A method and system for estimating 3D cardiac motion from a single C-arm angiography scan is disclosed. An initial 3D volume is reconstructed from a plurality of 2D projection images acquired in a single C-arm scan. A static mesh is extracted by segmenting an object in the initial 3D volume. The static mesh is projected to each of the 2D projection images. A cardiac phase is determined for each of the 2D projection images. A deformed mesh is generated for each of a plurality of cardiac phases based on a 2D contour of the object and the projected mesh in each of the 2D projection images of that cardiac phase.