Author's posts
Feb 07
Fast, Accurate, and System-Specific Variable-Resolution Modeling of Proteins
R. Fiorentini, T. Tarenzi, R. Potestio, Fast, Accurate, and System-Specific Variable-Resolution Modeling of Proteins, J. Chem. Inf. Model. (2023) In recent years, a few multiple-resolution modeling strategies have been proposed, in which functionally relevant parts of a biomolecule are described with atomistic resolution, with the remainder of the system being concurrently treated using a coarse-grained …
Nov 02
International Workshop on Complex Systems
The XVI International Workshop on Complex Systems will take place in Andalo from 13 to 17 March 2023. The workshop will point out new directions, challenges and opportunities in the following fields: Andalo is a beautiful village about 30 km far from Trento close to the ski slopes of the Paganella ski area. The program will be interdisciplinary and it will …
Oct 26
VARIAMOLS/HAMMOCK group retreat 2022
The SBP group members affiliated to the VARIAMOLS and HAMMOCK research projects have gathered in Fontana dei Gai, a mountain lodge near Trento, for a three-days group retreat. This event was aimed at both carrying out research work and team building. The event flyer can be seen here. A few pictures taken during the retreat …
Oct 26
Making sense of complex systems through resolution, relevance, and mapping entropy
R. Holtzman, M. Giulini, R. Potestio, Making sense of complex systems through resolution, relevance, and mapping entropy, Phys. Rev. E (2022) Complex systems are characterized by a tight, nontrivial interplay of their constituents, which gives rise to a multiscale spectrum of emergent properties. In this scenario, it is practically and conceptually difficult to identify those degrees …
Oct 26
Information-theoretical measures identify accurate low-resolution representations of protein configurational space
M. Mele, R. Covino, R. Potestio, Information-theoretical measures identify accurate low-resolution representations of protein configurational space, Soft Matter (2022) The steadily growing computational power employed to perform molecular dynamics simulations of biological macromolecules represents at the same time an immense opportunity and a formidable challenge. In fact, large amounts of data are produced, from which useful, …
Jun 29
Dynamic and facilitated binding of topoisomerase accelerates topological relaxation
D. Michieletto, Y. A. G. Fosado, E. Melas, M. Baiesi, L. Tubiana, E. Orlandini, Dynamic and facilitated binding of topoisomerase accelerates topological relaxation, Nucleic Acids Research (2022) How type 2 Topoisomerase (TopoII) proteins relax and simplify the topology of DNA molecules is one of the most intriguing open questions in genome and DNA biophysics. Most …
Jun 29
Stochastic dynamics and bound states of heavy impurities in a Fermi bath
M. Sighinolfi, D. De Boni, A. Roggero, G. Garberoglio, P. Faccioli, and A. Recati, Stochastic dynamics and bound states of heavy impurities in a Fermi bath, Phys Rev A (2022) We investigate the dynamics of heavy impurities embedded in an ultracold Fermi gas by using a generalized Langevin equation. The latter—derived by means of influence …
Jun 27
Membrane binding of pore-forming γ-hemolysin components studied at different lipid compositions
T. Tarenzi, G. Lattanzi. R. Potestio, Membrane binding of pore-forming γ-hemolysin components studied at different lipid compositions, BBA Biomembranes (2022) Methicillin-resistant Staphylococcus aureus is among those pathogens currently posing the highest threat to public health. Its host immune evasion strategy is mediated by pore-forming toxins (PFTs), among which the bi-component γ-hemolysin is one of the most common. The complexity …
Dec 02
Communication pathways bridge local and global conformations in an IgG4 antibody
T. Tarenzi, M. Rigoli and R. Potestio, Communication pathways bridge local and global conformations in an IgG4 antibody, Scientific Reports (2021) The affinity of an antibody for its antigen is primarily determined by the specific sequence and structural arrangement of the complementarity-determining regions (CDRs). Recent evidence, however, points toward a nontrivial relation between the CDR …
Oct 26
Honourable mention for poster presentation
Raffaele Fiorentini, SBP postdoc and member of the VARIAMOLS research group, received a honourable mention for his poster presentation at the EMBO workshop “Advances and Challenges in Biomolecular Simulations” held in October 2021. More information about this can be found at the following link.
