1. Allosteric Motions of the CRISPR–Cas9 HNH Nuclease Probed by NMR and Molecular Dynamics
- Author
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East, Kyle W, Newton, Jocelyn C, Morzan, Uriel N, Narkhede, Yogesh B, Acharya, Atanu, Skeens, Erin, Jogl, Gerwald, Batista, Victor S, Palermo, Giulia, and Lisi, George P
- Subjects
Genetics ,Human Genome ,1.1 Normal biological development and functioning ,Underpinning research ,Allosteric Regulation ,CRISPR-Cas Systems ,Deoxyribonucleases ,Molecular Dynamics Simulation ,Nuclear Magnetic Resonance ,Biomolecular ,Chemical Sciences ,General Chemistry - Abstract
CRISPR-Cas9 is a widely employed genome-editing tool with functionality reliant on the ability of the Cas9 endonuclease to introduce site-specific breaks in double-stranded DNA. In this system, an intriguing allosteric communication has been suggested to control its DNA cleavage activity through flexibility of the catalytic HNH domain. Here, solution NMR experiments and a novel Gaussian-accelerated molecular dynamics (GaMD) simulation method are used to capture the structural and dynamic determinants of allosteric signaling within the HNH domain. We reveal the existence of a millisecond time scale dynamic pathway that spans HNH from the region interfacing the adjacent RuvC nuclease and propagates up to the DNA recognition lobe in full-length CRISPR-Cas9. These findings reveal a potential route of signal transduction within the CRISPR-Cas9 HNH nuclease, advancing our understanding of the allosteric pathway of activation. Further, considering the role of allosteric signaling in the specificity of CRISPR-Cas9, this work poses the mechanistic basis for novel engineering efforts aimed at improving its genome-editing capability.
- Published
- 2020