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Romero Garcia S, Zholdassov YS, Braunschweig AB, Martini A. Reactive Simulations of Silica Functionalization with Aromatic Hydrocarbons. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:561-567. [PMID: 38112539 DOI: 10.1021/acs.langmuir.3c02785] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2023]
Abstract
Reactive molecular dynamics simulations are used to model the covalent functionalization of amorphous silica with aromatic hydrocarbons. Simulations show that the surface density of silanol-terminated phenyl, naphthyl, and anthracenyl molecules is lower than the maximum value calculated based on molecule geometry, and the simulation densities decrease faster with the number of aromatic rings than the geometric densities. The trends are analyzed in terms of the surface-silanol bonding configurations, tilt angles, local conformational ordering, and aggregation of surface-bound molecules under steady-state conditions. Results show that the surface density is affected by both the size and symmetry of the aromatic hydrocarbons. The correlations among bonding, orientation, and surface density identified here may guide the selection or design of molecules for functionalized surfaces.
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Affiliation(s)
- Sergio Romero Garcia
- Department of Materials and Biomaterials Science and Engineering, University of California Merced, 5200 N. Lake Road, Merced, California 95343, United States
| | - Yerzhan S Zholdassov
- The Advanced Science Research Center at the Graduate Center of the City University of New York, 85 St. Nicholas Terrace, New York, New York 10031, United States
- Department of Chemistry, Hunter College, 695 Park Avenue, New York, New York 10065, United States
- The Ph.D. Program in Chemistry, Graduate Center of the City University of New York, 365 Fifth Avenue, New York, New York 10016, United States
| | - Adam B Braunschweig
- The Advanced Science Research Center at the Graduate Center of the City University of New York, 85 St. Nicholas Terrace, New York, New York 10031, United States
- Department of Chemistry, Hunter College, 695 Park Avenue, New York, New York 10065, United States
- The Ph.D. Program in Chemistry, Graduate Center of the City University of New York, 365 Fifth Avenue, New York, New York 10016, United States
| | - Ashlie Martini
- Department of Mechanical Engineering, University of California Merced, 5200 N. Lake Road, Merced, California 95343, United States
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Ilyas M, Mian SA, Rauf A, Ahmed E, Rahman G, Sannyal A, Jang J. Stimulated reversal of the strong adhesion of catechol onto a silica surface. B KOREAN CHEM SOC 2021. [DOI: 10.1002/bkcs.12454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Muhammad Ilyas
- Department of Physics University of Peshawar Peshawar Pakistan
| | | | - Abdur Rauf
- Department of Physics Islamia College University Peshawar Pakistan
| | - Ejaz Ahmed
- Department of Physics Abdul Wali Khan University Mardan Pakistan
| | - Gul Rahman
- Institute of Chemical Sciences University of Peshawar Peshawar Pakistan
| | - Arindam Sannyal
- Department of Nanoenergy Engineering Pusan National University Busan South Korea
| | - Joonkyung Jang
- Department of Nanoenergy Engineering Pusan National University Busan South Korea
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Song W, Ko J, Choi YH, Hwang NS. Recent advancements in enzyme-mediated crosslinkable hydrogels: In vivo-mimicking strategies. APL Bioeng 2021; 5:021502. [PMID: 33834154 PMCID: PMC8018798 DOI: 10.1063/5.0037793] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 03/03/2021] [Indexed: 12/19/2022] Open
Abstract
Enzymes play a central role in fundamental biological processes and have been traditionally used to trigger various processes. In recent years, enzymes have been used to tune biomaterial responses and modify the chemical structures at desired sites. These chemical modifications have allowed the fabrication of various hydrogels for tissue engineering and therapeutic applications. This review provides a comprehensive overview of recent advancements in the use of enzymes for hydrogel fabrication. Strategies to enhance the enzyme function and improve biocompatibility are described. In addition, we describe future opportunities and challenges for the production of enzyme-mediated crosslinkable hydrogels.
