We have examined the enzymatic activity of an uncleavable procaspase-3 mutant (D9A/D28A/D175A), which contains the wild-type catalytic residues in the active site. The results are compared to those for the mature caspase-3. Although at pH 7.5 and 25 degrees C the K(m) values are similar, the catalytic efficiency (k(cat)) is approximately 130-fold lower in the zymogen. The mature caspase-3 demonstrates a maximum activity at pH 7.4, whereas the maximum activity of procaspase-3 occurs at pH 8.3. The pK(a) values of both catalytic groups, H121 and C163, are shifted to higher pH for procaspase-3. We developed limited proteolysis assays using trypsin and V8 proteases, and we show that these assays allow the examination of amino acids in three of five active site loops. In addition, we examined the fluorescence emission of the two tryptophanyl residues in the active site over the pH range of 2.5-9 as well as the response to several quenching agents. Overall, the data suggest that the major conformational change that occurs upon maturation results in formation of the loop bundle among loops L4, L2, and L2'. The pK(a) values of both catalytic groups decrease as a result of the loop movements. However, loop L3, which comprises the bulk of the substrate binding pocket, does not appear to be unraveled and solvent-exposed, even at lower pH.

During maturation, procaspase-3 is cleaved at D175, which resides in a linker that connects the large and small subunits. The intersubunit linker also connects two active site loops that rearrange following cleavage and, in part, form the so-called loop bundle. As a result of chain cleavage, new hydrogen bonds and van der Waals contacts form among three active site loops. The new interactions are predicted to stabilize the active site. One unresolved issue is the extent to which the loop bundle residues also stabilize the procaspase active site. We examined the effects of replacing four loop bundle residues (E167, D169, E173, and Y203) on the biochemical and structural properties of the (pro)caspase. We show that replacing the residues affects the activity of the procaspase as well as the mature caspase, with D169A and E167A replacements having the largest effects. Replacement of D169 prevents caspase-3 autoactivation, and its cleavage at D175 no longer leads to an active enzyme. In addition, the E173A mutation, when coupled to a second mutation in the procaspase, D175A, may alter the substrate specificity of the procaspase. The mutations affected the active site environment as assessed by changes in fluorescence emission, accessibility to quencher, and cleavage by either trypsin or V8 proteases. High-resolution X-ray crystallographic structures of E167A, D173A, and Y203F caspases show that changes in the active site environment may be due to the increased flexibility of several residues in the N-terminus of the small subunit. Overall, the results show that these residues are important for stabilizing the procaspase active site as well as that of the mature caspase.

The interface of the procaspase-3 dimer plays a critical role in zymogen maturation. We show that replacement of valine 266, the residue at the center of the procaspase-3 dimer interface, with glutamate resulted in an increase in enzyme activity of ~60-fold, representing a pseudoactivation of the procaspase. In contrast, substitution of V266 with histidine abolished the activity of the procaspase-3 as well as that of the mature caspase. While the mutations do not affect the dimeric properties of the procaspase, we show that the V266E mutation may affect the formation of a loop bundle that is important for stabilizing the active site. In contrast, the V266H mutation affects the positioning of loop L3, the loop that forms the bulk of the substrate binding pocket. In some cases, the amino acids affected by the mutations are >20 Å from the interface. Overall, the results demonstrate that the integrity of the dimer interface is important for maintaining the proper active site conformation.Programmed cell death is dependent on the maturation of the effector caspases from latent zymogens. While the procaspases are present at relatively high concentrations in the cell, it is not clear why they are enzymatically inactive. The mature caspase is a dimer of heterodimeric units containing a large subunit (17 kDa) and a small subunit (12 kDa). In the procaspase monomer, the structural units are organized as a short pro domain (28 amino acids), the large subunit, an intersubunit linker (25 amino acids), and the small subunit. Two monomers assemble into the procaspase homodimer that consists of a contiguous 12-stranded β-sheet core with several helices surrounding the β-sheet (see Figure 1). The procaspase is cleaved at D175, in the intersubunit linker, to remove the covalent connection between the subunits. The pro domain is then removed after cleavage at D9 and then at D28. Recently determined structures of procaspase-7 (1, 2) show that the core structural unit of the procaspase is comparable to that of the mature caspase (see Figure 1). The primary differences reside in five active site loops (for a review, see ref 3). Following maturation of procaspase-7, only the position of loop L1 (residues 52-67, caspase-3 numbering) remains unaltered. The data show that the procaspase is not enzymatically active because loop L3 (residues 198-213) is unraveled and positioned away from the active site, and the catalytic C163 is rotated away from solvent so that it cannot attack the substrate. The positioning of † This work was supported by a grant from the National Institutes of Health (GM065970) NIH-PA Author ManuscriptNIH-PA Author Manuscript NIH-PA Author ManuscriptC163 is likely due to the covalent connection between loop L2 (residues 163-175) and the intersubunit linker (residues 176-192). Following cleavage at D175, loop L3 moves more than 10 Å toward the protein core to form the substrate binding pocket. Loop L2 moves toward L4, and the intersubunit linker, now called loop L2′, flips 180° to interact with loops L2 and L...

Changes in ionic homeostasis are early events leading up to the commitment to apoptosis. Although the direct effects of cations on caspase-3 activity have been examined, comparable studies on procaspase-3 are lacking. In addition, the effects of salts on caspase structure have not been examined. We have studied the effects of cations on the activities and conformations of caspase-3 and an uncleavable mutant of procaspase-3 that is enzymatically active. The results show that caspase-3 is more sensitive to changes in pH and ion concentrations than is the zymogen. This is due to the loss of both an intact intersubunit linker and the prodomain. The results show that, although the caspase-3 subunits reassemble to the heterotetramer, the activity return is low after the protein is incubated at or below pH 4.5 and then returned to pH 7.5. The data further show that the irreversible step in assembly results from heterotetramer rather than heterodimer dissociation and demonstrate that the active site does not form properly following reassembly. However, active-site formation is fully reversible when reassembly occurs in the presence of the prodomain, and this effect is specific for the propeptide of caspase-3. The data show that the prodomain facilitates both dimerization and active-site formation in addition to stabilizing the native structure. Overall, the results show that the prodomain acts as an intramolecular chaperone during assembly of the (pro)caspase subunits and increases the efficiency of formation of the native conformation.