Stieffenhofer Marc, Scherer Christoph, May Falk, Bereau Tristan, Andrienko Denis
Max Planck Institute for Polymer Research, Mainz, Germany.
Merck KGaA, Darmstadt, Germany.
Front Chem. 2022 Sep 9;10:982757. doi: 10.3389/fchem.2022.982757. eCollection 2022.
The potential of mean force is an effective coarse-grained potential, which is often approximated by pairwise potentials. While the approximated potential reproduces certain distributions of the reference all-atom model with remarkable accuracy, important cross-correlations are typically not captured. In general, the quality of coarse-grained models is evaluated at the coarse-grained resolution, hindering the detection of important discrepancies between the all-atom and coarse-grained ensembles. In this work, the quality of different coarse-grained models is assessed at the atomistic resolution deploying reverse-mapping strategies. In particular, coarse-grained structures for Tris-Meta-Biphenyl-Triazine are reverse-mapped from two different sources: 1) All-atom configurations projected onto the coarse-grained resolution and 2) snapshots obtained by molecular dynamics simulations based on the coarse-grained force fields. To assess the quality of the coarse-grained models, reverse-mapped structures of both sources are compared revealing significant discrepancies between the all-atom and the coarse-grained ensembles. Specifically, the reintroduced details enable force computations based on the all-atom force field that yield a clear ranking for the quality of the different coarse-grained models.
平均力势是一种有效的粗粒度势,通常由成对势近似得到。虽然近似势能够以极高的精度重现参考全原子模型的某些分布,但重要的交叉相关性通常无法捕捉到。一般来说,粗粒度模型的质量是在粗粒度分辨率下评估的,这阻碍了全原子系综和粗粒度系综之间重要差异的检测。在这项工作中,通过部署反向映射策略,在原子分辨率下评估不同粗粒度模型的质量。具体而言,三(间苯二酚)-间三联苯-三嗪的粗粒度结构从两个不同来源进行反向映射:1)投影到粗粒度分辨率上的全原子构型,以及2)基于粗粒度力场通过分子动力学模拟获得的快照。为了评估粗粒度模型的质量,对两个来源的反向映射结构进行比较,揭示了全原子系综和粗粒度系综之间的显著差异。具体来说,重新引入的细节使得基于全原子力场的力计算能够对不同粗粒度模型的质量给出明确的排名。