The high affinity interaction between the urokinase-type plasminogen activator (uPA) and its glycolipid-anchored receptor (uPAR) is decisive for cell surface-associated plasminogen activation. Because plasmin activity controls fibrinolysis in a variety of pathological conditions, including cancer and wound healing, several intervention studies have focused on targeting the uPA⅐uPAR interaction in vivo. Evaluations of such studies in xenotransplanted tumor models are, however, complicated by the pronounced species selectivity in this interaction. We now report the molecular basis underlying this difference by solving the crystal structure for the murine uPA⅐uPAR complex and demonstrate by extensive surface plasmon resonance studies that the kinetic rate constants for this interaction can be swapped completely between these orthologs by exchanging only two residues. This study not only discloses the structural basis required for a successful rational design of the species selectivity in the uPA⅐uPAR interaction, which is highly relevant for functional studies in mouse models, but it also suggests the possible development of general inhibitors that will target the uPA⅐uPAR interaction across species barriers.The urokinase-type plasminogen activator receptor (uPAR) 3 is a glycolipid-anchored membrane protein (1) that recognizes the serine protease urokinase-type plasminogen activator (uPA) and its zymogen (pro-uPA) with very high affinity and specificity (2). This interaction is exclusively mediated by the N-terminal growth factor-like domain (GFD 1-48 ) of uPA, and it is indispensable for the focalized uPA-mediated plasminogen activation that occurs at cell surfaces both in vitro (3, 4) and in vivo (5-7). Several independent studies have correlated uPAR expression in vivo to e.g. neutrophil infiltration (8 -10) and to various pathological conditions such as cancer invasion and metastasis (11-13), hepatic fibrin deposition (14, 15), and kidney barrier function (16). Accordingly, uPAR has been proposed as a promising molecular target for intervention and/or cytotoxin-based cancer therapies (14,17,18). With the goal of future monitoring efficacy of such treatment modalities, we have developed a high affinity peptide antagonist of the human uPA⅐uPAR interaction (19), which has proven well suited for non-invasive in vivo imaging of uPAR by positron emission tomography (20).The extracellular domains of uPAR comprise three homologous Ly-6/uPAR (LU)-type modules, all of which adopt the three-fingered folding topology that is defined by the structures of the single domain snake venom ␣-neurotoxins (21-23). Crystal structures recently solved for human uPAR in complex with the abovementioned peptide antagonist (24), the N-terminal fragment (ATF) of uPA (25), or the somatomedin B (SMB) domain of vitronectin (26) all confirm this topology, and more importantly, they consistently reveal the presence of a large hydrophobic uPA-binding cavity in uPAR that requires all three LU domains for its assembly. In total, Ͼ2000 Å 2 of solve...