Related Experiment Video
Updated: Dec 16, 2025

Unraveling Entropic Rate Acceleration Induced by Solvent Dynamics in Membrane Enzymes
Published on: January 16, 2016
The enhanced extended phenomenological kinetics method to deal with timescale disparity problem among different
Chen Ding1, Jingwei Weng1, Tonghao Shen1
1Collaborative Innovation Center of Chemistry for Energy Materials, Shanghai, Key Laboratory of Molecular Catalysis and Innovative Materials, MOE Key Laboratory of Computational Physical Sciences, Department of Chemistry, Fudan University, Shanghai, China.
Abstract:
Kinetic Monte Carlo method can provide valuable mechanistic insights for catalytic systems. Nonetheless, it suffers from the notorious problem of timescale disparity due to the existence of the complex catalytic network that consists of fast events and slow events. Previously, we have proposed the extended phenomenological kinetics (XPK) method that effectively deals with the timescale disparity problem between diffusion and reaction. However, it remains a great challenge to simulate systems with timescale disparity among different reaction pathways, which is important when selectivity is the major concern. In this study, we implement the enhanced XPK method to address this problem. The new algorithm works by identifying states connected through fast transitions and compressing them into a "superstate" when the chosen states satisfy a local steadystate condition. This state compression algorithm simplifies the reaction network by concealing the fast transitions. The accuracy and efficiency of the algorithm are demonstrated by two model systems: selective catalytic hydrogenation and selective catalytic decomposition. The enhanced XPK method is expected to be beneficial to the kinetic simulations of catalytic systems, especially those with complex reaction networks.
More Related Videos
Related Concept Videos
Predicting Reaction Outcomes
Multi-Step Reactions
Introduction to Enzyme Kinetics
The experimenter can then plot the initial reaction rate or velocity (Vo) of a given trial against the substrate concentration ([S]) to obtain a graph of the reaction properties. For many enzymatic reactions involving a...
Enzyme Kinetics
Scientists typically study enzyme kinetics with a fixed amount of enzyme in the controlled environment of a test tube. When more reactant, or substrate, is...
Fundamental Mathematical Principles in Pharmacokinetics: Rate and Order of Reaction
Pharmacokinetic reactions...
Measuring Reaction Rates

