Biophysical and biochemical characterization of recombinant human Pop2 deadenylase

Pop2, a component of the Ccr4–Not complex, functions as a deadenylase both in vitro and in vivo. In this research, we found that the recombinant human Pop2 (hPop2) mainly existed in a compact monomeric state with a α + β tertiary structure type. The percentages of the secondary structures evaluated from the CD spectrum were about 37% α-helix, 14% β-sheet, and 19% β-turns. The optimal condition for hPop2 catalysis was pH 7–8 at 37 °C. Mg²⁺, Mn²⁺, and Co²⁺ had similar effects on the deadenylation activity of hPop2, and the optimal concentration was 0.3–0.5 mM. The deadenylase activity of hPop2 was, at least partially, specific when coordinated with divalent metal ions. The enzyme was not inhibited much by the nucleotide analogs, and the product 5′-AMP was the most efficient inhibitor. The dissimilarity in the metal ion dependence and inhibitory effects of the nucleotide analogs suggested that various deadenylases might have differential regulation mechanisms.