You can dock the scaffold and receptor chains together
using ZDOCK by checking 'yes'. ZDOCK is a Fast Fourier Transform
based protein docking programs authored and maintained by
Zhiping Weng's lab (ZLAB) at the University of Massachusetts Medical School.
Pierce BG, Wiehe K, Hwang H, Kim BH, Vreven T, Weng Z. (2014) ZDOCK Server: Interactive Docking Prediction of Protein-Protein Complexes and Symmetric Multimers. Bioinformatics 30(12): 1771-3.