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Zhu H, Guo X, Si Y, Du Q, Cheng Y, Wang L, Li X. Insights into pathways and solvent effects of fructose dehydration to 5-hydroxymethylfurfural in acetone-water solvent. Chem Eng Sci 2022. [DOI: 10.1016/j.ces.2022.118352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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2
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Tran B, Milner ST, Janik MJ. Kinetics of Acid-Catalyzed Dehydration of Alcohols in Mixed Solvent Modeled by Multiscale DFT/MD. ACS Catal 2022. [DOI: 10.1021/acscatal.2c03978] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bolton Tran
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16802, United States
| | - Scott T. Milner
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16802, United States
| | - Michael J. Janik
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16802, United States
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3
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Tran B, Cai Y, Janik MJ, Milner ST. Hydrogen Bond Thermodynamics in Aqueous Acid Solutions: A Combined DFT and Classical Force-Field Approach. J Phys Chem A 2022; 126:7382-7398. [PMID: 36190836 DOI: 10.1021/acs.jpca.2c04124] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The thermodynamics of hydrogen bonds in aqueous and acidic solutions significantly impacts the kinetics and thermodynamics of acid reaction chemistry. We utilize in this work a multiscale approach, combining density functional theory (DFT) with classical molecular dynamics (MD) to model hydrogen bond thermodynamics in an acidic solution. Using thermodynamic cycles, we split the solution phase free energy into its gas phase counterpart plus solvation free energies. We validate this DFT/MD approach by calculating the aqueous phase hydrogen bond free energy between two water molecules (H2O-···-H2O), the free energy to transform an H3O+ cation into an H5O2+ cation, and the hydrogen bond free energy of protonated water clusters (H3O+-···-H2O and H5O2+-···-H2O). The computed equilibrium hydrogen bond free energy of H2O-···-H2O is remarkably accurate, especially considering the large individual contributions to the thermodynamic cycle. Turning to cations, we find the ion to be more stable than H3O+ by roughly 1-2 kBT. This small free energy difference allows for thermal fluctuation between the two idealized motifs, consistent with spectroscopic and simulation studies. Lastly, hydrogen bonding free energies between either H+ cation and H2O in solution were found to be stronger than between two H2O, though much less so than in vacuum because of dielectric screening in solution. Altogether, our results suggest the DFT/MD approach is promising for application in modeling hydrogen bonding and proton transfer thermodynamics in condensed phases.
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Affiliation(s)
- Bolton Tran
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16801, United States
| | - Yusheng Cai
- Department of Chemical & Biomolecular Engineering, University of Pennsylvania, Philadelphia, Pennsylvania19104, United States
| | - Michael J Janik
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16801, United States
| | - Scott T Milner
- Department of Chemical Engineering, Pennsylvania State University, University Park, Pennsylvania16801, United States
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4
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Luo Q, Dong R, Yoon B, Gao H, Chen M, Hwang GS, Liang Z. An experimental/computational study of steric hindrance effects on
CO
2
absorption in (non)aqueous amine solutions. AIChE J 2022. [DOI: 10.1002/aic.17701] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Qinlan Luo
- Joint International Center for CO2 Capture and Storage (iCCS), Hunan Provincial Key Laboratory for Cost‐Effective Utilization of Fossil Fuel Aimed at Reducing CO2 Emissions, College of Chemistry and Chemical Engineering Hunan University Changsha PR China
| | - Rui Dong
- Joint International Center for CO2 Capture and Storage (iCCS), Hunan Provincial Key Laboratory for Cost‐Effective Utilization of Fossil Fuel Aimed at Reducing CO2 Emissions, College of Chemistry and Chemical Engineering Hunan University Changsha PR China
| | - Bohak Yoon
- McKetta Department of Chemical Engineering University of Texas at Austin Austin Texas USA
| | - Hongxia Gao
- Joint International Center for CO2 Capture and Storage (iCCS), Hunan Provincial Key Laboratory for Cost‐Effective Utilization of Fossil Fuel Aimed at Reducing CO2 Emissions, College of Chemistry and Chemical Engineering Hunan University Changsha PR China
