Proteins are an essential part of organisms and play a very important role in life activities. Molecular imprinting technology (MIT) can prepare functional materials with specific identification abilities. In recent years, various molecularly imprinted materials have been widely used in the fields of solid‐phase extraction, bionic sensing, and on‐line analysis. Due to the limit of the properties of protein macromolecules, the development of MIT for protein molecules is relatively slow. With the continuous deepening on the research of nanomaterials and surface molecular imprinting technology, a large numbers of interesting and successful strategies appear on imprinted protein. Some surface protein imprinting materials with excellent properties and unique functions are applied in proteomics, biological imaging, medical diagnosis, and other fields, showing great potential application value. This paper summarizes the latest preparation and analysis strategies of surface protein imprinting based on nanomaterials, introduces medical application of protein imprinting materials in sample separation and purification, proteomics, biomedical and other aspects in recent years, and looks forward to the development opportunities and challenges in protein imprinting field.