The coordination of valeric acid (VA), glutaric acid (GA), and tricarballylic acid (TA) with Fe-OH on the Fe3O4 nanoparticle surface has been systematically studied to elucidate the effects of COOH, molecular configuration, and ligand concentration on the coordination by the combined use of attenuated total reflectance Fourier transform infrared (ATR-FTIR) and thermogravimetric analysis (TGA). The results show that the binding ability of the acids increases with the increase in the COOH number. Multiple conformations coexist for the dicarboxylic and tricarboxylic acid coordinated on the iron oxide NPs. Saturated coordination formed with only a one-, two-, or three-COOH conformation for VA, GA, and TA, respectively, occurs under ligand-scarce conditions, while unsaturated coordination formed with the mixture of uncoordinated, one-, and/or two-COOH conformations for VA, GA, and TA, respectively, exists under ligand-abundant conditions. The maximum coordination numbers for monolayer adsorption for VA, GA, and TA on Fe3O4 NPs are 9, 2.4, and 2.7 nm-2, respectively. This study helps us to understand the fine coordination mechanism caused by the acid molecules with different configurations and elucidates, for the first time, the fine conformational variance incurred by the surrounding ligand with different concentrations and the way in which the ligand is added.