01 Geometry — Trp sites & dipoles
Eight tryptophan chromophores extracted from PDB 1JFF, each an indole-ring centroid with its ¹Lₐ transition dipole. Drag to orbit · scroll to zoom.
02 Couplings — Δ and G matrices
Coherent dipole coupling Δ (Eq. 9) and collective radiative decay G (Eq. 10), in units of the single-site rate γ. Hover a cell for the value.
03 Spectrum — bright & dark modes
Excitonic eigenmodes classified by collective radiative rate Γj/γ. Above the dashed line are superradiant (bright); below, subradiant (dark).
04 Dynamics — Lindblad evolution
Trace-preserving evolution of the five preparations. Scrub or play the timeline; watch populations, pairwise coherence and entanglement flow.
05 Embeddings — routing across scale
Top-4 focal-tubulin pairwise coherences as the environment grows from a single tubulin to a three-tubulin segment (Fig. 8).
06 Non-Markovian backflow
Trace-distance Dk(t) between two preparations of a two-tubulin subsystem. Rising intervals (shaded) are information flowing back from the surrounding tubulins (Fig. 9).
07 Lifetime scaling & disorder
Super/subradiant radiative lifetimes vs assembly size. Ordered lattices reach the millisecond range; disorder collapses the contrast (Fig. 12).