biology

Biochemistry & Molecular Dynamics

The chemistry of life — enzyme kinetics, protein folding, energy metabolism, and the molecular reactions that power every living cell.

biochemistryenzymesprotein foldingATPpHreaction kineticsArrhenius equation

Biochemistry bridges biology and chemistry, explaining how molecular interactions give rise to life. Every breath you take drives an ATP synthesis cycle; every bite of food is processed by enzymes following Michaelis-Menten kinetics. Understanding these reactions reveals why drugs work, how diseases progress, and what makes life thermodynamically possible.

These simulations let you manipulate enzyme concentrations, explore protein folding landscapes, visualize ATP energy cycles, tune pH buffers, and see how temperature governs reaction rates through the Arrhenius equation — all in real time.

5 interactive simulations

simulator

ATP Synthesis Energy Cycle

Visualize the ATP-ADP energy cycle — the universal currency of cellular energy that powers every living process from muscle contraction to DNA replication

simulator

Michaelis-Menten Enzyme Kinetics

Simulate enzyme kinetics using the Michaelis-Menten model — explore how substrate concentration, Km, and Vmax determine reaction velocity

simulator

pH Buffer Equilibrium

Explore how buffer solutions resist pH changes — simulate acid/base titration and the Henderson-Hasselbalch equation in real time

simulator

Protein Folding Energy Landscape

Visualize the protein folding energy landscape — a rugged funnel where polypeptide chains navigate toward their minimum-energy native state

simulator

Chemical Reaction Rate & Arrhenius Equation

Explore how temperature governs chemical reaction rates through the Arrhenius equation — visualize the exponential relationship between temperature and rate constant