Coarse-grained and All-atom Simulations towards the Early and Late Steps of Amyloid Fibril Formation
M. Chiricotto
,
T. T. Tran
,
P. H. Nguyen
,
S. Melchionna
,
Fabio Sterpone
,
et al.
Article dans une revue
hal-01497997v1
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Stability Effect of Quinary Interactions Reversed by Single Point Mutations
David Gnutt
,
Stepan Timr
,
Jonas Ahlers
,
Benedikt König
,
Emily Manderfeld
,
et al.
Article dans une revue
hal-02360012v1
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MOLECULAR MODELLING AND SIMULATION: FROM BIOLOGICAL SYSTEMS TO MATERIALS
Fabio Sterpone
Theoretical and/or physical chemistry. Université Denis Diderot 2012
HDR
tel-01541650v1
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Multiscale simulation of molecular processes in cellular environments
Mara Chiricotto
,
Fabio Sterpone
,
Philippe Derreumaux
,
Simone Melchionna
Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences , 2016, 374 (2080),
⟨10.1098/rsta.2016.0225⟩
Article dans une revue
hal-01497978v1
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Hydrodynamic effects on beta-amyloid (16-22) peptide aggregation
Mara Chiricotto
,
Simone Melchionna
,
Philippe Derreumaux
,
Fabio Sterpone
Article dans une revue
hal-01497984v1
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Binding site plasticity regulation of the FimH catch-bond mechanism
Olivier Languin-Cattoën
,
Fabio Sterpone
,
Guillaume Stirnemann
Article dans une revue
hal-04234999v1
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Explicit Models of Motion to Understand Protein Side-Chain Dynamics
Nicolas Bolik-Coulon
,
Olivier Languin-Cattoën
,
Diego Carnevale
,
Milan Zachrdla
,
Damien Laage
,
et al.
Article dans une revue
hal-03861436v1
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How protein Surfaces Induce nomalous Dynamics of Hydration Water
Francesso Pizzitutti
,
Massimo Marchi
,
Fabio Sterpone
,
Peter Rossky
Journal of Physical Chemistry B , 2007, pp.7584-7590
Article dans une revue
hal-00264535v1
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OPEP6: A New Constant-pH Molecular Dynamics Simulation Scheme with OPEP Coarse-Grained Force Field
Fernando Luís Barroso da Silva
,
Fabio Sterpone
,
Philippe Derreumaux
Article dans une revue
hal-02360037v1
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Molecular dynamics simulations reveal statistics and microscopic mechanisms of water permeation in membrane-embedded artificial water channel nanoconstructs
Arthur Hardiagon
,
Samuel Murail
,
Li-Bo Huang
,
Arie van Der Lee
,
Fabio Sterpone
,
et al.
Article dans une revue
hal-03410227v1
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Hydroxy Channels–Adaptive Pathways for Selective Water Cluster Permeation
Li-Bo Huang
,
Arthur Hardiagon
,
Istvan Kocsis
,
Cristina-Alexandra Jegu
,
Mihai Deleanu
,
et al.
Article dans une revue
hal-03364954v2
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Thermal activation of 'allosteric- like' large-scale motions in a eukaryotic Lactate Dehydrogenase
Marina Katava
,
Marco Maccarini
,
Guillaume Villain
,
Alessandro Paciaroni
,
Michael Sztucki
,
et al.
Article dans une revue
hal-01473622v1
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The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems
Fabio Sterpone
,
Simone Melchionna
,
Pierre Tuffery
,
Samuela Pasquali
,
Normand Mousseau
,
et al.
Article dans une revue
hal-04193590v1
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Structures of the Alzheimer\textquoterights Wild-Type A beta 1-40 Dimer from Atomistic Simulations
Bogdan Tarus
,
Thanh T. Tran
,
Jessica Nasica-Labouze
,
Fabio Sterpone
,
Phuong H. Nguyen
,
et al.
Article dans une revue
hal-01498010v1
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Biochemical, structural and dynamical characterizations of the lactate dehydrogenase from Selenomonas ruminantium provide information about an intermediate evolutionary step prior to complete allosteric regulation acquisition in the super family of lactate and malate dehydrogenases
Quentin Bertrand
,
Sandrine Coquille
,
Antonio Iorio
,
Fabio Sterpone
,
Dominique Madern
Article dans une revue
hal-04264065v1
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Inquiring Protein Thermostability: Is Resistance to Temperature Stress a Rigidity/Flexibility Trade-off?
