Structure of the interferon-receptor complex determined by distance constraints from double-mutant cycles and flexible docking.
Roisman LC, Piehler J, Trosset JY, Scheraga HA, Schreiber G, Proc Natl Acad Sci U S A, 2001 Nov 6 - link

New general approach for determining the solution structure of a ligand bound weakly to a receptor: structure of a fibrinogen Aalpha-like peptide bound to thrombin (S195A) obtained using NOE distance constraints and an ECEPP/3 flexible docking program.
Maurer MC, Trosset JY, Lester CC, DiBella EE, Scheraga HA, Proteins, 1999 Jan 1 - link

Reaching the global minimum in docking simulations: a Monte Carlo energy minimization approach using Bezier splines.
Trosset JY, Scheraga HA, Proc Natl Acad Sci U S A, 1998 Jul 7 - link