Thrombin docked with RGD-hirudin. Thrombin is represented by its solvent-accessible surface, while hirudin is shown as a solid ribbon. (A) The best docking complex of RGD-hirudin and thrombin (pose 24). (B) Close-up of the region of the RGD-hirudin functional site in complex with thrombin. Residues of RGD-hirudin are in yellow. Residues of thrombin are in blue. Hydrogen bond interactions are indicated with dashed green lines.