The binding of Ca 2؉ to the 70 -80 loop of protein C inhibits protein C activation by thrombin in the absence of thrombomodulin (TM), but the metal ion is required for activation in the presence of TM. Structural data suggests that the 70 -80 loop is located between two antiparallel  strands comprised of residues 64 -69 and 81-91 on the protease domain of protein C. To test the hypothesis that a salt-bridge͞hydrogen bond interaction between Arg-67 of the former strand and Asp-82 of the latter strand modulates the unique Ca 2؉ -binding properties of protein C, we engineered a disulfide bond between the two strands by substituting both Arg-67 and Asp-82 with Cys residues. The activation of this mutant was enhanced 40-to 50-fold independent of TM and Ca 2؉ . Furthermore, the Arg-67 to Ala mutant of protein C was activated in the absence of TM by the Arg-35 to Glu mutant of thrombin with the same efficiency as wild-type protein C by wild-type thrombin-TM complex. These results suggest that TM functions by alleviating the Ca 2؉ -dependent inhibitory interactions of Arg-67 of protein C and Arg-35 of thrombin. P rotein C is a multidomain vitamin K-dependent plasma serine protease zymogen that, upon activation by thrombin in complex with thrombomodulin (TM), down-regulates the coagulation cascade by inactivating factors Va and VIIIa by limited proteolysis (1-3). The activation of protein C by thrombin is a Ca 2ϩ -dependent reaction (4, 5). The metal ion is an obligatory cofactor for activation by thrombin in the presence of TM, but it is inhibitory for activation when TM is absent (4, 5). The Ca 2ϩ -binding site responsible for the paradoxical effect of the metal ion has been localized to the 70-80 loop (chymotrypsinogen numbering system; ref. 6) on the protease domain of protein C (7, 8), the same loop that also interacts with Ca 2ϩ in other vitamin K-dependent coagulation proteases and in trypsin (9). TM or the TM fragment containing epidermal growth factor-like domains 4, 5, and 6 (TM456) improves the catalytic efficiency of thrombin toward protein C in the presence of Ca 2ϩ by approximately three orders of magnitude by improving both the K m and k cat of the activation reaction (1). The mechanism by which TM and Ca 2ϩ exert their cofactor function is not well understood. An attractive hypothesis is that the binding of Ca 2ϩ to the 70-80 loop of protein C is associated with a conformational change in the zymogen (10, 11) that is optimal for interaction with thrombin in the presence of TM but inhibitory for interaction in the absence of the cofactor (1, 12). Based on this model of protein C activation, it is thought that the Ca 2ϩ -altered conformation of protein C is complementary to the TM-altered conformation of thrombin (1, 12). In support of a TM-induced conformational change in thrombin, in a recent study, we demonstrated that the activation of protein C by Arg-35 to Glu or Ala substitution mutants of thrombin is partially TM-and Ca 2ϩ -independent, suggesting that TM modulates the conformation of the 37 loop o...