A novel nanomaterial synthesized by chiral molecularly imprinted polymers (CMIPs) and achiral metal–organic frameworks (MOFs) was designed as stationary phase to prepare L-TRP@MIP(APTES-TEOS)@UiO-66-NH2@capillary for tryptophan enantioseparation in open tubular capillary electrochromatography. Compared with the capillary column coated only with CMIPs or achiral MOFs, this column remarkably improved the enantioseparation ability of tryptophan (resolution, 0.92/0 → 3.68). The chromatographic conditions (buffer pH, applied voltage, organic additive content) were optimized. Additionally, through static adsorption experiments, a conclusion was reached that the materials of stationary phase had stronger adsorption capacity for L-TRP than that for D-TRP, which revealed chiral separation mechanism of CEC system. This study opens up creative ideas for coating the novel nanomaterial in CEC system, which has good application prospects in the field of chiral separation.