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Abstract
At the core of the CRISPR–Cas9 genome-editing technology, the endonuclease Cas9 introduces site-specific breaks in DNA. However, precise mechanistic information to ameliorate Cas9 function is still missing. Here, multimicrosecond molecular dynamics, free energy and multiscale simulations are combined with solution NMR and DNA cleavage experiments to resolve the catalytic mechanism of target DNA cleavage. We show that the conformation of an active HNH nuclease is tightly dependent on the catalytic Mg2+, unveiling its cardinal structural role. This activated Mg2+-bound HNH is consistently described through molecular simulations, nuclear magnetic resonance (NMR) and DNA cleavage assays, revealing also that the protonation state of the catalytic H840 is strongly affected by active site mutations. Finally, ab initio quantum mechanics (density functional theory)/molecular mechanics simulations and metadynamics establish the catalytic mechanism, showing that the catalysis is activated by H840 and completed by K866, thus rationalizing DNA cleavage experiments. This information is critical to enhancing the enzymatic function of CRISPR–Cas9 towards improved genome editing.
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Authors (11)
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Pablo Ricardo Arantes dr
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Martin Jinek dr
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George Lisi dr
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Giulia Palermo dr
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Kyle East
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Jonas Binz
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Rohain Vsu
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Ahsan Mohd
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Erin Skeens
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Martin Pacesa
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Details
- Category:
- Articles
- Type:
- artykuły w czasopismach
- Published in:
-
Nature Catalysis
no. 5,
pages 912 - 922,
ISSN: 2520-1158 - Language:
- English
- Publication year:
- 2022
- Bibliographic description:
- Nierzwicki Ł., Arantes P. R., Jinek M., Lisi G., Palermo G., East K., Binz J., Vsu R., Mohd A., Skeens E., Pacesa M.: Principles of target DNA cleavage and the role of Mg2+ in the catalysis of CRISPR–Cas9// Nature Catalysis -Vol. 5, (2022), s.912-922
- DOI:
- Digital Object Identifier (open in new tab) 10.1038/s41929-022-00848-6
- Sources of funding:
-
- Free publication
- Verified by:
- Gdańsk University of Technology
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