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Carrillo-Berdugo I, Navas J, Grau-Crespo R. Probing the thermal resistance of solid-liquid interfaces in nanofluids with molecular dynamics. J Chem Phys 2024; 160:014706. [PMID: 38174796 DOI: 10.1063/5.0177616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Accepted: 12/10/2023] [Indexed: 01/05/2024] Open
Abstract
The significance of interfacial thermal resistance in the thermal conductivity of nanofluids is not well understood, in part because of the absence of measurements of this quantity. Here, we study the interfacial thermal resistance for metal-oil nanofluids of interest as heat transfer fluids for concentrating solar power, using density functional theory and molecular dynamics simulations. Insights on the role of chemical interactions in determining the interfacial thermal resistance are revealed. The results presented here showcase a general picture in which the stronger the chemical interactions between species at the interface, the lower the associated interfacial thermal resistance. The implications toward nanofluid design are discussed. We show that, for this important family of metal-oil nanofluids, the interfacial thermal resistance values are low enough so that it is possible to afford a reduction in particle size, minimizing stability and rheological issues while still offering enhancement in the effective thermal conductivity with respect to the base fluid.
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Affiliation(s)
- Iván Carrillo-Berdugo
- Department of Physical Chemistry, Faculty of Sciences, University of Cadiz, 11510 Puerto Real, Cádiz, Spain
- Department of Chemistry, University of Reading, Whiteknights RG6 6DX, Reading, United Kingdom
| | - Javier Navas
- Department of Physical Chemistry, Faculty of Sciences, University of Cadiz, 11510 Puerto Real, Cádiz, Spain
| | - Ricardo Grau-Crespo
- Department of Chemistry, University of Reading, Whiteknights RG6 6DX, Reading, United Kingdom
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2
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Wang L, Tan JM, Chen Y, Chen MF, Wong MW. Dispersion-Corrected DFT-D4 Study of the Adsorption of Halobenzenes and 1,3,5-Trihalobenzenes on the Cu(111) Surface─Effect of Sigma Hole Properties. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023. [PMID: 37473457 DOI: 10.1021/acs.langmuir.3c00918] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/22/2023]
Abstract
Halogen bonds, characterized by directionality, tunability, hydrophobicity, and variable sizes, are ideal noncovalent interactions to design and control the formation of self-assembled nanostructures. The specific self-assembly cases formed by the halogen-bonding interaction have been well studied by scanning tunneling microscopy (STM) experiments and density functional theory (DFT) calculations. However, there is a lack of systematic theoretical adsorption studies on halogenated molecules. In this work, the adsorption of halobenzenes and 1,3,5-trihalobenzenes on the Cu(111) surface was examined by dispersion-corrected DFT methods. The adsorption geometries, noncovalent molecule-surface interactions, electronic densities, and electrostatic potential maps were examined for their most stable adsorption sites using the DFT-D4 method. Our calculations revealed that the iodo compounds favor a different adsorption geometry from aryl chlorides and bromides. Down the halogen group (Cl to I), the adsorption energy increases and the distance between the halogen atom and Cu surface decreases, which indicates stronger molecule-surface interactions. This is supported by the changes in the density of states upon adsorption. Noncovalent interaction analysis was also employed to further understand the nature and relative strength of the molecule-surface interactions. Electrostatic potential maps revealed that the positive character of the halogen sigma hole becomes stronger upon adsorption. Thus, surface adsorption of the halogenated molecule will enhance the formation of intermolecular halogen bonds. The present theoretical findings are expected to contribute toward a more comprehensive understanding of halogen bonding on the Cu(111) surface.
