Figure 8

Example of two topologically different unfolding routes identified with GLN method for the ribonuclease U2 (pdb ID 3agn) with \(gL_{3}\) motif (the closed loop is pierced three times). Left panel: the GLN matrix at the native conformation. Middle panel: visualization of unfolding via unthreading internal loop toward \(gL_{1}\) motif, next single unthreading to trivial topology. Each column of this matrix corresponds to the single time frame in the simulation and represents left edge of the GLN matrix for this frame. Right panel: untying to \(gL_{2}\) geometry, next untying via slipknot motif to \(gL_{0}\).