Kinase Activation by Small Conformational Changes

• Published in: Journal of chemical information and modeling Vol. 60; no. 2; pp. 821 - 832
• Main Authors: Lopez, Elias D, Burastero, Osvaldo, Arcon, Juan P, Defelipe, Lucas A, Ahn, Natalie G, Marti, Marcelo A, Turjanski, Adrian G
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 24.02.2020
• Subjects: Catalytic activity; Chemical reactions; Conserved Sequence; Disulfides - chemistry; Enzyme Activation; Kinases; Mitogen-Activated Protein Kinase 1 - chemistry; Mitogen-Activated Protein Kinase 1 - metabolism; Molecular Dynamics Simulation; NMR; Nuclear magnetic resonance; Phosphorylation; Protein Conformation; Proteins; Signal processing; Signal transduction
• ISSN: 1549-9596; 1549-960X
• DOI: 10.1021/acs.jcim.9b00782

Protein kinases (PKs) are allosteric enzymes that play an essential role in signal transduction by regulating a variety of key cellular processes. Most PKs suffer conformational rearrangements upon phosphorylation that strongly enhance the catalytic activity. Generally, it involves the movement of the phosphorylated loop toward the active site and the rotation of the whole C-terminal lobe. However, not all kinases undergo such a large configurational change: The MAPK extracellular signal-regulated protein kinases ERK1 and ERK2 achieve a 50 000 fold increase in kinase activity with only a small motion of the C-terminal region. In the present work, we used a combination of molecular simulation tools to characterize the conformational landscape of ERK2 in the active (phosphorylated) and inactive (unphosphorylated) states in solution in agreement with NMR experiments. We show that the chemical reaction barrier is strongly dependent on ATP conformation and that the “active” low-barrier configuration is subtly regulated by phosphorylation, which stabilizes a key salt bridge between the conserved Lys52 and Glu69 belonging to helix-C and promotes binding of a second Mg ion. Our study highlights that the on–off switch embedded in the kinase fold can be regulated by small, medium, and large conformational changes.