ESR9: Bohdana Sokolova
Vertical Divider
Host Organization
Zubarev Lab Karolinska Institute Stockholm, Sweden Supervisor Dr. Roman Zubarev 
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Identification of target binding sites using HDX-MS and off-targets using Proteome Thermo Profiling Most often the drug acts as an inhibitor of a binding site in an enzyme or receptor. The inhibitor can bind directly to the binding site; however, an allosteric inhibitor binds to a different position on the protein surface and indirectly affects the active site, preventing substrate binding. Due to lower target-based toxicity, high selectivity and several potential sites for allosteric regulation, allosteric regulation is playing an increasing role in drug discovery and bioengineering.
This PhD project aims to exploit the concept of allostery in drug design by developing new methodologies for identifying allosteric modulators of protein function. Main objectives of the project are: O1: To develop a novel protein-wide method of drug target identification/verification with structural resolution. O2: To develop a hydrogen deuterium exchange mass spectrometry (HDX-MS) method for a target protein interacting with the drug in a complex protein mixture. O3: To apply the proteomic method of O1 to verification of the HDX-MS results with identification of the allosteric and orthosteric (catalytic) binding sites. |
Brief Scientific Bio
I received my Bachelor’s degree in Medicinal Chemistry at Taras Shevchenko National University of Kyiv (Ukraine). During my undergraduate studies, I had a chance to intern at the University of Montreal (Canada), where I was working with thermoresponsive biocompatible polymers. For my bachelor’s thesis, I joined the NMR R&D group at the organic synthesis company Enamine Ltd in Kyiv.
I got my Master’s in Analytical Chemistry by the Erasmus Mundus double degree program EACH at the University of Tartu (Estonia) and Uppsala University (Sweden). I worked with GPCR characterization in the neurochemistry research group at the University of Tartu during my first year of studies, and for the summer internship, I got a chance to work on bacterial cell division proteins in C. glutamicum at Institut Pasteur in Paris. I did my thesis work in proteomics at Karolinska Institute, aiming to create a database of drug targets for lung cancer drugs.
And in August 2022 I joined Roman Zubarev’s research group for Ph.D. studies within ALLODD project.
I received my Bachelor’s degree in Medicinal Chemistry at Taras Shevchenko National University of Kyiv (Ukraine). During my undergraduate studies, I had a chance to intern at the University of Montreal (Canada), where I was working with thermoresponsive biocompatible polymers. For my bachelor’s thesis, I joined the NMR R&D group at the organic synthesis company Enamine Ltd in Kyiv.
I got my Master’s in Analytical Chemistry by the Erasmus Mundus double degree program EACH at the University of Tartu (Estonia) and Uppsala University (Sweden). I worked with GPCR characterization in the neurochemistry research group at the University of Tartu during my first year of studies, and for the summer internship, I got a chance to work on bacterial cell division proteins in C. glutamicum at Institut Pasteur in Paris. I did my thesis work in proteomics at Karolinska Institute, aiming to create a database of drug targets for lung cancer drugs.
And in August 2022 I joined Roman Zubarev’s research group for Ph.D. studies within ALLODD project.
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This project has received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 956314.
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