This article describes the application of the fastest commercially available video-rate atomic force microscope (AFM) for studying the molecular dynamics of biological samples with a temporal resolution reaching 20 ms per frame. High-speed AFM was used for monitoring the kinetics of the temperature-induced ripple phase transition in supported lipid bilayers, DNA origami streptavidin-biotin binding, thermodynamic rehybridization of DNA, collagen type I fibrillogenesis, and the mobile annexin V trimer dynamics in 2D protein crystals. With no further need for sample processing, the applied method offers a breakthrough in molecular and sample dynamics measurements by enabling the real-time visualization of molecular processes and structural transitions at near-native conditions.