Collective variables (CVs) are a powerful tool for visualizing and analyzing biomolecular dynamics, as they significantly reduce the dimensionality of all-atom MD simulation datasets. Conformational changes of biomolecules typically involve the coordinated movement of many atoms. For instance, protein folding involves global rearrangements of both the protein backbone and side chains . Similarly, functional conformational changes, such as ligand-induced domain closure, often involve the collective motion of rigid domains. Consequently, CVs that effectively capture these collective motions are particularly valuable for understanding the dynamics of large biomolecules. These CVs not only aid in visualization of complex protein conformational changes, but also facilitate downstream analysis, such as the construction of Markov State Model (MSMs) .