the structural transformation of condensed matter physics and chemistry. They are the properties that remain unchanged under the structural periodic…