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Affiliation(s)
- Lulu Wang
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Jun Min Tan
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Yingqian Chen
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Meng-Fu Chen
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Ming Wah Wong
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
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3
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Hessou EP, Jabraoui H, Hounguè MTAK, Mensah JB, Pastore M, Badawi M. A first principle evaluation of the adsorption mechanism and stability of volatile organic compounds into NaY zeolite. ACTA ACUST UNITED AC 2019. [DOI: 10.1515/zkri-2019-0003] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Removal of volatile organic compounds (VOCs) from indoor or outdoor environments is an urgent challenge for the protection of human populations. Inorganic sorbents such as zeolites are a promising solution to tackle this issue. Using dispersion corrected periodic DFT calculations, we have studied the interaction between sodium-exchanged faujasite zeolite and a large set of VOCs including aromatics, oxygenates and chlorinated compounds. The computed interaction energies range from about −25 (methane) to −130 kJ/mol (styrene). Methane is by far the less interacting specie with the NaY zeolite. All other VOCs present interaction energies higher in absolute value than 69 kJ/mol. Most of them show a similar adsorption strength, between −70 and −100 kJ/mol. While the electrostatic interactions are important in the case of oxygenates and acrylonitrile, van der Waals interactions predominate in hydrocarbons and chlorides. By monitoring the variation of molecular bond lengths of the different VOCs before and after adsorption, we have then evaluated the tendency of adsorbate to react and form by-products, since a significant stretching would evidently lead to the activation of the bond. While hydrocarbons, tetrachloroethylene and acrylonitrile seem to be not activated upon adsorption, all oxygenates and 1,1,2-trichloroethane could possibly react once adsorbed.
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Affiliation(s)
- Etienne P. Hessou
- Laboratoire de Physique et Chimie Théoriques, CNRS, Université de Lorraine, Faculté des Sciences et Technologies, Boulevard des Aiguillettes , 54500 Vandoeuvre-lès-Nancy , Nancy , France
- Laboratoire de Chimie Théorique et de Spectroscopie Moléculaire, Université d’Abomey-Calavi , Abomey Calavi , Bénin
| | - Hicham Jabraoui
- Laboratoire de Physique et Chimie Théoriques, CNRS, Université de Lorraine, Faculté des Sciences et Technologies, Boulevard des Aiguillettes , 54500 Vandoeuvre-lès-Nancy , Nancy , France
| | - M. T. Alice Kpota Hounguè
- Laboratoire de Chimie Théorique et de Spectroscopie Moléculaire, Université d’Abomey-Calavi , Abomey Calavi , Bénin
| | - Jean-Baptiste Mensah
- Laboratoire de Chimie Théorique et de Spectroscopie Moléculaire, Université d’Abomey-Calavi , Abomey Calavi , Bénin
| | - Mariachiara Pastore
- Laboratoire de Physique et Chimie Théoriques, CNRS, Université de Lorraine, Faculté des Sciences et Technologies, Boulevard des Aiguillettes , 54500 Vandoeuvre-lès-Nancy , Nancy , France
| | - Michael Badawi
- Laboratoire de Physique et Chimie Théoriques, CNRS, Université de Lorraine, Faculté des Sciences et Technologies, Boulevard des Aiguillettes , 54500 Vandoeuvre-lès-Nancy , Nancy , France
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4
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5
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Hermann J, DiStasio RA, Tkatchenko A. First-Principles Models for van der Waals Interactions in Molecules and Materials: Concepts, Theory, and Applications. Chem Rev 2017; 117:4714-4758. [PMID: 28272886 DOI: 10.1021/acs.chemrev.6b00446] [Citation(s) in RCA: 255] [Impact Index Per Article: 36.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
Noncovalent van der Waals (vdW) or dispersion forces are ubiquitous in nature and influence the structure, stability, dynamics, and function of molecules and materials throughout chemistry, biology, physics, and materials science. These forces are quantum mechanical in origin and arise from electrostatic interactions between fluctuations in the electronic charge density. Here, we explore the conceptual and mathematical ingredients required for an exact treatment of vdW interactions, and present a systematic and unified framework for classifying the current first-principles vdW methods based on the adiabatic-connection fluctuation-dissipation (ACFD) theorem (namely the Rutgers-Chalmers vdW-DF, Vydrov-Van Voorhis (VV), exchange-hole dipole moment (XDM), Tkatchenko-Scheffler (TS), many-body dispersion (MBD), and random-phase approximation (RPA) approaches). Particular attention is paid to the intriguing nature of many-body vdW interactions, whose fundamental relevance has recently been highlighted in several landmark experiments. The performance of these models in predicting binding energetics as well as structural, electronic, and thermodynamic properties is connected with the theoretical concepts and provides a numerical summary of the state-of-the-art in the field. We conclude with a roadmap of the conceptual, methodological, practical, and numerical challenges that remain in obtaining a universally applicable and truly predictive vdW method for realistic molecular systems and materials.
