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Grzybowski A, Koperwas K, Paluch M. Role of anisotropy in understanding the molecular grounds for density scaling in dynamics of glass-forming liquids. REPORTS ON PROGRESS IN PHYSICS. PHYSICAL SOCIETY (GREAT BRITAIN) 2024; 87:084501. [PMID: 38861964 DOI: 10.1088/1361-6633/ad569d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2024] [Accepted: 06/11/2024] [Indexed: 06/13/2024]
Abstract
Molecular Dynamics (MD) simulations of glass-forming liquids play a pivotal role in uncovering the molecular nature of the liquid vitrification process. In particular, much focus was given to elucidating the interplay between the character of intermolecular potential and molecular dynamics behaviour. This has been tried to achieve by simulating the spherical particles interacting via isotropic potential. However, when simulation and experimental data are analysed in the same way by using the density scaling approaches, serious inconsistency is revealed between them. Similar scaling exponent values are determined by analysing the relaxation times and pVT data obtained from computer simulations. In contrast, these values differ significantly when the same analysis is carried out in the case of experimental data. As discussed thoroughly herein, the coherence between results of simulation and experiment can be achieved if anisotropy of intermolecular interactions is introduced to MD simulations. In practice, it has been realized in two different ways: (1) by using the anisotropic potential of the Gay-Berne type or (2) by replacing the spherical particles with quasi-real polyatomic anisotropic molecules interacting through isotropic Lenard-Jones potential. In particular, the last strategy has the potential to be used to explore the relationship between molecular architecture and molecular dynamics behaviour. Finally, we hope that the results presented in this review will also encourage others to explore how 'anisotropy' affects remaining aspects related to liquid-glass transition, like heterogeneity, glass transition temperature, glass forming ability, etc.
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Affiliation(s)
- A Grzybowski
- Institute of Physics, University of Silesia in Katowice, 41-500 Chorzów, Poland
| | - K Koperwas
- Institute of Physics, University of Silesia in Katowice, 41-500 Chorzów, Poland
| | - M Paluch
- Institute of Physics, University of Silesia in Katowice, 41-500 Chorzów, Poland
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Adorinni S, Gentile S, Bellotto O, Kralj S, Parisi E, Cringoli MC, Deganutti C, Malloci G, Piccirilli F, Pengo P, Vaccari L, Geremia S, Vargiu AV, De Zorzi R, Marchesan S. Peptide Stereochemistry Effects from p Ka-Shift to Gold Nanoparticle Templating in a Supramolecular Hydrogel. ACS NANO 2024; 18:3011-3022. [PMID: 38235673 DOI: 10.1021/acsnano.3c08004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2024]
Abstract
The divergent supramolecular behavior of a series of tripeptide stereoisomers was elucidated through spectroscopic, microscopic, crystallographic, and computational techniques. Only two epimers were able to effectively self-organize into amphipathic structures, leading to supramolecular hydrogels or crystals, respectively. Despite the similarity between the two peptides' turn conformations, stereoconfiguration led to different abilities to engage in intramolecular hydrogen bonding. Self-assembly further shifted the pKa value of the C-terminal side chain. As a result, across the pH range 4-6, only one epimer predominated sufficiently as a zwitterion to reach the critical molar fraction, allowing gelation. By contrast, the differing pKa values and higher dipole moment of the other epimer favored crystallization. The four stereoisomers were further tested for gold nanoparticle (AuNP) formation, with the supramolecular hydrogel being the key to control and stabilize AuNPs, yielding a nanocomposite that catalyzed the photodegradation of a dye. Importantly, the AuNP formation occurred without the use of reductants other than the peptide, and the redox chemistry was investigated by LC-MS, NMR, and infrared scattering-type near field optical microscopy (IR s-SNOM). This study provides important insights for the rational design of simple peptides as minimalistic and green building blocks for functional nanocomposites.
