The exquisite design of nanostructures for enzyme-biocatalyzed active sites mimicking has become a prospective method to significantly boost biocatalytic properties, which is profitable to response amplification for bioanalysis scenarios. Metal-organic frameworks (MOFs) with customizable compositions, diverse microstructures and open catalytic sites are considered to deal with challenges in conventional materials of unfriendly microenvironment and inexact coordination. Herein, by combining a metal doping and post-synthetic modification approach, amine-tagged Fe-Ni bimetallic MOF-74 nanozyme (FeNi-MOF-74-NH2) with ultrathin structure and improved peroxidase-mimicking bioactivity is synthesized through a layered double hydroxide (LDH) directed method. The boosted biocatalytic property largely benefits from the synergistic effects of Fe-Ni species, attributing to the dual mechanism (electron transfer and generation of hydroxyl radicals). On the basis of the enhanced enzyme-mimicking property and accessible amino functionalization of FeNi-MOF-74-NH2, versatile applications were carried out for the ultrasensitive detection of analytes from bioactive small molecules (H2O2 and ascorbic acid), biomacromolecules (alkaline phosphatase, ascorbic acid oxidase, and α-glucosidase), and pathogenic bacteria (Staphylococcus aureus). The nanozyme-based biosensing platform without complex enzymatic techniques serves as a proof-of-concept to facilitate the application of MOF nanozymes in biochemical analysis, clinical diagnosis, and biomedical research.