The most commonly used protein descriptors in PCM characterize different properties of the sequence of residues , but do not consider an important factor for protein-ligand binding: protein dynamics. Here, 3D dynamic protein descriptors (3DDPDs) were developed leveraging publicly available MD simulations. This information was condensed in a number of steps that were optimized to produce a one-hot encoding residue-specific (rs3DDPD) and an embedding-like protein-specific (ps3DDPD) descriptor. The optimized 3DDPDs were subsequently benchmarked against non-dynamic protein descriptors in PCM tasks for a bioactivity set of 26 class A GPCRs. Finally, the use of 3DDPDs to describe point mutations was explored, which are otherwise underrepresented by sequence-based non-dynamic descriptors.