Theoretical studies on the common catalytic mechanism of transketolase by using simplified models

Transketolase is a convenient model system to study enzymatic thiamin catalysis. By using density functional theory (DFT) method, the transfer mechanism of a 2-carbon fragment between a donor ketose X5P and an acceptor aldose R5P catalyzed by transketolase has been studied on simplified models. The calculation results indicate that the whole reaction cycle contains several proton transfer processes as well as CC bond formation and cleavage steps. Each CC bond formation or cleavage step is always accompanied by a proton transfer process, which follows a concerted but asynchronous mechanism. The CC bond formation is always prior to the proton transfer, and the CC bond cleavage is always later than proton transfer, suggesting that the CC bond ligation facilitates the proton transfer, and proton transfer promotes the CC bond cleavage. In the first half- and second half-reactions, the energy barriers of CC bond formations are always higher than those of CC bond cleavages. The 4-amino group of cofactor ThDP and histidine residue can act as the proton donor/acceptor during the catalytic reaction.

Graphical abstractBy using density functional theory (DFT) method, the transfer mechanism of a 2-carbon fragment between a donor ketose X5P and an acceptor aldose R5P catalyzed by transketolase has been studied on simplified models. The calculation results indicate that each CC bond formation or cleavage process is always accompanied by a proton transfer, and they follow a concerted but asynchronous mechanism.Figure optionsDownload full-size imageDownload high-quality image (370 K)Download as PowerPoint slideHighlights► We present the transfer mechanism of a 2-carbon fragment catalyzed by transketolase. ► Each CC bond formation or cleavage process is accompanied by a proton transfer. ► CC bond formation/cleavage process and proton transfer follow a concerted mechanism.