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Affiliation(s)
- Simone Adorinni
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Serena Gentile
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Ottavia Bellotto
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Slavko Kralj
- Materials Synthesis Department, Jožef Stefan Institute, 1000 Ljubljana, Slovenia
- Department of Pharmaceutical Technology, Faculty of Pharmacy, University of Ljubljana, 1000 Ljubljana, Slovenia
| | - Evelina Parisi
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Maria C Cringoli
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Caterina Deganutti
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Giuliano Malloci
- Physics Department, University of Cagliari, 09042 Monserrato, Cagliari, Italy
| | - Federica Piccirilli
- Elettra Sincrotrone Trieste, 34149 Basovizza, Italy
- Area Science Park, Padriciano 99, 34149 Trieste, Italy
| | - Paolo Pengo
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Lisa Vaccari
- Elettra Sincrotrone Trieste, 34149 Basovizza, Italy
| | - Silvano Geremia
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Attilio V Vargiu
- Physics Department, University of Cagliari, 09042 Monserrato, Cagliari, Italy
| | - Rita De Zorzi
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
| | - Silvia Marchesan
- Chemical Pharmaceutical Sciences Department, University of Trieste, 34127 Trieste, Italy
- Unit of Trieste, INSTM, 34127 Trieste, Italy
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Kaśkosz F, Koperwas K, Grzybowski A, Paluch M. The origin of the density scaling exponent for polyatomic molecules and the estimation of its value from the liquid structure. J Chem Phys 2023; 158:144503. [PMID: 37061492 DOI: 10.1063/5.0141975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/17/2023] Open
Abstract
In this article, we unravel the problem of interpreting the density scaling exponent for the polyatomic molecules representing the real van der Waals liquids. Our studies show that the density scaling exponent is a weighted average of the exponents of the repulsive terms of all interatomic interactions that occur between molecules, where the potential energy of a given interaction represents its weight. It implies that potential energy is a key quantity required to calculate the density scaling exponent value for real molecules. Finally, we use the well-known method for potential energy estimation and show that the density scaling exponent could be successfully predicted from the liquid structure for fair representatives of the real systems.
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Affiliation(s)
- F Kaśkosz
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
| | - K Koperwas
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
| | - A Grzybowski
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
| | - M Paluch
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
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Kaśkosz F, Koperwas K, Paluch M. The role of the excluded volume in the molecular dynamics for molecular systems revealed by the direct computational approach. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120321] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
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Koperwas K, Paluch M. Computational Evidence for the Crucial Role of Dipole Cross-Correlations in Polar Glass-Forming Liquids. PHYSICAL REVIEW LETTERS 2022; 129:025501. [PMID: 35867438 DOI: 10.1103/physrevlett.129.025501] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/08/2021] [Revised: 06/06/2022] [Accepted: 06/08/2022] [Indexed: 06/15/2023]
Abstract
In this Letter, we analyze the dipole-dipole correlations obtained from the molecular dynamics simulations for strongly and weakly polar model liquids. As a result, we find that the cross-correlations' contribution to the system's total dipole moment correlation function, which is directly measured in the dielectric spectroscopy experiment, is negligible for weakly polar liquids. In contrast, the cross-correlations' term dominates over the self-correlations' term for the examined strongly polar liquid. Consequently, our studies strongly support the interpretation of the dielectric spectra nature of glass-forming liquids recently proposed by Pabst et al.
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Affiliation(s)
- Kajetan Koperwas
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
| | - Marian Paluch
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland
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Koperwas K, Kaśkosz F, Affouard F, Grzybowski A, Paluch M. The role of the diffusion in the predictions of the classical nucleation theory for quasi-real systems differ in dipole moment value. Sci Rep 2022; 12:9552. [PMID: 35688874 PMCID: PMC9187745 DOI: 10.1038/s41598-022-13715-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2021] [Accepted: 04/20/2022] [Indexed: 12/03/2022] Open
Abstract
In this paper, we examine the crystallization tendency for two quasi-real systems, which differ exclusively in the dipole moment's value. The main advantage of the studied system is the fact that despite that their structures are entirely identical, they exhibit different physical properties. Hence, the results obtained for one of the proposed model systems cannot be scaled to reproduce the results for another corresponding system, as it can be done for simple model systems, where structural differences are modeled by the different parameters of the intermolecular interactions. Our results show that both examined systems exhibit similar stability behavior below the melting temperature. This finding is contrary to the predictions of the classical nucleation theory, which suggests a significantly higher crystallization tendency for a more polar system. Our studies indicate that the noted discrepancies are caused by the kinetic aspect of the classical nucleation theory, which overestimates the role of diffusion in the nucleation process.
