Abstract
Organic–inorganic interactions are of high importance in several biological pro- cesses and in modern nanobiotechnological applications. Despite its signifi- cance in interface sciences, the basic mechanism of biomolecules’ specific binding to a surface is still not well understood. Current experimental methods have not reached the level either to follow the dynamics of interactions at the picosecond scale or to observe the surface morphology at the nanoscale level. The increasing interest in bio-interfaces particularly for engineering applica- tions demands proteins or peptides to be designed to recognize the inorganic surface with high specificity. Molecular simulation has been well adopted in the past couple of decades to decipher the protein–surface interactions at differ- ent levels of time and length scales. Several molecular simulation methods such as quantum mechanics, atomistic, and coarse grain simulations were employed in this domain of research, but the continuous improvements in interfacial force field (FF) development, availability of experimental data and new sampling methods make the atomistic simulation more attractive due to the offered accu- rate representation of protein adsorption behavior at the atomic level. However, the exactitude of such simulations entirely depends on the applied FF para- meters, conformational sampling, and the solvation effects. In this overview, we briefly summarize the applicability of different simulation methods and of interface FFs. We also present the recent advances in the simulation of protein– surface interactions, and the challenges posed by the current simulation meth- ods to reproduce the exact phenomenon. Future directions in this research field are also discussed.