In the in-line four-cylinder engine, it is well known that the shaking force is due to the vertical second harmonic acceleration components of the pistons. This paper proposes a kinematic conceptual design method to determine the kinematic structure of a feasible in-line four-cylinder variable compression ratio (VCR) engine and its dimensions that would yield a lower vertical second harmonic acceleration at joints. Through type and dimensional synthesis, candidate VCR engine mechanisms are chosen and their dimensions satisfying design specifications are determined. Based on the analysis of the vertical second harmonic acceleration components at the joints, a feasible mechanism for an in-line four-cylinder VCR engine is selected. Then, the method finds the dimensions that yield a nearly minimized sum of the vertical second harmonic acceleration at each joint by adjusting the link lengths within specified tolerances. For validation, the result is compared with that of a constrained optimization using MATLAB. The proposed method would be useful at the conceptual design stage of multi-link multi-cylinder VCR and variable-stroke engine mechanisms where the second harmonic acceleration is an important design factor in the automotive industrial applications.