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Affiliation(s)
- Jan Hermann
- Fritz-Haber-Institut der Max-Planck-Gesellschaft , Faradayweg 4-6, 14195 Berlin, Germany
| | - Robert A DiStasio
- Department of Chemistry and Chemical Biology, Cornell University , Ithaca, New York 14853, United States
| | - Alexandre Tkatchenko
- Fritz-Haber-Institut der Max-Planck-Gesellschaft , Faradayweg 4-6, 14195 Berlin, Germany.,Physics and Materials Science Research Unit, University of Luxembourg , L-1511 Luxembourg, Luxembourg
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6
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Christian MS, Otero-de-la-Roza A, Johnson ER. Surface Adsorption from the Exchange-Hole Dipole Moment Dispersion Model. J Chem Theory Comput 2016; 12:3305-15. [PMID: 27253340 DOI: 10.1021/acs.jctc.6b00222] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The accurate calculation of intermolecular interaction energies with density functional theory requires methods that include a treatment of long-range, nonlocal dispersion correlation. In this work, we explore the ability of the exchange-hole dipole moment (XDM) dispersion correction to model molecular surface adsorption. Adsorption energies are calculated for six small aromatic molecules (benzene, furan, pyridine, thiophene, thiophenol, and benzenediamine) and the four DNA nucleobases (adenine, thymine, guanine, and cytosine) on the (111) surfaces of the three coinage metals (copper, silver, and gold). For benzene, where the experimental reference data is most precise, the mean absolute error in the computed absorption energies is 0.04 eV. For the other aromatic molecules, the computed binding energies are found to be within 0.09 eV of the available reference data, on average, which is well below the expected experimental uncertainties for temperature-programmed desorption measurements. Unlike other dispersion-corrected functionals, adequate performance does not require changes to the canonical XDM implementation, and the good performance of XDM is explained in terms of the behavior of the exchange hole. Additionally, the base functional employed (B86bPBE) is also optimal for molecular studies, making B86bPBE-XDM an excellent candidate for studying chemistry on material surfaces. Finally, the noncovalent interaction (NCI) plot technique is shown to detect adsorption effects in real space on the order of tenths of an eV.
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Affiliation(s)
- Matthew S Christian
- Department of Chemistry, Dalhousie University , 6274 Coburg Road, Halifax, Nova Scotia B3H 4R2, Canada
| | - Alberto Otero-de-la-Roza
- Department of Chemistry, University of British Columbia, Okanagan , 3247 University Way, Kelowna, British Columbia V1V 1V7, Canada
| | - Erin R Johnson
- Department of Chemistry, Dalhousie University , 6274 Coburg Road, Halifax, Nova Scotia B3H 4R2, Canada
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7
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Charchar P, Christofferson AJ, Todorova N, Yarovsky I. Understanding and Designing the Gold-Bio Interface: Insights from Simulations. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 12:2395-418. [PMID: 27007031 DOI: 10.1002/smll.201503585] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2015] [Revised: 02/01/2016] [Indexed: 05/20/2023]
Abstract
Gold nanoparticles (AuNPs) are an integral part of many exciting and novel biomedical applications, sparking the urgent need for a thorough understanding of the physicochemical interactions occurring between these inorganic materials, their functional layers, and the biological species they interact with. Computational approaches are instrumental in providing the necessary molecular insight into the structural and dynamic behavior of the Au-bio interface with spatial and temporal resolutions not yet achievable in the laboratory, and are able to facilitate a rational approach to AuNP design for specific applications. A perspective of the current successes and challenges associated with the multiscale computational treatment of Au-bio interfacial systems, from electronic structure calculations to force field methods, is provided to illustrate the links between different approaches and their relationship to experiment and applications.
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Affiliation(s)
- Patrick Charchar
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | | | - Nevena Todorova
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | - Irene Yarovsky
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
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8
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Arado OD, Luft M, Mönig H, Held PA, Studer A, Amirjalayer S, Fuchs H. Understanding molecular self-assembly of a diol compound by considering competitive interactions. Phys Chem Chem Phys 2016; 18:27390-27395. [DOI: 10.1039/c6cp05818c] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
With a combination of scanning tunneling microscopy and density functional theory, effects on molecular self-assembly involving two distinct chemical groups were investigated.
