New paper on Scientific Reports

Marco S. Nobile, Associate Professor with the Ca' Foscari University of Venice, Italy

New paper on Scientific Reports

Self-assembling peptides can be useful for clinical applications, for instance as scaffolds based on beta-sheets motifs.

The dynamic evolution and self-assemly of peptide systems can be investigated in silico by using molecular dynamics. In particular, coarse-grained simulation exploiting MARTINI force fields can strongly reduce the overall running time and still provide useful information.

In a recent paper published on Scientific Reports we showed that the identification and characterization of beta-sheets in MARTINI-based moleculary dynamics simulations can be effectively solved by means of hyper-graphs. We named this approach HyperBeta. In order to simplify the analysis of the results, HyperBeta is also shipped with a visualization tool named HVT, which leverages all kind of visual cue to assist the interpretation of the resulting 3D structures.

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