Piotr Weber - Publications - Bridge of Knowledge

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Year 2022
  • Effect of Ion and Binding Site on the Conformation of Chosen Glycosaminoglycans at the Albumin Surface
    Publication
    • P. Sionkowski
    • P. Bełdowski
    • N. Kruszewska
    • P. Weber
    • B. Marciniak
    • K. Domino

    - ENTROPY - Year 2022

    Albumin is one of the major components of synovial fluid. Due to its negative surface charge, it plays an essential role in many physiological processes, including the ability to form molecular complexes. In addition, glycosaminoglycans such as hyaluronic acid and chondroitin sulfate are crucial components of synovial fluid involved in the boundary lubrication regime. This study presents the influence of Na+, Mg2+ and Ca2+ ions...

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Year 2021
  • Dynamics of Chains as a Tool to Study Thermomechanical Properties of Proteins.
    Publication

    - Year 2021

    Polymer dynamics can be formulated on different levels of detail. One approach eliminates microscopic degrees of freedom and a polymer molecule is represented by a simplified structure—a chain. In the simplest case monomers of ideal chain have fixed length, and their orientation is independent of the orientations and positions of neighbouring monomers. This is reason that two monomers can co-exist at the same place. Ideal chain...

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  • Water Behavior Near the Lipid Bilayer
    Publication

    - Year 2021

    In this chapter, we focus on the dynamics of water molecules situated in the vicinity of a phospholipid bilayer. Using a molecular dynamics simulation method, we studied interactions between water and the bilayer and tracked trajectories of the water molecules. Based on the hypothesis that molecules trapped inside the bilayer make different motions than the ones which are either attached to the surface or move freely in the water...

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Year 2020
  • Changes of Conformation in Albumin with Temperature by Molecular Dynamics Simulations
    Publication
    • P. Weber
    • P. Bełdowski
    • K. Domino
    • D. Ledziński
    • A. Gadomski

    - ENTROPY - Year 2020

    This work presents the analysis of the conformation of albumin in the temperature range of 300K – 312K, i.e., in the physiological range. Using molecular dynamics simulations, we calculate values of the backbone and dihedral angles for this molecule. We analyze the global dynamic properties of albumin treated as a chain. In this range of temperature, we study parameters of the molecule and the conformational entropy derived from...

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Year 2019
Year 2018
  • Daytime Acute Non-Visual Alerting Response in Brain Activity Occurs as a Result of Short- and Long-Wavelengths of Light
    Publication
    • K. Łaszewska
    • G. Agnieszka
    • P. Weber
    • T. Pracki
    • M. Tafil-klawe
    • D. Pracka
    • P. Złomańczuk

    - JOURNAL OF PSYCHOPHYSIOLOGY - Year 2018

    Very recent preliminary findings concerning the alerting capacities of light stimulus with long-wavelengths suggest the existence of neural pathways other than melatonin suppression that trigger the nonvisual response. Though the nonvisual effects of light during the daytime have not been investigated thoroughly, they are definitely worth investigating. The purpose of the present study is to enrich existing evidence by describing...

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  • Entropy Production Associated with Aggregation into Granules in a Subdiffusive Environment
    Publication
    • P. Weber
    • P. Bełdowski
    • M. Bier
    • A. Gadomski

    - ENTROPY - Year 2018

    We study the entropy production that is associated with the growing or shrinking of a small granule in, for instance, a colloidal suspension or in an aggregating polymer chain. A granule will fluctuate in size when the energy of binding is comparable to k_{B}T, which is the “quantum” of Brownian energy. Especially for polymers, the conformational energy landscape is often rough and has been commonly modeled as being self-similar...

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  • Fractional Calculus Evaluation of Hyaluronic Acid Crosslinking in a Nanoscopic Part of Articular Cartilage Model System
    Publication
    • P. Bełdowski
    • P. Weber
    • T. De Leon
    • W. K. Auge
    • A. Gadomski

    - Year 2018

    This work presents a study of the mechanism of physical crosslinking of hyaluronic acid in the presence of common phospholipids in synovial joint organ systems. Molecular dynamic simulations have been executed to understand the formation of hyaluronan networks at various phospholipid concentrations. The results of the simulations suggest that the mechanisms exhibit subdiffusion characteristics. Transportation quantities derive...

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  • Hyaluronan-Chondroitin Sulfate Anomalous Crosslinking Due to Temperature Changes
    Publication
    • T. Andrysiak
    • P. Bełdowski
    • J. Siódmiak
    • P. Weber
    • D. Ledziński

    - Polymers - Year 2018

    Glycosaminoglycans are a wide class of biopolymers showing great lubricating properties due to their structure and high affinity to water. Two of them, hyaluronic acid and chondroitin sulfate, play an important role in articular cartilage lubrication. In this work, we present results of the all-atom molecular dynamics simulations of both molecules placed in water-based solution. To mimic changes of the physiological conditions,...

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  • Influence of the Spectral Quality of Light on Daytime Alertness Levels in Humans
    Publication
    • K. Łaszewska
    • A. Goroncy
    • P. Weber
    • T. Pracki
    • M. Tafil-klawe

    - Advances in Cognitive Psychology - Year 2018

    Exposure to light is very important for human health. However, the characteristics of the light stimulus and the appropriate timing of such exposure are essential. Studies that have used monochromatic light exposure have shown no systematic patterns for the effects of blue light compared to longer wavelengths. Previous studies have shown that red light exposure increases objective and subjective measures of alertness at night without...

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  • Physical crosslinking of hyaluronic acid in the presence of phospholipids in an aqueous nano-environment
    Publication
    • P. Bełdowski
    • P. Weber
    • A. Dedinaite
    • P. Claesson
    • A. Gadomski

    - SOFT MATTER - Year 2018

    Hyaluronic acid and phospholipids are two components in the synovial joint cavity that contribute to joint lubrication synergistically. Molecular dynamics simulations were performed and hydrogen bonds in hyaluronic acid were analyzed to identify specific sites that are responsible for its physical cross-linking. Two molecular masses of hyaluronic acid, 10 kDa and 160 kDa, were considered. We use molecular dynamics simulations and...

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Year 2017

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