Pollutants in Clay Montmorillonite
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Loyola University Chicago Loyola eCommons Dissertations Theses and Dissertations 1997 The Computational Study of "Model" Pollutants in Clay Montmorillonite Sung-Ho Park Loyola University Chicago Follow this and additional works at: https://ecommons.luc.edu/luc_diss Part of the Chemistry Commons Recommended Citation Park, Sung-Ho, "The Computational Study of "Model" Pollutants in Clay Montmorillonite" (1997). Dissertations. 3720. https://ecommons.luc.edu/luc_diss/3720 This Dissertation is brought to you for free and open access by the Theses and Dissertations at Loyola eCommons. It has been accepted for inclusion in Dissertations by an authorized administrator of Loyola eCommons. For more information, please contact [email protected]. This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 3.0 License. Copyright © 1997 Sung-Ho Park LOYOLA UNIVERSITY CHICAGO THE COMPUTATIONAL STUDY OF "MODEL" POLLUTANTS IN CLAY MONTMORILLONITE A DISSERTATION SUBMITTED TO THE FACULTY OF THE GRADUATE SCHOOL IN CANDIDACY FOR THE DEGREE OF DOCTOR OF PHILOSOPHY DEPARTMENT OF CHEMISTRY BY SUNG-HO PARK CHICAGO, ILLINOIS MAY, 1997 Copyright by Sung-Ho Park 1997 All rights reserved. ACKNOWLEDGMENTS There are so many people who I would like to thank for my study at Loyola. First I would like to thank my advisor, Dr. Alanah Fitch for her sincere guidance. She supported in every way from answering questions to financial support. I also learned a lot from her in reading articles, summarizing ideas, and so on. She is an excellent reader, scientific writer, professor, and play writer. I am sometimes amazed by how much she really can work within a limited time. I also would like to express thanks to all my committee members. Professor Kenneth Olsen answered questions regarding molecular dynamics simulations. I also learned broad utility of molecular dynamics simulations from his course. He also allowed me to use all the departmental workstations as well as my old friend Indigo, and it really helped me when I had to run several calculations at the last minute. I also would like to thank Professor Albert Hedinger who I needed to see to get answers for the inorganic questions. He pointed out that not only the chemical probes in my study are inorganic but also clay itself is inorganic. You were absolutely right and I had to understand a lot of inorganic chemistry for the correct considerations in modeling. I would like to thank Professor Willetta Greene-Johnson who also is a physical chemist with a lot of background in surface chemistry and computational studies. She lll recommended that I wait until I got a complete package of software for the simulations instead of making my own codes for the problem. You were definitely right and I acquired a good computational package from MSI/Biosym thereafter. I also would like to express special thanks to Professor George Schatz at Northwestern University. He served as an outside committee member and was kind enough to help me in several meetings. I am also indebted to the people in our group including Sean Mellican, Sue Macha, Yunlong Wang, Simona Dragun, Scott Baker, Joe Lohr, and other former group members. I enjoyed working in our group due to their kindness and friendship. I would like to thank greatly to my parents in Korea. They were so much supportive in many ways that all of my achievements came from them. My sisters, Sung-Hee and Sung-Jee have been supportive and I thank them, too. During the entire course of study, my wife Yoo-Hee has been cheering me up by playing the piano and by being a nice friend during the ups and downs. I thank you a lot, too. My sons, Peter and Daniel were also helpful simply by showing their lovely faces in front of me. Peter recently told me that he liked to be either a chemist or a medical doctor. I believe that you will need a lot of chemistry and I hope I will be helpful at the time when you need assistance. Chicago is a wonderful city in terms of many different things. Especially, I enjoyed listening to WMBI (Moody Bible Institute radio) every time I drive back and IV forth between my home and the lab. I believe their programs and gospel music help my spiritual health during the study. Therefore, I also thank the people at Moody Bible. Finally, I would like to express my greatest thanks to the God. He knows all the chemistry and physics from alpha to omega and created me, studying chemistry! v CONTENTS ACKNOWLEDGMENTS .................................................................................................... iii LIST OF TABLES .............................................................................................................. xii LIST OF FIGURES .......................................................................................................... xiv LIST OF SCHEMES ........................................................................................................................... xvii LIST OF ABBREVIATIONS ........................................................................................... xviii ABSTRACT ........................................................................................................................ xx Chapter I. CLAY AND CLAY MINERALS .................................................................................. 1 A. Background ............................................................................................................. 1 1. Contents of Clay ............................................................................................... 1 a. Clay, the Definition ................................................................................... 1 b. Formation of Clay; The Difference From Soils ........................................ 1 c. Structure of Clay Minerals ........................................................................ 2 d. What is the Classification of Clay Minerals I Phyllosilicates? ................. 3 2. Properties of Clay ............................................................................................. 7 a. Cationic Exchange ..................................................................................... 7 b. Colloidal Property ..................................................................................... 7 c. Water-clay Swelling ................................................................................. 8 vi 3. Environments and Clay .................................................................................... 9 B. Experimental Studies of Clay Adsorption ............................................................. 11 C. Clay Adsorption Modeling ................................................................................... 13 1. Introduction .................................................................................................... 13 2. Basic (General) Modeling .............................................................................. 14 3. Monte Carlo Simulations on Clay Modeling ................................................. 16 4. Molecular Mechanics/Molecular Dynamics on Clay Modeling ..................... 19 II. CLAY-MODIFIED ELECTRODE (CME) ................................................................. 22 A. Introduction .......................................................................................................... 22 B. Immobilization of Clay on Electrodes .................................................................. 24 C. Diffusional Transport Study with CME and This Study ...................................... 27 1. Introduction .................................................................................................... 27 2. Cyclic Voltammetry ....................................................................................... 29 3. Diffusion Information From Clay-modified Electrode .................................. 33 4. Intermolecular Differences in Diffusive Probes ............................................. 36 III. COMPUTATIONAL CHEMISTRY ........................................................................... 38 A. History ................................................................................................................... 38 B. Application of Computer Simulations in Liquids ................................................. 42 1. Introduction .................................................................................................... 42 2. Monte Carlo Simulation (MC) ....................................................................... 43 3. Molecular Dynamics Simulation (MD) .......................................................... 46 vii N. QUANTUM MECHANICAL ELECTRONIC STRUCTURE METHODS (MOLECULAR ORBIT AL CALCULATIONS) ........................................................ 50 A. Introduction ........................................................................................................... 50 B. Restricted Hartree-Fock vs. Unrestricted Hartree-Fock ........................................ 55 C. Atomic Charges ..................................................................................................... 59 D. Frontier Molecular Orbital Theory ........................................................................ 60 V. MOLECULAR MECHANICS AND MOLECULAR DYNAMICS .......................... 63 A. Introduction; Atomic Motions in a Molecule From One Conformation to Another ............................................................................... 63 B. Forcefield, the Basis of the Evaluation