The invention belongs to the field of enzyme engineering, and in particular relates to a method for preparing acetyl coenzyme A via an enzymatic process. Specifically, the method for preparing the acetyl coenzyme A via the enzymatic process comprises the following steps: firstly, promoting oxide reduction on protease gene via ferric pyruvate in new Apollo bacteria, and cloning the protease gene into an escherichia coli expression vector, so that recombinant enzyme ferric oxide reduction protease is prepared; and then, with such materials as sodium pyruvate, CoA and the like as raw materials, preparing a reaction solution at a certain pH value, adding the recombinant enzyme, and conducting reaction at 70-90 DEG C in an anaerobic condition, so that a mixed solution containing the acetyl coenzyme A is obtained. The method provided by the invention, by promoting oxide reduction of the protease via the ferric pyruvate, is good in stability under the anaerobic condition, resistant to high temperature and cannot become inactivated easily, and enzyme immobilization can be avoided, so that the acetyl coenzyme A can be synthesized by simple operations; the catalysis reaction, which is highlyspecific, is free from the generation of side products, and an additional complex purifying process can be avoided; a synthesis rate of the acetyl coenzyme A can reach 15.01[mu]mol/min/mg; therefore,the method is expected to achieve industrial production.