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Content archived on 2024-06-18

Quantum Chemistry of Enzymatic Nucleophilic Substitution: Untangling the Role of Metal Ions and Protein Environment in Biochemical Nucleophilic Substitution at Phosphorus and Sulfur

Objective

Enzymatic nucleophilic substitution reactions are ubiquitous as key steps in biochemical processes of living cells. Despite their importance, they are poorly understood, in particular regarding the exact mechanism and involvement of the protein environment and the role and mechanistic involvement of metal ions. Through interpretative methods from chemical reactivity theory, I will tackle the missing links in this field of molecular life sciences. This project thus goes beyond transition state calculations, which are today’s state of the art in computational enzymology, by addressing the question why. The project’s goal is to build a new research protocol to give insight in enzymatic reactions. This is original and innovative, and will as such contribute to Europe’s excellence. Through the integrated scientific and complementary skills training, it will offer much to my career development.
The role of metal ions and the protein environment in triphosphate hydrolysis and sulfur oxidation reactions, which are abundant and ubiquitous enzymatic reactions involved in e.g. signal and energy transduction will be untangled via quantitative molecular orbital (MO)-theory. The MO-model and its associated energy-decomposition approach, for which the host will offer a training, can make trends in reaction barriers transparent and is the current state of the art in explanatory chemistry. This approach is only marginally used to tackle the chemistry of enzymatic reactions and gives the project its originality and pioneering nature. Further, by studying the nature of the reaction barrier of sulfur oxidation reactions, I will pioneer the field of theoretical redox protein sulfur chemistry. Sulfur redox biology is being studied extensively by biochemists, but only marginally by theoreticians.
In conclusion, by studying representative proteins, this project translates fundamental chemical insights into biological relevance, giving the project its interdisciplinary nature.

Call for proposal

FP7-PEOPLE-2013-IEF
See other projects for this call

Coordinator

STICHTING VU
EU contribution
€ 183 469,80
Address
DE BOELELAAN 1105
1081 HV Amsterdam
Netherlands

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Region
West-Nederland Noord-Holland Groot-Amsterdam
Activity type
Higher or Secondary Education Establishments
Administrative Contact
Yvonne Kops (Dr.)
Links
Total cost
No data