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Affiliation(s)
- Oscar Díaz Arado
- Physikalisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
- Center for Nanotechnology (CeNTech)
| | - Maike Luft
- Physikalisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
- Center for Nanotechnology (CeNTech)
| | - Harry Mönig
- Physikalisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
- Center for Nanotechnology (CeNTech)
| | - Philipp Alexander Held
- Organisch-Chemisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
| | - Armido Studer
- Organisch-Chemisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
| | - Saeed Amirjalayer
- Physikalisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
- Center for Nanotechnology (CeNTech)
| | - Harald Fuchs
- Physikalisches Institut
- Westfälische Wilhelms-Universität Münster
- 48149 Münster
- Germany
- Center for Nanotechnology (CeNTech)
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9
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Yuan M, Tanabe I, Bernard-Schaaf JM, Shi QY, Schlegel V, Schurhammer R, Dowben PA, Doudin B, Routaboul L, Braunstein P. Influence of steric hindrance on the molecular packing and the anchoring of quinonoid zwitterions on gold surfaces. NEW J CHEM 2016. [DOI: 10.1039/c5nj03251b] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The N-substituent on quinonoid zwitterions influences the molecules packing and impacts their anchoring on gold surfaces.
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10
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Davis JBA, Baletto F, Johnston RL. The Effect of Dispersion Correction on the Adsorption of CO on Metallic Nanoparticles. J Phys Chem A 2015; 119:9703-9. [PMID: 26320360 DOI: 10.1021/acs.jpca.5b05710] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jack B. A. Davis
- School
of Chemistry, University of Birmingham, Birmingham, West Midlands B15 2TT, United Kingdom
| | - Francesca Baletto
- Department
of Physics, Kings College London, London WC2R 2LS, United Kingdom
| | - Roy L. Johnston
- School
of Chemistry, University of Birmingham, Birmingham, West Midlands B15 2TT, United Kingdom
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11
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Detection of structurally similar adulterants in botanical dietary supplements by thin-layer chromatography and surface enhanced Raman spectroscopy combined with two-dimensional correlation spectroscopy. Anal Chim Acta 2015; 883:22-31. [DOI: 10.1016/j.aca.2015.04.017] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2014] [Revised: 04/07/2015] [Accepted: 04/08/2015] [Indexed: 11/22/2022]
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12
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Lemke S, Chang CH, Jung U, Magnussen OM. Reversible potential-induced switching of alkyl chain aggregation in octyl-triazatriangulenium adlayers on Au(111). LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:3115-3124. [PMID: 25700185 DOI: 10.1021/acs.langmuir.5b00545] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
In situ scanning tunneling microscopy and cyclic voltammetry studies of self-assembled octyl-triazatriangulenium monolayers on Au(111) electrode surfaces in 0.1 M HClO4 reveal a complex surface phase behavior, involving two fast, highly reversible transitions between different ordered adlayer phases: With decreasing potential, the preadsorbed (√19 × √19)R23.4° adlayer first is converted into a (7√3 × 7√3) and then into a (2√3 × 2√3)R30° phase, corresponding to a stepwise increase in the local packing density of the molecules. The (7√3 × 7√3) → (2√3 × 2√3)R30° transition is accompanied by a reorientation of the peripheral octyl chains from a more planar to a close-packed vertical arrangement. This reversible potential-induced switching between a homogeneous adlayer of small vertical extension and a Au surface partially covered by islands of a compact hydrocarbon layer is attributed to changes in the adsorbate charge state and associated changes in the intermolecular interactions.
