Here we further investigate two molecular systems: capped alanine (alanine dipeptide) and the miniprotein chignolin, in vacuum and implicit solvent respectively. These systems are established benchmark systems to evaluate sampling methods in molecular dynamics . We perform similar benchmarks as above, however, we use a kernel which is invariant to rotations and translation as described in section 2.3 using kernel bandwidth parameter σ = 1 2 . This kernel ensures only internal degrees of freedom are encouraged to diversify, and avoids that the center of mass and orientation of the molecular system influences the Vendi score.