The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems

Sterpone, FabioMelchionna, SimoneTuffery, PierrePasquali, SamuelaMousseau, NormandCragnolini, TristanChebaro, YassmineSt-Pierre, Jean-FrancoisKalimeri, MariaBarducci, AlessandroLaurin, YoannTek, AlexBaaden, MarcPhuong, Hoang NguyenDerreumaux, Philippe2014-08-292014-08-292014-08-29201410.1039/c4cs00048jhttps://infoscience.epfl.ch/handle/20.500.14299/106169WOS:000337131200025The OPEP coarse-grained protein model has been applied to a wide range of applications since its first release 15 years ago. The model, which combines energetic and structural accuracy and chemical specificity, allows the study of single protein properties, DNA-RNA complexes, amyloid fibril formation and protein suspensions in a crowded environment. Here we first review the current state of the model and the most exciting applications using advanced conformational sampling methods. We then present the current limitations and a perspective on the ongoing developments.The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systemstext::journal::journal article::review article