116 citations · 225 across the 11 of their papers we have counts for
11 papers
The energy landscape of DNA-binding proteins along the genome
Alessandro Pandolfi, Riccardo Beccaria, Guido Tiana
Reconstructing the energy profile of DNA-binding proteins along the genome requires an algorithm that quantifies efficiently the binding free energy. We assembled a dataset of prot…
Statistical mechanical properties of sequence space determine the efficiency of the various algorithms to predict interaction energies and native contacts from protein coevolution
G. Franco, M. Cagiada, G. Bussi +1
Studying evolutionary correlations in alignments of homologous sequences by means of an inverse Potts model has proven useful to obtain residue-residue contact energies and to pred…
Use of the Metropolis algorithm to simulate the dynamics of protein chains
G. Tiana, L. Sutto, R. A. Broglia
The Metropolis implementation of the Monte Carlo algorithm has been developed to study the equilibrium thermodynamics of many-body systems. Choosing small trial moves, the trajecto…
A folding inhibitor of the HIV-1 Protease
R. A. Broglia, D. Provasi, F. Vasile +3
Being the HIV-1 Protease (HIV-1-PR) an essential enzyme in the viral life cycle, its inhibition can control AIDS. The folding of single domain proteins, like each of the monomers f…
Design of amino acid sequences to fold into C_alpha-model proteins
A. Amatori, G. Tiana, L. Sutto +3
In order to extend the results obtained with minimal lattice models to more realistic systems, we study a model where proteins are described as a chain of 20 kinds of structureless…
Design of a folding inhibitor of the HIV-1 Protease
R. A. Broglia, G. Tiana, D. Provasi +4
Being HIV-1-PR an essential enzyme in the viral life cycle, its inhibition can control AIDS. Because the folding of single domain proteins, like HIV-1-PR is controlled by local ele…