Table 1.

Automated methods for protein and RNA modeling reviewed in this article, arranged according to the analogous principles used

Prediction method class		Protein	RNA
Template-based, comparative modeling	Restraints-based	MODELLER	RNABuilder
	Fragments-based	SWISS-MODEL	ModeRNA
Template-free, physics-based	All-atom	AMBER, CHARMM
	Coarse-grained	UNRES	Vfold, DMD, HiRE-RNA
Automated hybrid (statistics + physics)	All-atom, fragment-based	ROSETTA	MC-Fold
	Coarse-grained	CABS, TASSER, REFINER	SimRNA, CG