Scoring and refinement of predicted protein–protein complexes

Docking approaches typically result in a large number of putative protein–protein complexes. The selection of the most realistic predicted complex by an appropriate scoring function is an important step of the modelling process. In addition, an initially selected complex structure often requires structural refinement to arrive at an accurately structural model of the complex. A variety of scoring and refinement methods have been developed in recent years. The chapter is intended to introduce and discuss the most relevant methods for evaluating and refining predicted protein–protein complex structures.