A system and method for identifying a location of a physical structure in a body is provided. The system includes an electronic control unit configured to register a first image of a portion of the body in a three-dimensional coordinate system. The electronic control unit is further configured to identify the location of the physical structure in the three-dimensional coordinate system responsive to flow of a fluid shown in the image. The fluid may comprise blood. In one embodiment, the electronic control unit is further configured to generate a second image, such as a three dimensional model, incorporating a representation of the physical structure within a larger physical environment in the three-dimensional coordinate system.