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Affiliation(s)
- Wonmoon Song
- School of Chemical and Biological Engineering, Institute of Chemical Processes, Seoul National University, Seoul 08826, Republic of Korea
| | - Junghyeon Ko
- School of Chemical and Biological Engineering, Institute of Chemical Processes, Seoul National University, Seoul 08826, Republic of Korea
| | - Young Hwan Choi
- School of Chemical and Biological Engineering, Institute of Chemical Processes, Seoul National University, Seoul 08826, Republic of Korea
| | - Nathaniel S. Hwang
- Author to whom correspondence should be addressed:. Tel.: 82-2-880-1635. Fax: 82-2-880-7295
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Pantaleone S, Rimola A, Sodupe M. Canonical, deprotonated, or zwitterionic? II. A computational study on amino acid interaction with the TiO 2(110) rutile surface: comparison with the anatase (101) surface. Phys Chem Chem Phys 2020; 22:16862-16876. [PMID: 32666992 DOI: 10.1039/d0cp01429j] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The adsorption of 11 amino acids (Gly, Leu, Met, Phe, Ser, Cys, Glu, Gln, Arg, Lys, and His) on the TiO2(110) rutile surface is investigated adopting a theoretical approach, using the PBE-D2* functional as implemented in the periodic VASP code. The adsorption of the amino acids is considered in their canonical, deprotonated and zwitterionic forms. For all cases, the most stable adsorption mode adopts a bidentate (O,O) binding with surface undercoordinated Ti atoms, in agreement with previous experimental and computational studies using glycine as a test case. Such a binding mode is possible due to the surface morphology, because the Ti-Ti distances match very well with the carboxylic O-O distance. The most stable adsorption states are the deprotonated and the zwitterionic ones, the canonical one lying significantly above in energy. The relative stability between the deprotonated and the zwitterionic states results in a delicate trade-off among dative interactions (O, N, and S atoms of the amino acids with Ti atoms of the surface), H-bond interactions, dispersive forces and, to a lesser extent, steric hindrance of the amino acidic lateral chains. Finally, the difference in the amino acid adsorption between the (110) rutile and the (101) anatase surfaces is discussed both from the energetic and surface morphological standpoints, highlighting the larger reactivity of the rutile polymorph in adsorbing and deprotonating the amino acids compared with the anatase one.
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Affiliation(s)
- S Pantaleone
- Departament de Química, Universitat Autònoma de Barcelona, 08193 Bellaterra, Catalonia, Spain.
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Giussani L, Tabacchi G, Coluccia S, Fois E. Confining a Protein-Containing Water Nanodroplet inside Silica Nanochannels. Int J Mol Sci 2019; 20:E2965. [PMID: 31216631 PMCID: PMC6627703 DOI: 10.3390/ijms20122965] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2019] [Revised: 06/10/2019] [Accepted: 06/14/2019] [Indexed: 02/01/2023] Open
Abstract
Incorporation of biological systems in water nanodroplets has recently emerged as a new frontier to investigate structural changes of biomolecules, with perspective applications in ultra-fast drug delivery. We report on the molecular dynamics of the digestive protein Pepsin subjected to a double confinement. The double confinement stemmed from embedding the protein inside a water nanodroplet, which in turn was caged in a nanochannel mimicking the mesoporous silica SBA-15. The nano-bio-droplet, whose size fits with the pore diameter, behaved differently depending on the protonation state of the pore surface silanols. Neutral channel sections allowed for the droplet to flow, while deprotonated sections acted as anchoring piers for the droplet. Inside the droplet, the protein, not directly bonded to the surface, showed a behavior similar to that reported for bulk water solutions, indicating that double confinement should not alter its catalytic activity. Our results suggest that nanobiodroplets, recently fabricated in volatile environments, can be encapsulated and stored in mesoporous silicas.
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Affiliation(s)
- Lara Giussani
- Dipartimento di Scienza e Alta Tecnologia and INSTM udr Como, Insubria University, Via Valleggio 9, I-22100 Como, Italy.
| | - Gloria Tabacchi
- Dipartimento di Scienza e Alta Tecnologia and INSTM udr Como, Insubria University, Via Valleggio 9, I-22100 Como, Italy.
| | - Salvatore Coluccia
- Dipartimento di Chimica, Turin University, Via P. Giuria 7, I-10125 Turin, Italy.
| | - Ettore Fois
- Dipartimento di Scienza e Alta Tecnologia and INSTM udr Como, Insubria University, Via Valleggio 9, I-22100 Como, Italy.