Maria Kalimeri
,
Simone Melchionna
,
Fabio Sterpone
Proceedings of the European Conference on Complex Systems 2012 , Springer International Publishing, 2013
Chapitre d'ouvrage
hal-01498090v1
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Using Computer Simulations and Virtual Reality to Understand, Design and Optimize Artificial Water Channels
Xavier Martinez
,
Arthur Hardiagon
,
Hubert Santuz
,
Samuel Murail
,
Mihail Barboiu
,
et al.
Lecture Notes in Bioengineering / Advances in Bionanomaterials II Selected Papers from the 3rd International Conference on Bio and Nanomaterials, BIONAM 2019, September 29 – October 3, 2019 , pp.78-99, 2020,
⟨10.1007/978-3-030-47705-9_8⟩
Chapitre d'ouvrage
hal-02944941v1
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Aggregation of disease-related peptides
Phuong H. Nguyen
,
Fabio Sterpone
,
Philippe Derreumaux
Progress in Molecular Biology and Translational Science , 170, Elsevier, pp.435-460, 2020, Computational Approaches for Understanding Dynamical Systems: Protein Folding and Assembly,
⟨10.1016/bs.pmbts.2019.12.002⟩
Chapitre d'ouvrage
hal-03087681v1
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Reorientation and Allied Dynamics in Water and Aqueous Solutions
Damien Laage
,
Guillaume Stirnemann
,
Fabio Sterpone
,
Rey Rossend
,
James T Hynes
Annual Review of Physical Chemistry , 2011, 62, pp.395--416
Article dans une revue
hal-01498125v1
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Importance of the Ion-Pair Interactions in the OPEP Coarse-Grained Force Field: Parametrization and Validation
Fabio Sterpone
,
Phuong H. Nguyen
,
Maria Kalimeri
,
Philippe Derreumaux
Article dans une revue
hal-01498059v1
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Modelling lipid systems in fluid with Lattice Boltzmann Molecular Dynamics simulations and hydrodynamics
Astrid F. Brandner
,
Stepan Timr
,
Simone Melchionna
,
Philippe Derreumaux
,
Marc Baaden
,
et al.
Article dans une revue
hal-02370975v1
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Sequestration of Proteins in Stress Granules Relies on the In-Cell but Not the In Vitro Folding Stability
Nirnay Samanta
,
Sara Ribeiro
,
Mailin Becker
,
Emeline Laborie
,
Roland Pollak
,
et al.
Article dans une revue
hal-03827043v1
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Multilevel Lattice Boltzmann-Particle Dynamics simulations at the Physics-Biology interface
Fabio Sterpone
,
Massimo Bernaschi
,
Simone Melchionna
,
Philippe Derreumaux
,
Sauro Succi
XXIXth IUPAP Conference on Computational Physics CCP2017 9–13 July 2017, Paris, France , Jul 2017, Paris, France
Communication dans un congrès
hal-02359987v1
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Stabilizing or Destabilizing: Simulations of Chymotrypsin Inhibitor 2 under Crowding Reveal Existence of a Crossover Temperature
Stepan Timr
,
Fabio Sterpone
Article dans une revue
hal-03139158v1
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Early Stage of the Dehydrogenation of NaAlH4 by Ab Initio Rare Event Simulations
Fabio Sterpone
,
Sara Bonella
,
Simone Meloni
Article dans une revue
hal-01498114v1
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Thermophilic proteins: insight and perspective from in silico experiments
Fabio Sterpone
,
Simone Melchionna
Article dans une revue
hal-01498109v1
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Optimized OPEP Force Field for Simulation of Crowded Protein Solutions
Stepan Timr
,
Simone Melchionna
,
Philippe Derreumaux
,
Fabio Sterpone
Article dans une revue
hal-04234930v1
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Dynamics and Structures of Amyloid Aggregates under Fluid Flows
Antonio Iorio
,
Simone Melchionna
,
Philippe Derreumaux
,
Fabio Sterpone
Article dans une revue
pasteur-04534373v1
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Magnitude and Molecular Origin of Water Slowdown Next to a Protein
Fabio Sterpone
,
Guillaume Stirnemann
,
Damien Laage
Article dans une revue
hal-01498111v1
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Stability and Function at High Temperature. What Makes a Thermophilic GTPase Different from Its Mesophilic Homologue
Marina Katava
,
Maria Kalimeri
,
Guillaume Stirnemann
,
Fabio Sterpone
Article dans une revue
hal-01497992v1
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