Gilberto P. Pereira

Université Claude Bernard Lyon 1 — France

Biochemistry, Genetics and Molecular Biology · Life Sciences

9h-index200citations22works7.62yr avg
OpenAlex↗ORCID↗Google Scholar↗Lab page↗

Accepting Students?

No reports yet. Know if this professor is taking students?

Research Topics

Protein Structure and Dynamics(9), Protein Degradation and Inhibitors(6), Computational Drug Discovery Methods(4), Peptidase Inhibition and Analysis(4), Monoclonal and Polyclonal Antibodies Research(3)

Publications22 total

Fast Parametrization of Martini3 Models for Fragments and Small Molecules
Journal of Chemical Theory and Computation·2025· 1 cited
Fast parameterization of Martini3 models for fragments and small molecules
2025· 1 citedOpen Access
Challenges in predicting PROTAC-mediated protein–protein interfaces with AlphaFold reveal a general limitation on small interfaces
Bioinformatics Advances·2024· 13 citedOpen Access
Spc2 modulates substrate- and cleavage site-selection in the yeast signal peptidase complex
The Journal of Cell Biology·2024Open Access
Bartender: Martini 3 Bonded Terms via Quantum Mechanics-Based Molecular Dynamics
Journal of Chemical Theory and Computation·2024· 15 citedOpen Access
Bartender: Martini 3 Bonded Terms via Quantum Mechanics-based Molecular Dynamics
2024· 1 citedOpen Access
Assessing the Martini 3 protein model: A review of its path and potential
Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics·2024· 26 cited
Challenges in predicting PROTAC-mediated Protein-Protein Interfaces with AlphaFold reveal a General Limitation on Small Interfaces
2024· 9 citedOpen Access
Bartender: Martini 3 Bonded Terms via Quantum Mechanics-based Molecular Dynamics
2024· 2 citedOpen Access
Rational Prediction of PROTAC-Compatible Protein–Protein Interfaces by Molecular Docking
Journal of Chemical Information and Modeling·2023· 27 citedOpen Access
Data_for_Rational_Prediction_of_PROTAC_Compatible_PPI
Zenodo (CERN European Organization for Nuclear Research)·2023Open Access
Data_for_Rational_Prediction_of_PROTAC_Compatible_PPI
Zenodo (CERN European Organization for Nuclear Research)·2023Open Access
Rational Prediction of PROTAC-compatible Protein-Protein Interfaces by Molecular Docking
2023· 1 citedOpen Access
Capturing the Recognition Dynamics of <i>para</i> -Sulfonato-calix[4]arenes by Cytochrome c: Toward a Quantitative Free Energy Assessment
Journal of Chemical Information and Modeling·2022· 12 cited
Review: Towards design of drugs and delivery systems with the Martini coarse-grained model — R0/PR1
2022Open Access
Capturing the recognition dynamics of para-sulfonato- calix[4]arenes by cytochrome c: towards a quantitative free energy assessment
2022Open Access
Towards design of drugs and delivery systems with the Martini coarse-grained model
QRB Discovery·2022· 39 citedOpen Access
Accurate prediction of ligand-binding affinities in solution by molecular dynamics simulations
Serveur des thèses de l'Université de Strasbourg (University of Strasbourg)·2021Open Access
Multibasin Quasi-Harmonic Approach for the Calculation of the Configurational Entropy of Small Molecules in Solution
Journal of Chemical Theory and Computation·2021· 19 cited
The Glycine Receptor Allosteric Ligands Library (GRALL)
Bioinformatics·2020· 30 citedOpen Access
page 1 of 2Next →

Frequent Co-authors

Paulo C. T. Souza(15), Sangwook Wu(9), Juliette Martin(8), Brian Jiménez‐García(6), Marco Cecchini(6), Alessio Bartocci(4), Riccardo Pellarin(4), Guillaume Launay(4), Luís Borges-Araújo(4), Lisbeth R. Kjølbye(3), Riccardo Alessandri(3), Moisés Domínguez(3), Rocío Araya‐Osorio(3), Linus Grünewald(3), ‪Siewert J. Marrink(3), Raúl Mera‐Adasme(3), Martina Pannuzzo(2), Simone Albani(2), Alessandro Marchetto(2), Giulia Rossetti(2)