| | - Mengjie Chen
- Joint International Center for CO2 Capture and Storage (iCCS), Hunan Provincial Key Laboratory for Cost‐Effective Utilization of Fossil Fuel Aimed at Reducing CO2 Emissions, College of Chemistry and Chemical Engineering Hunan University Changsha PR China
| | - Gyeong S. Hwang
- McKetta Department of Chemical Engineering University of Texas at Austin Austin Texas USA
| | - Zhiwu Liang
- Joint International Center for CO2 Capture and Storage (iCCS), Hunan Provincial Key Laboratory for Cost‐Effective Utilization of Fossil Fuel Aimed at Reducing CO2 Emissions, College of Chemistry and Chemical Engineering Hunan University Changsha PR China
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5
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Zhang S, Jin C, Sheng K, Zhang X. Mechanistic investigation of cellulose formate to 5-hydroxymethylfurfural conversion in DMSO-H2O. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.118471] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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6
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Chew AK, Jiang S, Zhang W, Zavala VM, Van Lehn RC. Fast predictions of liquid-phase acid-catalyzed reaction rates using molecular dynamics simulations and convolutional neural networks. Chem Sci 2020; 11:12464-12476. [PMID: 34094451 PMCID: PMC8163029 DOI: 10.1039/d0sc03261a] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
The rates of liquid-phase, acid-catalyzed reactions relevant to the upgrading of biomass into high-value chemicals are highly sensitive to solvent composition and identifying suitable solvent mixtures is theoretically and experimentally challenging. We show that the complex atomistic configurations of reactant-solvent environments generated by classical molecular dynamics simulations can be exploited by 3D convolutional neural networks to enable accurate predictions of Brønsted acid-catalyzed reaction rates for model biomass compounds. We develop a 3D convolutional neural network, which we call SolventNet, and train it to predict acid-catalyzed reaction rates using experimental reaction data and corresponding molecular dynamics simulation data for seven biomass-derived oxygenates in water-cosolvent mixtures. We show that SolventNet can predict reaction rates for additional reactants and solvent systems an order of magnitude faster than prior simulation methods. This combination of machine learning with molecular dynamics enables the rapid, high-throughput screening of solvent systems and identification of improved biomass conversion conditions.
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Affiliation(s)
- Alex K Chew
- Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison WI 53706 USA .,DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison WI 53706 USA
| | - Shengli Jiang
- Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison WI 53706 USA
| | - Weiqi Zhang
- Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison WI 53706 USA
| | - Victor M Zavala
- Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison WI 53706 USA
| | - Reid C Van Lehn
- Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison WI 53706 USA .,DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison WI 53706 USA
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7
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Rational Design of Mixed Solvent Systems for Acid-Catalyzed Biomass Conversion Processes Using a Combined Experimental, Molecular Dynamics and Machine Learning Approach. Top Catal 2020. [DOI: 10.1007/s11244-020-01260-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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8
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Chew AK, Walker TW, Shen Z, Demir B, Witteman L, Euclide J, Huber GW, Dumesic JA, Van Lehn RC. Effect of Mixed-Solvent Environments on the Selectivity of Acid-Catalyzed Dehydration Reactions. ACS Catal 2019. [DOI: 10.1021/acscatal.9b03460] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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9
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Varghese JJ, Mushrif SH. Origins of complex solvent effects on chemical reactivity and computational tools to investigate them: a review. REACT CHEM ENG 2019. [DOI: 10.1039/c8re00226f] [Citation(s) in RCA: 76] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Origins of solvent-induced enhancement in catalytic reactivity and product selectivity are discussed with computational methods to study them.
