Chargé de Recherche, CNRS
+33 4 91 16 45 22
Equipe / Group: BIP 04
Thème(s) transverse(s) / Cross-cutting theme(s): Adaptation et Dynamics
I obtained my PhD in 2013 on Chemical science at University of Siena (Italy) with a thesis focused on the application of SDSL-EPR spectroscopy and other techniques in the field of structural biology of proteins. In this occasion (2011-2012), I visited also the Dep. Chemistry & Biochemistry at the UCLA (Los Angeles, USA) (supervisor: prof. W.L. Hubbell) to acquire more knowledge about SDSL-EPR methodologies.
Successively, I covered different postdoctoral positions:
2015-2017: Lab. BIP (CNRS, Marseille, France)
2017-2020. CERM (Univ. Firenze, Italy)
2020-2022: Lab. BIP (CNRS, Marseille, France)
During this period, I worked on different research projects mainly focused on the application of SDSL-EPR experiments integrated with other spectroscopies (specifically NMR spectroscopy) to investigate protein dynamics, conformational chnages and functionalities. Additionally, I participated in the development of innovative strategies to probe biomolecules in their native environments with in-cell EPR measurements.
From 2022, I am a permanent researcher at BIP laboratory in the team of « Structural flexibility of biomolecules in complex environments ». A large part of my research activities are focused on the application of SDSL-EPR spectroscopy to understand the structure-function relationships of flexible proteins, such as molecular chaperones (i.e. E.coli YecA). I am also applying this biophysical methods also to understand the biogenesis and the mechanisms of action of large multi-protein complexes (i.e. P.aeruginosa Type 2 Secretion Systems or Non-homologous End Joining pathway in humans).
Another part of my research activities aims to develop innovative SDSL strategies and in-cell EPR experiments to extend its application in the context of structural biology of proteins. For example, I currently applied spin labeling approaches based on unnatural amino acids and genetic code expansion technologies to carry out intracellular labelling reactions. In addition, our group aims to elaborate innovative methods relying on Protein-trans splicing to overcome limitations and to apply orthogonal SDSL reactions (i.e. Gd(III)-tags and nitroxide spin labels).
Finally, our research team is also developing advanced strategies aiming to exploit genome-editing technologies (CRISPR-cas) to carry out intracellular SDSL reactions and in-cell EPR experiments on proteins at real physiological conditions.
Collaborations:
– R. Voulhoux (LCB, CNRS-Aix/Marseille Univ, France)
– F. Di Pisa (IBF, CNR-Milan, Italy)
– M. De Rosa (IBF, CNR-Milan, Italy)
– S.Ciofi Baffoni (CERM, Univ Firenze, Italy)
– D. Byrne (IMM,CNRS-Marseille, France)
Publications
ORCID id: 0000-0002-4226-2864
2025
Alessio Bonucci, Tingting Wang, Hakima Baroudi, Emilien Etienne, Guillaume Gerbaud, Elisabetta Mileo, Goetz Parsiegla, Takahisa Yamato, Brigitte Gontero, Hélène Launay, Valérie Belle, Véronique Receveur‐Bréchot.
Hidden protein disorder: Deciphering the structural organisation and dynamics of a non‐canonical CP12 from the diatom Thalassiosira pseudonana.
The FEBS Journal, 2025.
DOI: 10.1111/febs.70187
HAL: hal-05169659
2024
Duc-Duy Vu, Alessio Bonucci, Manon Brenière, Metztli Cisneros-Aguirre, Philippe Pelupessy, Ziqing Wang, Ludovic Carlier, Guillaume Bouvignies, Patricia Cortes, Aneel K. Aggarwal, Martin Blackledge, Zoher Gueroui, Valérie Belle, Jeremy M. Stark, Mauro Modesti, Fabien Ferrage.
Multivalent interactions of the disordered regions of XLF and XRCC4 foster robust cellular NHEJ and drive the formation of ligation-boosting condensates in vitro.
Nat Struct Mol Biol, 2024.
DOI: 10.1038/s41594-024-01339-x
HAL: hal-05183999
Annalisa Pierro, Alessio Bonucci, Axel Magalon, Valérie Belle, Elisabetta Mileo.
Impact of Cellular Crowding on Protein Structural Dynamics Investigated by EPR Spectroscopy.
Chem. Rev., 2024, 124 (17), 9873 - 9898.
DOI: 10.1021/acs.chemrev.3c00951
HAL: hal-04708281
Marlène Martinho, Diane Allegro, Emilien Etienne, Cynthia Lohberger, Alessio Bonucci, Valérie Belle, Pascale Barbier.
Structural Flexibility of Tau in Its Interaction with Microtubules as Viewed by Site-Directed Spin Labeling EPR Spectroscopy.
Methods in Molecular Biology, 2024, 2754, 55 - 75.
DOI: 10.1007/978-1-0716-3629-9_3
HAL: hal-04532622v1
2023
Guillaume Gerbaud, Brice Barbat, Mathilde Tribout, Emilien Etienne, Valérie Belle, Badreddine Douzi, Romé Voulhoux, Alessio Bonucci.
Refining the Dynamic Network of T2SS Endopilus Tip Heterocomplex Combining cw‐EPR and Nitroxide–Gd III Distance Measurements.
ChemBioChem, 2023, 24 (15), e2023000.
