Author

M. Pacesa

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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Biochemistry· 3 Bioengineering· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Approach:experimental assay· 2 Research Focus:protein design· 2 Assay:protein structure· 2 Research Focus:protein folding & dynamics· 1 Assay:structural biology· 1

Frequent Co-Authors

A. Marchand· 2 shared B. E. Correia· 2 shared M. Bronstein· 2 shared M. Jinek· 2 shared P. Gainza· 2 shared S. Buckley· 2 shared S. Georgeon· 2 shared A. Clery· 1 shared

Activity by Year

2021-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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2 shared papersBiochemistry

A. Marchand

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Author profile →

4 papers

Recent·Most cited

Targeting protein-ligand neosurfaces using a generalizable deep learning approach

A. Marchand, S. Buckley, A. Schneuing, M. Pacesa, P. Gainza, E. Elizarova, R. M. Neeser, P.-W. Lee, L. Reymond, M. Elia, L. Scheller, S. Georgeon, J. Schmidt, P. Schwaller, S. J. Maerkl, , B. E. Correia

This paper designs proteins that target neosurfaces from protein-ligand complexes using a deep learning approach, validated experimentally against three drug-bound protein complexes.

bioRxiv · Mar 25, 2024 · PreprintBiochemistry

De novo design of site-specific protein interactions with learned surface fingerprints

P. Gainza, S. Wehrle, A. Van Hall-Beauvais, A. Marchand, A. Scheck, Z. Harteveld, D. Ni, S. Tan, F. Sverrisson, C. Goverde, P. Turelli, C. Raclot, A. Teslenko, M. Pacesa, S. Rosset, , B. E. Correia

This paper designs novel protein interactions using geometric deep learning to generate surface fingerprints, achieving nanomolar affinity for four targets through computational and experimental methods.

bioRxiv · Jun 16, 2022 · PreprintBioengineering

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

Mechanism of R-loop formation and conformational activation of Cas9

M. Pacesa, L. Loeff, I. Querques, L. M. Muckenfuss, M. Sawicka, M. Jinek

This study reports cryo-EM structures of Cas9 during R-loop formation, revealing conformational changes that activate the nuclease domain and improve understanding of its specificity.

bioRxiv · Sep 16, 2021Biochemistry