Tag: Chemistry

I came to Michigan Technological University in August 2018 to pursue a PhD degree in chemistry. I became interested in analytical chemistry during my undergraduate studies in polymer engineering and color science at the Amir Kabir University of Tehran, where I trained to design, synthesize, and analyze various materials such as polymers and pigments with industrial applications. Currently, my research focuses on using analytical techniques such as fluorescence spectroscopy and mass spectrometry to elucidate the origins of fluorescence in complex organic mixtures such as dissolved organic matter (DOM). DOM is one of the largest carbon reservoirs in soil and water, which plays a major role in global climate change and significantly impacts nutrient cycling for different ecosystems and their living organisms. 

During my journey as a PhD student, I have had many excellent learning opportunities while working as a teaching and research assistant. I collaborated on a research project with the department of natural resources and published a research paper titled “Insights on Dissolved Organic Matter Production Revealed by Removal of Charge-Transfer Interactions in Senescent Leaf Leachates” in the Water journal in August 2020. Also, I was fortunate to complete a 12-week co-op opportunity last summer, which helped me gain expertise in analytical techniques such as mass spectrometry, chromatography, and their applications in manufacturing and environmental studies. One of our most recent projects focuses on developing extraction methods and characterizing fluorescent compounds in animals to help us understand these species and their ecosystems more deeply. These natural fluorescent compounds can have various biological, medicinal, and industrial applications. 

I am immensely grateful to the Graduate Dean Awards Advisory Panel and the Dean for granting me this finishing fellowship award. I would like to thank my advisor, Dr. Sarah Green for being a great mentor and offering her continuous support and encouragement throughout my journey.

I commenced my PhD program in Chemistry here at Michigan Tech in the Fall of 2018 under the direction of Dr. Christo Z. Christov and Dr. Tatyana G. Karabencheva-Christova. Before joining Michigan Tech, I obtained bachelor’s and master’s degrees in Industrial Chemistry and Physical Chemistry, respectively, from the University of Ibadan, Nigeria. Also, I received the Erasmus Mundus Joint Master’s Degree (EMJMD) in Theoretical Chemistry and Computational Modelling (TCCM) from the University of Porto, Portugal, and the University of Valencia, Spain, in summer 2018.

My doctoral research focuses on the use of computational modeling approaches to understand the structure-function relationships, conformational flexibility, collective motions, catalytic mechanisms, and the electronic structures of non-heme Fe(II) and 2-oxoglutarate dependent enzymes, such as AlkB, AlkBH2, TET2 and KDM4E that are involved in DNA repair, epigenetic regulation, and histone demethylation. 

During my PhD program, I worked on an NIH-funded project on matrix metalloproteinase-1 (MMP-1) enzyme, where I explored the early catalytic events of the enzyme necessary for its collagenolytic activity. In this project, I studied the processes of formation of the catalytically productive enzyme-substrate complex of MMP-1 and the associated changes in the coordination states of the catalytic Zn(II) site during the conformational transition to the productive complex. Moreover, I have worked on applying external electric fields (EEFs) to enhance the specificity of KDM4E enzyme for C—H activation over N—H activation during the histone N-methyl arginine demethylation. I was also involved in a collaborative project on artificial metalloenzyme with experimental groups at the University of Michigan, Ann Arbor, and Martin-Luther University Halle-Wittenberg, Germany, where we studied the use of YfeX hemoprotein, naturally a peroxidase, as a carbene transferase to mediate some organic reactions.   

I would like to extend my sincere gratitude to my co-advisors, Dr. Christo Z. Christov and Dr. Tatyana G. Karabencheva-Christova, PhD committee members (Dr. Tarun Dam, Dr. Haiying Liu, and Dr. Stephen Techtmann), and the Department of Chemistry for their continuous support. I am grateful to the Graduate Dean Awards Advisory Panel and the Dean for awarding me the Doctoral Finishing Fellowship. This fellowship will afford me the opportunity to focus on completing my PhD dissertation and preparing for my defense.

I started my doctoral research in Spring 2018 with Dr. Christo Z. Christov in the Department of Chemistry at Michigan Technological University. Before that, I completed my B. Tech. in Chemical Engineering from Rashtrasant Tukadoji Maharaj Nagpur University was working as Project Research Assistant at the Indian Institute of Technology Bombay. My research focuses on utilizing computational techniques like Molecular Dynamics (MD), Quantum Mechanics (QM), and Quantum Mechanics/ Molecular Mechanics (QM/MM) to explore structure-function relationships in enzyme catalysis. 

During my time as a PhD candidate at Michigan Tech, I have researched an NSF funded project about ethylene forming enzyme. In this project, my research involved developing an enzyme model to establish the chemical mechanism of ethylene formation and L-Arg hydroxylation. I further explored if external electric fields can switch between the two reactivities of ethylene forming enzyme, with an aim to optimize ethylene generation. I have also worked on an NIH funded project about histone demethylases, activities of which have been linked to various forms of cancers. I used molecular dynamics simulations and combined QM/MM approach to establish the enzyme catalytic mechanism and structure-function relationship. Moreover, I have developed a computational framework for identifying second coordination sphere and long-range residues relevant for catalysis through analysis of protein correlated motions. 

I am grateful to the Graduate Dean Awards Advisory Panel and the Dean for awarding me the Doctoral Finishing Fellowship. I would also like to offer my special thanks to my advisor Dr. Christo Z. Christov, for his support throughout my PhD program.