Protein-protein interactions are essential for the basic biological machinery of the cell. This is important for processes like protein synthesis, enzyme kinetics, molecular assembly and signal transduction. A high number of macromolecular structural complexes are known due to recent advances in structure determination techniques. Therefore, it is of interest to develop an interactive tool to o...

Trait-based approaches to community structure are increasingly used in terrestrial ecology. We show that such an approach, augmented by a mechanistic analysis of trade-offs among functional traits, can be successfully used to explain community composition of marine phytoplankton along environmental gradients. Our analysis of literature on major functional traits in phytoplankton, such as parame...

Synthesis of a PUGNAc-imidazole hybrid and its characterization as an inhibitor of human O-GlcNAcase through enzyme kinetics and X-ray structural analysis.

There are several enormous simplifications which result immediately from the application of this concept in enzyme kinetics. It is no longer necessary to discuss in vague imprecise terms the relative size of rate constants to effect reduction or allow rapid equilibrium assumptions. The resultant itself takes care of that. I t is no longer necessary to work out a complete rate equation for a com...

Fluorescence unquenching measurements of protease-dependent release of fluorescent biomolecules from peptide-capped gold nanoparticles reveal the effect of the monolayer composition on enzyme kinetics.

Moment approximation methods are gaining increasing attention for their use in the approximation of the stochastic kinetics of chemical reaction systems. In this paper we derive a general moment expansion method for any type of propensities and which allows expansion up to any number of moments. For some chemical reaction systems, more than two moments are necessary to describe the dynamic prop...

A particle-based mesoscopic model for enzyme kinetics is constructed and used to investigate the influence of diffusion on the reactive dynamics. Enzymes and enzyme-substrate complexes are modeled as finite-size soft spherical particles, while substrate, product, and solvent molecules are point particles. The system is evolved using a hybrid molecular dynamics-multiparticle collision dynamics s...

Michaelis and Menten's classic 1913 paper on enzyme kinetics is used to draw some lessons about the relationship between mathematical models and biological reality.

Enzyme kinetics are cyclic. We study a Markov renewal process model of single-enzyme turnover in nonequilibrium steady state (NESS) with sustained concentrations for substrates and products. We show that the forward and backward cycle times have identical nonexponential distributions: Theta + (t)=Theta_(t). This equation generalizes the Haldane relation in reversible enzyme kinetics. In terms o...

1. The theory of plane curves was applied to the graphical methods used in enzyme kinetics and a mathematical analysis of the possible graph shapes is given. 2. The belief that allosterism can be inferred from steady-state data alone is subjected to criticism and the mathematical significance of sigmoid curves and non-linear double-reciprocal plots is explored. 3. It is suggested that the usual...