Extended Kalman Filter (EKF) is widely studied in the field of State of Charge (SOC) estimation of Li-ion batteries, however, in applications like Electric Vehicles (EV), there are usually a large number of individual battery cells. In order to meet the demand of real-time computation, MCU of high performance is essential. In this paper, we proposed a hardware structure to implement EKF which is economical in area and power consumption and could be easily integrated in a larger design and at the same time could satisfy the real-time restriction.