An apparatus and method for compensating for a phase error in a wireless communication system are provided. The apparatus includes a reception modem, a transmission modem, a Common Phase Error (CPE) compensator, a first channel estimator, a phase compensator, and a second channel estimator. The reception modem demodulates and decodes a signal received. The transmission modem encodes and modulates a signal for transmission. The CPE compensator compensates for phase errors of at least two symbols constituting a signal. The first channel estimator estimates channels for respective bursts. The phase compensator compares phases for the channels for the respective bursts with each other and compensates for a phase difference between at least two bursts. The second channel estimator estimates an interference channel.