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It is not very intuitive to manipulate objects visualized in 3-dimension by a mouse, because a mouse can only move in 2-dimension space. We propose an interaction technique to manipulate 3D objects by mobile devices with acceleration sensors. We have developed a 3D molecular visualization system which displays results of a simulation of the molecular dynamics method. In the system, we can rotate 3D objects by leaning a mobile device and change a viewing location by moving a mobile device. We discuss how we implement the interaction technique in this paper.