What is the best reference state for building statistical potentials in RNA 3D structure evaluation?

ABSTRACT: Knowledge-based statistical potentials have been shown to be efficient in protein structure evaluation/prediction, and the core difference between various statistical potentials is attributed to the choice of reference states. However, for RNA 3D structure evaluation, a comprehensive examination on reference states is still lacking. In this work, we built six statistical potentials based on six reference states widely used in protein structure evaluation, including averaging, quasi-chemical approximation, atom-shuffled, finite-ideal-gas, spherical-noninteracting, and random-walk-chain reference states, and we examined the six reference states against three RNA test sets including six subsets. Our extensive examinations show that, overall, for identifying native structures and ranking decoy

SUBMITTER: Tan YL 

PROVIDER: S-EPMC6573789 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature