Objects on your Stage, even symbols, can have different transformations applied to them. Transformations such as Scale, Rotate, and Skew are applied with the Free Transform tool. (See extra bits on Page 38.)
Press and hold . Click and drag the bottom-right transformation handle toward the center of the Logo symbol instance.
Use Arrow keys to nudge the logo into centered position over the Rectangle Primitive.
Choose the Selection tool to set the transformation.