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Affiliation(s)
- Kajetan Koperwas
- Institute of Physics, University of Silesia in Katowice, 75 Pułku Piechoty 1, 41-500, Chorzów, Poland.
| | - Filip Kaśkosz
- Institute of Physics, University of Silesia in Katowice, 75 Pułku Piechoty 1, 41-500, Chorzów, Poland.
| | - Frederic Affouard
- Université de Lille, CNRS, INRAE, Centrale Lille, UMR 8207-UMET-Unité Matériaux et Transformations, 59000, Lille, France
| | - Andrzej Grzybowski
- Institute of Physics, University of Silesia in Katowice, 75 Pułku Piechoty 1, 41-500, Chorzów, Poland
| | - Marian Paluch
- Institute of Physics, University of Silesia in Katowice, 75 Pułku Piechoty 1, 41-500, Chorzów, Poland
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Theoretical Study of Stability and Electronic Characteristics in Various Complexes of Psoralen as an Anticancer Drug in Gas Phase, Water and CCl4 Solutions. Chem Res Chin Univ 2022. [DOI: 10.1007/s40242-022-1475-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Koperwas K, Grzybowski A, Paluch M. Virial-potential-energy correlation and its relation to density scaling for quasireal model systems. Phys Rev E 2021; 102:062140. [PMID: 33466035 DOI: 10.1103/physreve.102.062140] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2020] [Accepted: 11/18/2020] [Indexed: 11/07/2022]
Abstract
In this paper, we examine the virial- and the potential-energy correlation for quasireal model systems. This correlation constitutes the framework of the theory of the isomorph in the liquid phase diagram commonly examined using simple liquids. Interestingly, our results show that for the systems characterized by structural anisotropy and flexible bonds, the instantaneous values of total virial and total potential energy are entirely uncorrelated. It is due to the presence of the intramolecular interactions because the contributions to the virial and potential energy resulting from the intermolecular interactions still exhibit strong linear dependence. Interestingly, in contrast to the results reported for simple liquids, the slope of the mentioned linear dependence is different than the values of the density scaling exponent. However, our findings show that for quasireal materials, the slope of dependence between the virial and potential energy (resulting from the intermolecular interactions) strongly depends on the interval of intermolecular distances that are taken into account. Consequently, the value of the slope of the discussed relationship, which enables satisfactory density scaling, can be obtained. Interestingly, this conclusion is supported by the results obtained for analogous systems without intermolecular attraction, for which the value the slope of the virial-potential-energy correlation is independent of considered intermolecular distances, directly corresponds to the exponent of the intermolecular repulsion, and finally leads to accurate density scaling.
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Affiliation(s)
- K Koperwas
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland and Silesian Center for Education and Interdisciplinary Research SMCEBI, 75 Pułku Piechoty 1a, 41-500 Chorzów, Poland
| | - A Grzybowski
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland and Silesian Center for Education and Interdisciplinary Research SMCEBI, 75 Pułku Piechoty 1a, 41-500 Chorzów, Poland
| | - M Paluch
- University of Silesia in Katowice, Institute of Physics, 75 Pułku Piechoty 1, 41-500 Chorzów, Poland and Silesian Center for Education and Interdisciplinary Research SMCEBI, 75 Pułku Piechoty 1a, 41-500 Chorzów, Poland
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Phan AD, Koperwas K, Paluch M, Wakabayashi K. Coupling between structural relaxation and diffusion in glass-forming liquids under pressure variation. Phys Chem Chem Phys 2020; 22:24365-24371. [DOI: 10.1039/d0cp02761h] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We theoretically investigate structural relaxation and activated diffusion of glass-forming liquids at different pressures using both Elastically Collective Nonlinear Langevin Equation (ECNLE) theory and molecular dynamics (MD) simulations.
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Affiliation(s)
- Anh D. Phan
- Faculty of Materials Science and Engineering
- Phenikaa Institute for Advanced Study
- Phenikaa University
- Hanoi 12116
- Vietnam
| | - Kajetan Koperwas
- University of Silesia in Katowice
- Institute of Physics
- Chorzow
- Poland
- Silesian Center for Education and Interdisciplinary Research SMCEBI
| | - Marian Paluch
- University of Silesia in Katowice
- Institute of Physics
- Chorzow
- Poland
- Silesian Center for Education and Interdisciplinary Research SMCEBI
| | - Katsunori Wakabayashi
- Department of Nanotechnology for Sustainable Energy
- School of Science and Technology
- Kwansei Gakuin University
- Sanda
- Japan
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