Method for screening and characterizing metabolite-protein interaction system

The invention discloses a method for screening and characterizing a metabolite-protein interaction system based on metabolomics and a structural mass spectrometric technique; a heterologously expressed tagged target protein is immobilized through an affinity immobilization method, then, the target protein is incubated with a metabolite extract, and finally, after being separated, denatured and eluted, the target protein-metabolite complex is subjected to non-targeted metabolomics analysis, and the complex is compared with a control group (an affinity vector without immobilized protein) so as to screen a metabolite with potential interaction with the target protein. Afterwards, the potential interaction system is directly verified using structural mass spectrometry. The binding method enables high-throughput screening of metabolites with potential interaction with the target protein, and also, direct characterization of the structural mass spectrometry can be used to screen out false positive interaction results that are probably introduced during indirect characterization. The method is a reliable high-throughput research tool for protein-metabolite interactions.