The cytotoxic mechanism of diphtheria toxin (DTx) is associated with its ability to inhibit protein synthesis by ADP-ribosylation of elongation factor 2. Although DTx intoxication leads to internucleosomal DNA cleavage and cell lysis, these events do not occur when protein synthesis is inhibited by alternative treatments (e.g., cycloheximide). Here we show that endonucleolytic degradation of DNA is an intrinsic activity of DTx and also of the crossreactive mutant protein CRM197. Assays using DNA-impregnated gels as well as linear and supercoiled DNA in solution revealed not only that CRM197 has nuclease activity but also that its specific activity is actually significantiy greater than that' of the wild-type molecule. Since CRM197 contains a single amino acid substitution that renders it incapable of ADP-ribosylation, we propose that the active sites for ADP-ribosyltrasferase and nuclease activities are distinct.Diphtheria toxin (DTx) is a well-characterized toxic protein (1, 2). It has two functional domains, A and B, which can be resolved by limited proteolytic digestion and reduction of an interchain disulfide bond. Intoxication of cells by DTx involves endocytosis of receptor-bound toxin. Once the toxin is sequestered in endosomes, acid-triggered conformational changes promote the translocation of fragment A to the cytosol (3-5). Fragment A then proceeds to catalyze the transfer ofthe ADP-ribosyl group ofNAD to the diphthamide residue of translational elongation factor 2 (EF-2). Recently we have discovered that DTx also exhibits a cationdependent nuclease activity (6). In this report we explore the relationship between the toxin's ADP-ribosyltransferase and nuclease activities. CRM197, a mutant DTx with a Gly -* Glu52 substitution in its A domain (7), is unable to ADPribosylate EF-2 in vitro because of its extremely low affinity for NAD (8,9 Nuclease Activity Assay in DNA-Containing Gels. Samples of cleaved DTx monomer, cleaved CRM197, and "intact" CRM197 were solubilized in SDS reducing buffer (containing 0.01% 2-mercaptoethanol) and electrophoresed in a SDS/ 12.5% polyacrylamide gel (10) prepared with 32P-labeled DNA [0.2 ng/ml; 800,000 cpm/ng of sonicated salmon sperm DNA radiolabeled by the primer-extension method (11, 12), as described (6)]. The stacking gel was omitted. The gels were pre-run at 170 V for 90 min. For nondenaturing gels, SDS was omitted and samples were not boiled. After electrophoresis, the DTx lanes were separated from the CRM197 lanes and each gel piece was washed three times (40 min per wash) with 100 ml of 40 mM Tris/0.04% NaN3, pH 7.6, at 22TC. The gel pieces were then incubated with the same buffer containing 2 mM CaCl2 and 2 mM MgCl2 for 24 hr at 300C (for SDS gels) or for 12 hr at 370C (for nondenaturing gels), prior to autoradiography (-850C, Kodak XAR film, DuPont Cronex screen).Cleavage of Supercoiled and Linear Plasmid DNA. CRM197, DNase I, and -DTx were incubated in 10 Al of 10 mM Tris, pH 7.6/2.5 mM CaCl2/2.5 mM MgCl2 with 0.2 ,Ag of linear (EcoRI-cleaved) pBluescr...