Figure 3.

Time dependence of quantities characterizing the transition to an e-motif. Results for duplexes CCG4 and GCC4 are shown in black and red, respectively. (A) Partial handedness of the C₁₂–C₁₇ mismatch; (B) pseudodihedral angle (Ω₁₂) describing the base unstacking of C₁₂ with respect to the helical axis; (C) center-of-mass distance (ep-distance) between basepairs 11–16 and 13–18; (D) ‘e-motif distance’ (ec-distance), defined as the distance between the N4 atom of C₁₂ and the O2 atom of C₁₀ in GCC4 or the N3 atom of G₁₀ in CCG4.