Applications of Quantum Mechanical/Molecular Mechanical methods to the chemical insertion step of DNA and RNA polymerization

摘要

We review theoretical attempts to model the chemical insertion reactions of nucleoside triphosphates catalyzed by the nucleic acid polymerases using combined quantum mechanical/molecular mechanical methodology. Due to an existing excellent database of high resolution x-ray crystal structures, the DNA polymerase β system serves as a useful template for discussion and comparison. The convergence of structures of high quality complexes and continued developments of theoretical techniques suggest a bright future for understanding the global features of nucleic acid polymerization.