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Biochemistry: Molecular Self-Assembly (2D)

A 2D companion simulator: a real bead-spring particle physics model of proteins, carbohydrates, lipids and DNA, where folding and denaturation emerge from hydrophobic attraction, base-pairing and thermal agitation instead of being pre-animated.

Molecular Biology2DModerate60 FPS⇄ 3D version

This is the 2D companion to the 3D Biochemistry simulator. Instead of animating a pre-defined folded shape, it runs a real 2D bead-spring particle simulation for each of the four macromolecule classes — proteins, carbohydrates, lipids and DNA — where folding, self-assembly and denaturation emerge from hydrophobic attraction, base-pairing springs, excluded-volume repulsion and thermal agitation. Switch molecule type, drag temperature and pH to the extremes, and watch the live radius-of-gyration chart track the chain collapsing or falling apart in real time.

⚙ Under the hood

A 2D companion to the 3D Biochemistry simulator: a real bead-spring particle physics model where protein folding, lipid micelle self-assembly, DNA base-pairing and carbohydrate coiling emerge from hydrophobic attraction, pairing springs and thermal agitation, not pre-animated shapes. Watch the live radius-of-gyration chart track collapse and denaturation as you push temperature and pH.

biochemistryprotein foldingself-assemblyDNA base pairingdenaturation2Dparticle simulation

2D · HTML5 Canvas 2D · 60 FPS target · runs fully client-side, no install