We previously found that the pro-apoptotic DNA damaging agent, cisplatin, mediated the proteasome-dependent degradation of DNp63a associated with its increased phosphorylated status. Since DNp63a usually plays an opposite role to p53 and TAp63 in human cancers, we tested the notion that phosphorylation events induced by DNA damage would affect the protein degradation of DNp63a in HNSCC cells upon cisplatin exposure. We found that DNp63a is phosphorylated in the time-dependent fashion at the following positions: S385, T397 and S466, which were surrounded by recognition motifs for ATM, CDK2 and p70s6K kinases, respectively. We showed that chemical agents or siRNA inhibiting the activity of ATM, CDK2 and p70s6K kinases blocked degradation of DNp63a in HNSCC cells after cisplatin exposure. Site-specific mutagenesis of DNp63a residues targeted for phosphorylation by ATM, CDK2 or p70s6k led to dramatic modulation of DNp63a degradation. Finally, we demonstrated that the DNp63a protein is a target for direct in vitro phosphorylation by ATM, CDK2 or p70s6K. Our results implicate specific kinases, and target phosphorylation sites in the degradation of DNp63a following DNA damage.