Novel qubits with intrinsic noise protection constitute a promising route for improving the coherence of quantum information in superconducting circuits. However, many protected superconducting qubits exhibit relatively low transition frequencies, which could make their integration with conventional transmon circuits challenging. In this work, we propose and study a scheme for entangling a tunable transmon with a Cooper-pair parity-protected qubit, a paradigmatic example of a low-frequency protected qubit that stores quantum information in opposite Cooper-pair parity states on a superconducting island. By tuning the external flux on the transmon, we show that noncomputational states can mediate a two-qubit entangling gate that preserves the Cooper-pair parity independent of the detailed pulse sequence. Interestingly, the entangling gate bears similarities to a controlled-phase gate in conventional transmon devices. Hence, our results suggest that standard high-precision gate calibration protocols could be repurposed for operating heterogeneous quantum processors.