In this research, the influence of additional vertical deformation of floating pontoon when dead load of each story is loaded during construction was investigated. The analysis procedure is presented for considering the influence of the additional deformation to calculate the additional moment of super-frame. Following the procedure, an example building with 3 storied steel frame was analyzed. Analysis method that taking no account for deformation of pontoon to the modeling was underestimated by ignoring design load following deformation of vertical load. By operating the load at the same time, design load under the influence of large deflection of model which whole modeling of floating structure was overestimated. So analysis method of floating structure considering the construction sequences demonstrated the suitable method.