The discharge of herbicides is a primary contributor to water contamination, presenting significant environmental and public health hazards. Encapsulating herbicides in a chemical compound called MAl-MOF/CS-CMC hydrogel bead (MACC) made from magnetic aluminum metal-organic frameworks (MAl-MOF) and crosslinked with chitosan (CS) and carboxymethyl cellulose (CMC) shows promise for potential use. The research successfully developed and examined MACC microspheres, utilizing various analytical techniques including PXRD, FESEM, TEM, FT-IR, and XPS. The efficiency of MACC in eliminating atrazine (ATZ) from wastewater was also simulated. Additionally, density functional theory (DFT) was employed to assess the electrical characteristics, reactivity, and arrangement of ATZ at a structural level. The results of the DFT analysis demonstrate a significant relationship between the locations of nucleophilic and electrophilic attacks and the molecular orbitals of the HOMO and LUMO. Using MACC as an adsorbent provides considerable advantages due to its expansive surface area of 860.92 m2/g and a pore size of 1.48 nm, meeting the mesoporous classification criteria outlined by IUPAC standards. In addition, it possesses a pore volume of 1.22 cm3/g. Nevertheless, following the adsorption procedure, the pore volume reduced to 0.78 cm3/g, and the surface area decreased to 650.42 m2/g. Several factors contributing to the capacity to attract and retain substances were analyzed. These factors encompass temperature, duration of contact, quantity of the attracting substance, initial atrazine (ATZ) concentration, and solution pH. The primary method of adsorption that was determined is chemisorption, as evidenced by the calculated adsorption energy of 29.3 kJ per mole. The thermodynamic analysis indicates that the adsorption of ATZ by the micropores of MACC occurs spontaneously and is characterized as endothermic, as evidenced by the positive ΔHo value and negative ΔGo value. It has been proposed that a range of adsorption mechanisms, including chemisorption, π-π interactions, pore filling, hydrogen bonding, and electrostatic interactions, may be responsible for removing the herbicide from the MACC material.