Table 3. Modeling with REPLONLY residues.

			10 lowest-energy models		1% lowest-energy models
Prediction methodology	Protein	Run conditions	HighestGDT-TSa	Mean (σb) GDT-TS	Mean (σ)GDT-TS
Ab initio	1enhA	With tails	0.80	0.55 (0.14)	0.57 (0.12)
		REPLONLYc	0.88	0.66 (0.11)	0.67 (0.11)
		Tails trimmed	0.83	0.69 (0.09)	0.73 (0.12)
CS-Rosetta	2ae9A	With tails	0.91	0.58 (0.19)	0.53 (0.10)
		REPLONLY	0.90	0.81 (0.09)	0.76 (0.13)
		Tails trimmed	0.91	0.87 (0.02)	0.86 (0.03)
	2k4nA	Typical run	0.62	0.35 (0.14)	0.36 (0.10)
		REPLONLY	0.65	0.53 (0.08)	0.44 (0.13)
Comparative modeling	2k4vA	Typical run	0.30	0.24 (0.03)	0.24 (0.03)
		REPLONLY	0.38	0.28 (0.06)	0.25 (0.04)

^aGDT-TS was calculated only the folded portion of the native structure.

^bσ: Standard deviation.

^cDisordered regions were treated as REPLONLY.