Figure 6

A network of coupled protein vibration promoting catalysis in cyclophilin A [10]. Alternate pathways by which protein dynamics impacts the enzyme reaction are depicted based on 3 protein vibrational modes coupled to the reaction. Loops colored in red and residues indicated by ball-and-stick show largest displacements in vibrational modes coupled to the substrate turnover step. The yellow arrows represent the network pathway from outside of the enzyme to the active-site. Reprinted with permission from Agarwal et al., Biochemistry (2004) 43, 10605–10618. Copyright 2004 American Chemical Society.