DOI: 10.1002/cbic.202300099
HAL: hal-04210232v1
Emilien Etienne, Annalisa Pierro, Ketty C. Tamburrini, Alessio Bonucci, Elisabetta Mileo, Marlène Martinho, Valérie Belle.
Guidelines for the Simulations of Nitroxide X-Band cw EPR Spectra from Site-Directed Spin Labeling Experiments Using SimLabel.
Molecules, 2023, 28 (3), 1348.
DOI: 10.3390/molecules28031348
HAL: hal-03971418v1
2022
Annalisa Pierro, Alessio Bonucci, Davide Normanno, Mireille Ansaldi, Eric Pilet, Olivier Ouari, Bruno Guigliarelli, Emilien Etienne, Guillaume Gerbaud, Axel Magalon, Valérie Belle, Elisabetta Mileo.
Probing Structural Dynamics of a Bacterial Chaperone in Its Native Environment by Nitroxide‐Based EPR Spectroscopy.
Chemistry A European J, 2022.
DOI: 10.1002/chem.202202249
HAL: hal-03836431
2021
Annalisa Pierro, Alessio Bonucci, Valérie Belle, Elisabetta Mileo.
La RPE in cellula : étudier la dynamique des protéines dans leur habitat.
Actualité Chimique, 2021, 468, 38-41.
(voir / see)
HAL: hal-03855076v1
F. Torricella, A. Pierro, E. Mileo, V. Belle, A. Bonucci.
Nitroxide spin labels and EPR spectroscopy: A powerful association for protein dynamics studies.
Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 2021, 1869 (7), 140653.
DOI: 10.1016/j.bbapap.2021.140653
HAL: hal-03441104v1
2020
A. Bonucci, M. G. Murrali, L. Banci, R. Pierattelli.
A combined NMR and EPR investigation on the effect of the disordered RGG regions in the structure and the activity of the RRM domain of FUS.
Sci Rep, 2020, 10 (1).
DOI: 10.1038/s41598-020-77899-x
Alessio Bonucci, Olivier Ouari, Bruno Guigliarelli, Valérie Belle, Elisabetta Mileo.
In‐Cell EPR: Progress towards Structural Studies Inside Cells.
ChemBioChem, 2020, 21 (4), 451 - 460.
DOI: 10.1002/cbic.201900291
HAL: hal-02180300v1
2019
Panagis Polykretis, Enrico Luchinat, Alessio Bonucci, Andrea Giachetti, Melissa A. Graewert, Dmitri I. Svergun, Lucia Banci.
Conformational characterization of full-length X-chromosome-linked inhibitor of apoptosis protein (XIAP) through an integrated approach.
Int Union Cryst J, 2019, 6 (5), 948 - 957.
DOI: 10.1107/S205225251901073X
Pasquale Linciano, Cecilia Pozzi, Lucia dello Iacono, Flavio di Pisa, Giacomo Landi, Alessio Bonucci, Sheraz Gul, Maria Kuzikov, Bernhard Ellinger, Gesa Witt, Nuno Santarem, Catarina Baptista, Caio Franco, Carolina B. Moraes, Wolfgang Müller, Ulrike Wittig, Rosaria Luciani, Antony Sesenna, Antonio Quotadamo, Stefania Ferrari, Ina Pöhner, Anabela Cordeiro-da-Silva, Stefano Mangani, Luca Costantino, Maria Paola Costi.
Enhancement of Benzothiazoles as Pteridine Reductase-1 Inhibitors for the Treatment of Trypanosomatidic Infections.
J. Med. Chem., 2019, 62 (8), 3989 - 4012.
DOI: 10.1021/acs.jmedchem.8b02021
2018
Ganesan Karthikeyan, Alessio Bonucci, Gilles Casano, Guillaume Gerbaud, Sébastien Abel, Virginie Thomé, Laurent Kodjabachian, Axel Magalon, Bruno Guigliarelli, Valérie Belle, Olivier Ouari, Elisabetta Mileo.
A Bioresistant Nitroxide Spin Label for In-Cell EPR Spectroscopy: In Vitro and In Oocytes Protein Structural Dynamics Studies.
Angew. Chem. Int. Ed., 2018, 57, 1366 - 1370.
DOI: 10.1002/anie.201710184
HAL: hal-02000559v1
2017
Joanna Panecka-Hofman, Ina Pöhner, Francesca Spyrakis, Talia Zeppelin, Flavio Di Pisa, Lucia Dello Iacono, Alessio Bonucci, Antonio Quotadamo, Alberto Venturelli, Stefano Mangani, Maria Paola Costi, Rebecca C. Wade.
Comparative mapping of on-targets and off-targets for the discovery of anti-trypanosomatid folate pathway inhibitors.
Biochimica et Biophysica Acta (BBA) - General Subjects, 2017, 1861 (12), 3215 - 3230.
DOI: 10.1016/j.bbagen.2017.09.012
HAL: hal-01809565v1
Marta Palombo, Alessio Bonucci, Emilien Etienne, Stefano Ciurli, Vladimir N. Uversky, Bruno Guigliarelli, Valérie Belle, Elisabetta Mileo, Barbara Zambelli.
The relationship between folding and activity in UreG, an intrinsically disordered enzyme.
Sci Rep, 2017, 89 (1), 392.
DOI: 10.1038/s41598-017-06330-9
HAL: hal-01585289v1