Recently, severe earthquakes, such as the Great East Japan Earthquake in 2011 and the Kumamoto Earthquake in 2016, occur frequently in Japan, and it is urgent task to establish the simple system for evaluating the soundness of wooden houses. From this background, the purpose of this research is estimating maximum story drift angle by using only one accelerometer. As a previous research, there is the method based on pseudo response spectrum for estimating the maximum displacement response, and the possibility of estimating the maximum displacement response by using only one accelerometer is shown. However, the problem of this method is low accuracy of estimation due to the deficient consideration on how to calculate the natural frequency. Therefore, in this paper, in order to improve the accuracy of this method, the authors conducted two detailed evaluations on condition setting for natural frequency calculation, one is how to choose the necessary value from multiple calculation results and another is how to decide the intervals for analysis. The data the authors analyze is the shaking table test data of wooden house with two-by-four method. As a result, the effectiveness of this method is shown.