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Affiliation(s)
- Sonja Lemke
- Institute for Experimental and Applied Physics, Kiel University, Leibnizstraße 19, 24118 Kiel, Germany
| | - Chi-Hao Chang
- Institute for Experimental and Applied Physics, Kiel University, Leibnizstraße 19, 24118 Kiel, Germany
| | - Ulrich Jung
- Institute for Experimental and Applied Physics, Kiel University, Leibnizstraße 19, 24118 Kiel, Germany
| | - Olaf M Magnussen
- Institute for Experimental and Applied Physics, Kiel University, Leibnizstraße 19, 24118 Kiel, Germany
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13
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Miller DP, Simpson S, Tymińska N, Zurek E. Benzene derivatives adsorbed to the Ag(111) surface: Binding sites and electronic structure. J Chem Phys 2015; 142:101924. [DOI: 10.1063/1.4908267] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023] Open
Affiliation(s)
- Daniel P. Miller
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA
| | - Scott Simpson
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA
- School of Science, Penn State Erie, The Behrend College, 4205 College Drive, Erie, Pennsylvania 16563, USA
| | - Nina Tymińska
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA
| | - Eva Zurek
- Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA
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14
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Pivetta M, Pacchioni GE, Fernandes E, Brune H. Temperature-dependent self-assembly of NC–Ph5–CN molecules on Cu(111). J Chem Phys 2015; 142:101928. [DOI: 10.1063/1.4909518] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Marina Pivetta
- Institute of Condensed Matter Physics, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Giulia E. Pacchioni
- Institute of Condensed Matter Physics, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Edgar Fernandes
- Institute of Condensed Matter Physics, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Harald Brune
- Institute of Condensed Matter Physics, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
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15
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Kunkel DA, Hooper J, Simpson S, Miller DP, Routaboul L, Braunstein P, Doudin B, Beniwal S, Dowben P, Skomski R, Zurek E, Enders A. Self-assembly of strongly dipolar molecules on metal surfaces. J Chem Phys 2015; 142:101921. [DOI: 10.1063/1.4907943] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Donna A. Kunkel
- Department of Physics, University of Nebraska-Lincoln, Lincoln, Nebraska 68588, USA
| | - James Hooper
- Department of Theoretical Chemistry, Faculty of Chemistry, Jagiellonian University, 30-060 Krakow, Poland
| | - Scott Simpson
- Department of Chemistry, 331 Natural Sciences Complex, Buffalo, New York 14260, USA
- School of Science, Penn State Erie, The Behrend College, 28 Hammermill, Erie, Pennsylvania 16563, USA
| | - Daniel P. Miller
- Department of Chemistry, 331 Natural Sciences Complex, Buffalo, New York 14260, USA
| | - Lucie Routaboul
- Lab de Chimie de Coordination, Institut de Chimie (UMR 7177 CNRS), Université de Strasbourg, 67081 Strasbourg, France
| | - Pierre Braunstein
- Lab de Chimie de Coordination, Institut de Chimie (UMR 7177 CNRS), Université de Strasbourg, 67081 Strasbourg, France
| | - Bernard Doudin
- Institut de Physique et Chimie des Mateŕiaux de Strasbourg (IPCMS UMR 7504 CNRS) and Lab of Nanostructures in Interactions with their Environment (NIE), Université de Strasbourg, 23 Rue du Loess, 67034 Strasbourg, France
| | - Sumit Beniwal
- Department of Physics, University of Nebraska-Lincoln, Lincoln, Nebraska 68588, USA
| | - Peter Dowben
- Department of Physics, University of Nebraska-Lincoln, Lincoln, Nebraska 68588, USA
| | - Ralph Skomski
- Department of Physics, University of Nebraska-Lincoln, Lincoln, Nebraska 68588, USA
| | - Eva Zurek
- Department of Chemistry, 331 Natural Sciences Complex, Buffalo, New York 14260, USA
| | - Axel Enders
- Department of Physics, University of Nebraska-Lincoln, Lincoln, Nebraska 68588, USA
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16
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Carter DJ, Rohl AL. van der Waals corrected density functional calculations of the adsorption of benzene on the Cu (111) surface. J Comput Chem 2014. [DOI: 10.1002/jcc.23745] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Damien J. Carter
- Department of Chemistry and Nanochemistry Research Institute; Curtin University; GPO Box U1987, Perth, Western Australia 6845 Australia
| | - Andrew L. Rohl
- Department of Chemistry and Nanochemistry Research Institute; Curtin University; GPO Box U1987, Perth, Western Australia 6845 Australia
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17
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Adsorption of small aromatic molecules on gold: a DFT localized basis set study including van der Waals effects. Theor Chem Acc 2014. [DOI: 10.1007/s00214-014-1502-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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18
