Catalyzes the phosphorylation of 2-keto-3-deoxygluconate (KDG) to produce 2-keto-3-deoxy-6-phosphogluconate (KDPG). Is specific for KDG. 2-dehydro-3-deoxy-D-gluconate + ATP = 2-dehydro-3-deoxy-6-phospho-D-gluconate + ADP + H(+) Probably activated by phosphorylation and inhibited by dephosphorylation. Optimum pH is 4.0-5.0. Optimum temperature is 70 degrees Celsius. Homooctamer. Belongs to the eukaryotic-type N-acetylglucosamine kinase family.