Enzyme engineering is a combined technology of enzymology and engineering, which is becoming one of the major fields of modern biotechnology. In recent years, China has made some advances in enzyme engineering research. To promote enzyme engineering research in China, invited reviews and selected research articles were published in this special issue of “Enzyme Engineering”. The reviews and research articles focus on the fields of enzymatic conversion, therapeutic enzymes, enzymes as additives to animal feedstuff, enzymes for degradation of organic pollutes, and enzymes for biofuel and biorefinery.