N copies of chignolin diffusing in a 2D periodic box. Position, orientation, and pairwise interactions are driven by parameters from chignolin-reduced.json — net charge, hydrodynamic radius, diffusion coefficient, hydrophobicity. The reduced-model JSON is inlined below for transparency; in a real cell-scale pipeline it would be loaded from disk.

N copies 40
T (k_BT units) 1.0
q² electrostatic 1.0
Reset Pause

step: 0
D measured (a.u.): —
D predicted from JSON: —
contacts (overlapping pairs): 0
avg pair distance: — a.u.

Inlined reduced model: