The separation of polymetallic sulfide ores by flotation is a difficult task in the mineral processing industry. In this investigation, a small-molecule organic compound, mercaptosuccinic acid (MSA), was used as a new depressant for inhibiting galena in chalcopyrite flotation. Micro-flotation and surface wettability tests indicated that MSA pronouncedly weakened the floatability of galena but not chalcopyrite, resulting in marked differences in their flotation recovery. Findings of Fourier transform infra-red (FT-IR) spectroscopy measurements and reagent adsorption trials showed that MSA was strongly adsorbed on galena, resulting in the inability of the collector to effectively interact with galena. Atomic force microscope (AFM) and X-ray photoelectron spectroscopy (XPS) analyses further corroborated that MSA showed a greater affinity for galena than chalcopyrite, this behavior markedly altered the superficial chemical environment of galena. Molecular dynamic simulations (MDS) showed that MSA increased the concentrations of H2O molecules on galena, which enhanced the surface hydrophilicity of galena.