To reduce energy consumption, and to achieve the desired denitrification, the activated sludge process sometimes needs to operate at low dissolved oxygen concentrations. The ASM2d model describes the activated sludge process, if nitrification and denitrification occur during different phases in a sequencing batch reactor (SBR). Despite the widespread study of enhanced biological phosphorous removal, comprehensive sludge floc distribution model remains lacking that would better describe this process. Consequently, the integrated system model has been developed to understand the impact of floc at low DO concentrations, and during the process of biological nitrogen and phosphorous removal. In a wastewater treatment plant used in this study, the dissolved oxygen was controlled at a low concentration, 1.7〖gO_2 m〗^(-3), and the dispersion coefficient into the floc was found to be 〖D=1.2×10〗^(-4) m^2/day. Introduction of a number of effectiveness factors contributed to the development of the ASM2d model described herein. This developed model could be valuable for predicting process behaviours applicable under various configurations. Moreover, parameters and effectiveness factors for the model could be calibrated using a genetic algorithm approach. Optimisation was then achieved by controlling the solids retention time during the activated sludge process.