Since it's a two story building there are two modes of vibrations. Natural frequency for the first mode will be lower than the 2nd mode, hence the effective stiffness of the building will be lower for the 1st mode as well. since, the stiffness is directly related to structure mass and frequency of vibration, it is important to correctly define the mass for a given mode to calculate structure stiffness for that mode. For a multimodal system, complete mass of the structure doesn't participate with any of the modes of vibrations, actually mass participation reduces for higher modes of vibrations. Modal analysis gives as output also modal mass participation factors. Modal mass participation factor times actual mass is the mass participating in a given mode. This participating mass should be used to determine structure stiffness for that mode.