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Czuba U, Quintana R, De Pauw-Gillet MC, Bourguignon M, Moreno-Couranjou M, Alexandre M, Detrembleur C, Choquet P. Atmospheric Plasma Deposition of Methacrylate Layers Containing Catechol/Quinone Groups: An Alternative to Polydopamine Bioconjugation for Biomedical Applications. Adv Healthc Mater 2018; 7:e1701059. [PMID: 29577666 DOI: 10.1002/adhm.201701059] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Revised: 12/22/2017] [Indexed: 01/08/2023]
Abstract
Bioconjugation of enzymes on coatings based on polydopamine (PDA) layers is an appealing approach to control biological responses on biomedical implant surfaces. As alternative to PDA wet deposition, a fast, solvent-free, and dynamic deposition approach based on atmospheric-pressure plasma dielectric barrier discharge process is considered to deposit on metallic surfaces acrylic-based interlayers containing highly chemically reactive catechol/quinone groups. A biomimetic approach based on covalent immobilization of Dispersin B, an enzyme with antibiofilm properties, shows the bioconjugation potential of the novel plasma polymer layers. The excellent antibiofilm activity against Staphylococcus epidermidis is comparable to the PDA-based layers prepared by wet chemical methods with slow deposition rates. A study of preosteoblastic MG-63 human cell line viability and adhesion properties on plasma polymer layers demonstrates early interaction required for biomedical applications.
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Affiliation(s)
- Urszula Czuba
- Materials Research and Technology Department; Luxembourg Institute of Science and Technology (LIST); L-4422 Belvaux Luxembourg
- Chemistry Department, Center for Education and Research on Macromolecules (CERM); CESAM Research Unit; University of Liege; 4000 Liège Belgium
| | - Robert Quintana
- Materials Research and Technology Department; Luxembourg Institute of Science and Technology (LIST); L-4422 Belvaux Luxembourg
| | | | - Maxime Bourguignon
- Chemistry Department, Center for Education and Research on Macromolecules (CERM); CESAM Research Unit; University of Liege; 4000 Liège Belgium
- Symbiose Biomaterials s.a.; 4000 Liège Belgium
| | - Maryline Moreno-Couranjou
- Materials Research and Technology Department; Luxembourg Institute of Science and Technology (LIST); L-4422 Belvaux Luxembourg
| | | | - Christophe Detrembleur
- Chemistry Department, Center for Education and Research on Macromolecules (CERM); CESAM Research Unit; University of Liege; 4000 Liège Belgium
| | - Patrick Choquet
- Materials Research and Technology Department; Luxembourg Institute of Science and Technology (LIST); L-4422 Belvaux Luxembourg
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Abstract
Empty spaces are abhorred by nature, which immediately rushes in to fill the void. Humans have learnt pretty well how to make ordered empty nanocontainers, and to get useful products out of them. When such an order is imparted to molecules, new properties may appear, often yielding advanced applications. This review illustrates how the organized void space inherently present in various materials: zeolites, clathrates, mesoporous silica/organosilica, and metal organic frameworks (MOF), for example, can be exploited to create confined, organized, and self-assembled supramolecular structures of low dimensionality. Features of the confining matrices relevant to organization are presented with special focus on molecular-level aspects. Selected examples of confined supramolecular assemblies - from small molecules to quantum dots or luminescent species - are aimed to show the complexity and potential of this approach. Natural confinement (minerals) and hyperconfinement (high pressure) provide further opportunities to understand and master the atomistic-level interactions governing supramolecular organization under nanospace restrictions.
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Affiliation(s)
- Gloria Tabacchi
- Department of Science and High Technology, University of Insubria, Via Valleggio, 9 I-22100, Como, Italy
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Chandramouli B, Del Galdo S, Mancini G, Tasinato N, Barone V. Tailor-made computational protocols for precise characterization of small biological building blocks using QM and MM approaches. Biopolymers 2018. [DOI: 10.1002/bip.23109] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Balasubramanian Chandramouli
- Scuola Normale Superiore, Piazza dei Cavalieri 7; Pisa 56126 Italy
- Compunet, Istituto Italiano di Tecnologia, via Morego 30; Genova Italy
| | - Sara Del Galdo
- Scuola Normale Superiore, Piazza dei Cavalieri 7; Pisa 56126 Italy
| | - Giordano Mancini
- Scuola Normale Superiore, Piazza dei Cavalieri 7; Pisa 56126 Italy
- Istituto Nazionale di Fisica Nucleare (INFN) sezione di Pisa, Largo Bruno Pontecorvo 3; Pisa 56127 Italy
| | - Nicola Tasinato
- Scuola Normale Superiore, Piazza dei Cavalieri 7; Pisa 56126 Italy
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7; Pisa 56126 Italy
- Istituto Nazionale di Fisica Nucleare (INFN) sezione di Pisa, Largo Bruno Pontecorvo 3; Pisa 56127 Italy
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