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Affiliation(s)
- Jithin John Varghese
- Cambridge Centre for Advanced Research and Education in Singapore (CARES) Ltd
- Campus for Research Excellence and Technological Enterprise (CREATE)
- Singapore
| | - Samir H. Mushrif
- Department of Chemical and Materials Engineering
- University of Alberta
- Edmonton
- Canada
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10
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Grajciar L, Heard CJ, Bondarenko AA, Polynski MV, Meeprasert J, Pidko EA, Nachtigall P. Towards operando computational modeling in heterogeneous catalysis. Chem Soc Rev 2018; 47:8307-8348. [PMID: 30204184 PMCID: PMC6240816 DOI: 10.1039/c8cs00398j] [Citation(s) in RCA: 114] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2018] [Indexed: 12/19/2022]
Abstract
An increased synergy between experimental and theoretical investigations in heterogeneous catalysis has become apparent during the last decade. Experimental work has extended from ultra-high vacuum and low temperature towards operando conditions. These developments have motivated the computational community to move from standard descriptive computational models, based on inspection of the potential energy surface at 0 K and low reactant concentrations (0 K/UHV model), to more realistic conditions. The transition from 0 K/UHV to operando models has been backed by significant developments in computer hardware and software over the past few decades. New methodological developments, designed to overcome part of the gap between 0 K/UHV and operando conditions, include (i) global optimization techniques, (ii) ab initio constrained thermodynamics, (iii) biased molecular dynamics, (iv) microkinetic models of reaction networks and (v) machine learning approaches. The importance of the transition is highlighted by discussing how the molecular level picture of catalytic sites and the associated reaction mechanisms changes when the chemical environment, pressure and temperature effects are correctly accounted for in molecular simulations. It is the purpose of this review to discuss each method on an equal footing, and to draw connections between methods, particularly where they may be applied in combination.
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Affiliation(s)
- Lukáš Grajciar
- Department of Physical and Macromolecular Chemistry
, Faculty of Science
, Charles University in Prague
,
128 43 Prague 2
, Czech Republic
.
;
;
| | - Christopher J. Heard
- Department of Physical and Macromolecular Chemistry
, Faculty of Science
, Charles University in Prague
,
128 43 Prague 2
, Czech Republic
.
;
;
| | - Anton A. Bondarenko
- TheoMAT group
, ITMO University
,
Lomonosova 9
, St. Petersburg
, 191002
, Russia
| | - Mikhail V. Polynski
- TheoMAT group
, ITMO University
,
Lomonosova 9
, St. Petersburg
, 191002
, Russia
| | - Jittima Meeprasert
- Inorganic Systems Engineering group
, Department of Chemical Engineering
, Faculty of Applied Sciences
, Delft University of Technology
,
Van der Maasweg 9
, 2629 HZ Delft
, The Netherlands
.
| | - Evgeny A. Pidko
- TheoMAT group
, ITMO University
,
Lomonosova 9
, St. Petersburg
, 191002
, Russia
- Inorganic Systems Engineering group
, Department of Chemical Engineering
, Faculty of Applied Sciences
, Delft University of Technology
,
Van der Maasweg 9
, 2629 HZ Delft
, The Netherlands
.
| | - Petr Nachtigall
- Department of Physical and Macromolecular Chemistry
, Faculty of Science
, Charles University in Prague
,
128 43 Prague 2
, Czech Republic
.
