Author

G. Palermo

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biophysics· 6 Biochemistry· 1

Signature Assays, Organisms & Methods

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Research Focus:protein folding & dynamics· 6 Approach:biophysical modeling· 3 Approach:mechanistic / dynamical model· 2 Assay:structural biology· 2 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

P. R. Arantes· 4 shared G. P. Lisi· 3 shared M. Jinek· 3 shared A. Saha· 2 shared E. Skeens· 2 shared G. Jogl· 2 shared K. W. East· 2 shared M. Ahsan· 2 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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4 shared papersBiophysics

P. R. Arantes

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Author profile →

7 papers

Recent·Most cited

High-Fidelity, Hyper-Accurate, and Evolved Mutants Rewire Atomic Level Communication in CRISPR-Cas9

E. Skeens, S. Sinha, M. Ahsan, A. M. D'Ordine, G. Jogl, G. Palermo, G. P. Lisi

The paper investigates how specific mutations in the Rec3 domain of CRISPR-Cas9 variants affect structural dynamics and allosteric communication to enhance specificity.

bioRxiv · Aug 25, 2023 · PreprintBiophysics

RNA-mediated Allosteric Activation in CRISPR-Cas13a

S. Sinha, A. M. Molina Vargas, P. R. Arantes, A. C. Patel, M. R. O'Connell, G. Palermo

This study elucidates the allosteric activation mechanism of CRISPR-Cas13a using molecular dynamics simulations and experiments, revealing key residues critical for RNA cleavage selectivity.

bioRxiv · Jul 27, 2023Biophysics

An Alpha-helical Lid Guides the Target DNA toward Catalysis in CRISPR-Cas12a

A. Saha, M. Ahsan, P. R. Arantes, M. Schmitz, C. Chanez, M. Jinek, G. Palermo

This study reveals how the alpha-helical lid in CRISPR-Cas12a guides the DNA target strand toward the RuvC catalytic core through molecular dynamics simulations and experiments.

bioRxiv · Sep 5, 2022Biophysics

Structural basis for Cas9 off-target activity

M. Pacesa, C.-H. Lin, A. Clery, A. Saha, P. R. Arantes, K. Bargsten, M. J. Irby, F. H. Allain, G. Palermo, P. Cameron, P. D. Donohoue, M. Jinek

This study identifies structural mechanisms enabling Cas9 off-target activity through non-canonical base pairing and conformational changes.

bioRxiv · Nov 18, 2021Biochemistry

Enhanced Specificity Mutations Perturb Allosteric Signaling in CRISPR-Cas9

G. Palermo, L. Nierzwicki, K. W. East, U. N. Morzan, P. R. Arantes, G. P. Lisi, V. S. Batista

The paper investigates how specificity-enhancing mutations in CRISPR-Cas9 affect allosteric signaling, showing that mutations like K855A disrupt the HNH domain structure and signaling transfer more than others.

bioRxiv · Sep 14, 2021Biophysics

Allosteric Motions of the CRISPR-Cas9 HNH Nuclease Probed by NMR and Molecular Dynamics

K. W. East, J. C. Newton, U. N. Morzan, A. Acharya, E. Skeens, G. Jogl, V. S. Batista, G. Palermo, G. P. Lisi

This study uses NMR and GaMD simulations to investigate allosteric motions in the CRISPR-Cas9 HNH nuclease, revealing a dynamic pathway involved in DNA cleavage activation.

bioRxiv · Oct 10, 2019Biophysics

Molecular mechanism of off-target effects in CRISPR-Cas9

C. G. Ricci, J. S. Chen, Y. Miao, M. Jinek, J. A. Doudna, J. A. McCammon, G. Palermo

This paper uses molecular dynamics simulations to uncover the molecular mechanism of off-target effects in CRISPR-Cas9, identifying how DNA mismatches affect HNH domain activation and cleavage.

bioRxiv · Sep 19, 2018Biophysics