The present invention relates to a natural product enzyme using lactic acid bacteria, and a preparation method thereof, and more particularly, to a natural product fermented enzyme fermented by inoculating natural products, such as ginseng, Dendropanax morbiferus, Perilla frutescens, onion, seaweed, etc., with lactic acid bacteria, and a preparation method thereof. A natural product enzyme according to a method for producing a natural product enzyme using lactic acid bacteria according to the present invention can effectively use natural bioactive ingredients contained in the natural products and active ingredients additionally generated by fermentation with lactic acid bacteria, and is thus an extremely useful invention for the food industry.