;
;
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11
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Cordon MJ, Harris JW, Vega-Vila JC, Bates JS, Kaur S, Gupta M, Witzke ME, Wegener EC, Miller JT, Flaherty DW, Hibbitts DD, Gounder R. Dominant Role of Entropy in Stabilizing Sugar Isomerization Transition States within Hydrophobic Zeolite Pores. J Am Chem Soc 2018; 140:14244-14266. [DOI: 10.1021/jacs.8b08336] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Michael J. Cordon
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - James W. Harris
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - Juan Carlos Vega-Vila
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - Jason S. Bates
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - Sukhdeep Kaur
- Department of Chemical Engineering, University of Florida, 1030 Center Drive, Gainesville, Florida 32611, United States
| | - Mohit Gupta
- Department of Chemical Engineering, University of Florida, 1030 Center Drive, Gainesville, Florida 32611, United States
| | - Megan E. Witzke
- Department of Chemical and Biomolecular Engineering, University of Illinois Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Evan C. Wegener
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - Jeffrey T. Miller
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
| | - David W. Flaherty
- Department of Chemical and Biomolecular Engineering, University of Illinois Urbana−Champaign, Urbana, Illinois 61801, United States
| | - David D. Hibbitts
- Department of Chemical Engineering, University of Florida, 1030 Center Drive, Gainesville, Florida 32611, United States
| | - Rajamani Gounder
- Charles D. Davidson School of Chemical Engineering, Purdue University, 480 Stadium Mall Drive, West Lafayette, Indiana 47907, United States
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12
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de Mello MD, Tsapatsis M. Selective Glucose‐to‐Fructose Isomerization over Modified Zirconium UiO‐66 in Alcohol Media. ChemCatChem 2018. [DOI: 10.1002/cctc.201800371] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Matheus Dorneles de Mello
- Department of Chemical Engineering and Materials Science University of Minnesota 421 Washington Avenue SE Minneapolis MN 55455 USA
| | - Michael Tsapatsis
- Department of Chemical Engineering and Materials Science University of Minnesota 421 Washington Avenue SE Minneapolis MN 55455 USA
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13
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Hronec M, Fulajtárová K, Liptaj T, Soták T, Prónayová N. Nickel catalysed hydrogenation of aldol condensation product of furfural with cyclopentanone to C15cyclic ethers. ChemistrySelect 2016. [DOI: 10.1002/slct.201500001] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Milan Hronec
- Department of Organic Technology; Slovak University of Technology; Radlinského 9 812 37 Bratislava Slovakia
| | - Katarína Fulajtárová
- Department of Organic Technology; Slovak University of Technology; Radlinského 9 812 37 Bratislava Slovakia
| | - Tibor Liptaj
- Central Laboratories; Slovak University of Technology; Radlinského 9 812 37 Bratislava Slovakia
| | - Tomáš Soták
- Department of Organic Technology; Slovak University of Technology; Radlinského 9 812 37 Bratislava Slovakia
| | - Naďa Prónayová
- Central Laboratories; Slovak University of Technology; Radlinského 9 812 37 Bratislava Slovakia
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14
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Chethana B, Lee D, Mushrif SH. First principles investigation into the metal catalysed 1,2 carbon shift reaction for the epimerization of sugars. ACTA ACUST UNITED AC 2015. [DOI: 10.1016/j.molcata.2015.09.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
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15
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Theoretical insight into the conversion of xylose to furfural in the gas phase and water. J Mol Model 2015; 21:296. [DOI: 10.1007/s00894-015-2843-6] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2015] [Accepted: 10/19/2015] [Indexed: 12/11/2022]
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16
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Vasudevan V, Mushrif SH. Insights into the solvation of glucose in water, dimethyl sulfoxide (DMSO), tetrahydrofuran (THF) and N,N-dimethylformamide (DMF) and its possible implications on the conversion of glucose to platform chemicals. RSC Adv 2015. [DOI: 10.1039/c4ra15123b] [Citation(s) in RCA: 74] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The presence of co-solvents, like DMSO, DMF and THF, significantly alters (i) the interaction of glucose with water, (ii) the mobility of glucose and (iii) its bonding with the solvent environment. This may have implications on glucose conversion reactions.
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Affiliation(s)
- Vallabh Vasudevan
- School of Chemical and Biomedical Engineering
- Nanyang Technological University
- Singapore 637459
| | - Samir H. Mushrif
- School of Chemical and Biomedical Engineering
- Nanyang Technological University
- Singapore 637459
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