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Hughes ZE, Wright LB, Walsh TR. Biomolecular adsorption at aqueous silver interfaces: first-principles calculations, polarizable force-field simulations, and comparisons with gold. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:13217-13229. [PMID: 24079907 DOI: 10.1021/la402839q] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
The molecular simulation of biomolecules adsorbed at noble metal interfaces can assist in the development of bionanotechnology applications. In line with advances in polarizable force fields for adsorption at aqueous gold interfaces, there is scope for developing a similar force field for silver. One way to accomplish this is via the generation of in vacuo adsorption energies calculated using first-principles approaches for a wide range of different but biologically relevant small molecules, including water. Here, we present such first-principles data for a comprehensive range of bio-organic molecules obtained from plane-wave density functional theory calculations using the vdW-DF functional. As reported previously for the gold force field, GolP-CHARMM (Wright, L. B.; Rodger, P. M.; Corni, S.; Walsh, T. R. GolP-CHARMM: first-principles based force-fields for the interaction of proteins with Au(111) and Au(100). J. Chem. Theory Comput. 2013, 9, 1616-1630), we have used these data to construct a a new force field, AgP-CHARMM, suitable for the simulation of biomolecules at the aqueous Ag(111) and Ag(100) interfaces. This force field is derived to be consistent with GolP-CHARMM such that adsorption on Ag and Au can be compared on an equal footing. Our force fields are used to evaluate the water overlayer stability on both silver and gold, finding good agreement with known behaviors. We also calculate and compare the structuring (spatial and orientational) of liquid water adsorbed at both silver and gold. Finally, we report the adsorption free energy of a range of amino acids at both the Au(111) and Ag(111) aqueous interfaces, calculated using metadynamics. Stronger adsorption on gold was noted in most cases, with the exception being the carboxylate group present in aspartic acid. Our findings also indicate differences in the binding free energy profile between silver and gold for some amino acids, notably for His and Arg. Our analysis suggests that the relatively stronger structuring of the first water layer on silver, relative to gold, could give rise to these differences.
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Affiliation(s)
- Zak E Hughes
- Institute for Frontier Materials, Deakin University , Geelong, Victoria 3216, Australia
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19
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Golze D, Iannuzzi M, Nguyen MT, Passerone D, Hutter J. Simulation of Adsorption Processes at Metallic Interfaces: An Image Charge Augmented QM/MM Approach. J Chem Theory Comput 2013; 9:5086-97. [DOI: 10.1021/ct400698y] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Dorothea Golze
- Institute of Physical Chemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Marcella Iannuzzi
- Institute of Physical Chemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
| | - Manh-Thuong Nguyen
- The Abdus Salam International Centre for Theoretical Physics, Strada Costiera 11, I-34151 Trieste, Italy
| | - Daniele Passerone
- Empa, Swiss Federal Laboratories for Materials Science and Technology, nanotech@surfaces Laboratory, Überlandstrasse 129, CH-8600 Dübendorf, Switzerland
| | - Jürg Hutter
- Institute of Physical Chemistry, University of Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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Quardokus RC, Wasio NA, Forrest RP, Lent CS, Corcelli SA, Christie JA, Henderson KW, Kandel SA. Adsorption of diferrocenylacetylene on Au(111) studied by scanning tunneling microscopy. Phys Chem Chem Phys 2013; 15:6973-81. [PMID: 23552908 DOI: 10.1039/c3cp50225b] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Scanning tunneling microscopy images of diferrocenylacetylene (DFA) coadsorbed with benzene on Au(111) show individual and close-packed DFA molecules, either adsorbed alongside benzene or on top of a benzene monolayer. Images acquired over a range of positive and negative tip-sample bias voltages show a shift in contrast, with the acetylene linker appearing brighter than the ferrocenes at positive sample bias (where unoccupied states primarily contribute) and the reverse contrast at negative bias. Density functional theory was used to calculate the electronic structure of the gas-phase DFA molecule, and simulated images produced through two-dimensional projections of these calculations approximate the experimental images. The symmetry of both experimental and calculated molecular features for DFA rules out a cis adsorption geometry, and comparison of experiment to simulation indicates torsion around the inter-ferrocene axis between 90° and 180° (trans); the cyclopentadienyl rings are thus angled with respect to the surface.
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Affiliation(s)
- Rebecca C Quardokus
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, USA
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