Bentonite/chitosan composite was synthesized and characterized by different techniques including XRD, FT-IR, SEM and TEM to detect its physicochemical properties. The composite was introduced in realistic purification application to reduce the dissolved iron content in raw groundwater sample by fixed-bed column system. The plotted breakthrough curves and the related mathematical parameters revealed that the column achieves iron removal percentage of about 69% from 6.6 L of water after adjusting the factors affecting the system at 3 cm bed thickness, 5 mL/min flow rate, 5 mg/L concentration and pH 6. Applying the column system to remove iron from groundwater under the same conditions can achieve iron removal percentage of about 69% from a total volume of 8.2 L of water. The interaction of the metal on the column was attained after 18 hours and the saturation time was attained after 27.5 hours which revealed the high performance of the composite in the designed column system for the purification of groundwater.