. 2018 Sep 12;8:13673. doi: 10.1038/s41598-018-32079-w

Table 2.

Detailed comparison of the results.

Test-set	Subset	Method	Local RMSD (Å)			Flanked RMSD (Å)			Global RMSD (Å)
Test-set	Subset	Method	Average	Std	Median	Average	Std	Median	Average	Std	Median
CASP11	CommonHC_ai	best	0.78	0.38	0.74	1.47	0.82	1.30	4.11	3.53	2.52
		JSD	1.05	0.59	0.89	1.97	1.37	1.57	4.74	3.99	3.10
		DOPE	1.19	0.59	1.09	2.19	1.14	2.04	4.94	3.97	3.31
		DaReUS-Loop	1.00	0.53	0.89	1.91	1.33	1.66	4.71	4.08	2.77
		Rosetta-NGk	1.44	0.82	1.22	2.59	1.40	2.47	5.33	4.37	3.5
		GalaxyLoop-PS2	1.34	0.70	1.16	2.34	1.32	2.54	5.34	4.32	3.07
	CommonHC_db	best	0.92	0.66	0.78	1.56	1.15	1.19	3.91	3.26	2.49
		JSD	1.23	0.94	0.96	2.11	1.58	1.59	4.57	3.69	2.8
		DOPE	1.29	0.80	1.09	2.23	1.46	1.95	4.74	3.70	3.00
		DaReUS-Loop	1.19	0.91	0.96	2.05	1.54	1.59	4.54	3.78	2.75
		LoopIng	1.94	1.12	1.84	3.66	2.08	3.35	—	—	—
		Sphinx	1.47	1.00	1.24	2.90	2.15	2.40	5.40	4.17	4.14
CASP12	CommonHC_ai	best	0.90	0.60	0.75	1.63	0.99	1.38	3.07	2.51	2.24
		JSD	1.27	0.93	1.04	2.47	1.98	1.82	3.92	2.95	2.84
		DOPE	1.25	0.74	1.20	2.46	1.64	2.00	3.84	2.76	2.90
		DaReUS-Loop	1.21	0.86	0.97	2.30	1.63	1.87	3.81	2.78	3.21
		Rosetta-NGk	1.53	0.98	1.49	2.99	2.88	2.33	4.20	3.81	3.37
		GalaxyLoop-PS2	1.43	0.99	1.15	2.88	2.88	1.98	4.34	3.86	3.27
	CommonHC_db	best	0.89	0.57	0.75	3.87	3.96	2.36	1.57	0.92	1.33
		JSD	1.28	0.87	1.06	2.39	1.81	1.83	4.85	4.71	3.18
		DOPE	1.22	0.70	1.17	2.36	1.44	2.03	4.77	4.57	3.12
		DaReUS-Loop	1.22	0.80	0.99	2.25	1.54	1.84	4.74	4.53	3.63
		LoopIng	1.72	1.06	1.61	3.53	2.24	3.28	—	—	—
		Sphinx	1.47	0.85	1.32	3.19	3.00	2.39	5.25	5.25	3.57
HOMSTRAD	CommonHC_ai	best	0.93	0.48	0.87	1.65	0.68	1.56	2.24	0.69	2.17
		JSD	1.25	0.57	1.14	2.34	1.27	2.16	3.09	1.42	2.94
		DOPE	1.23	0.58	1.01	2.12	0.93	2.18	2.68	0.84	2.69
		DaReUS-Loop	1.26	0.59	1.16	2.38	1.12	2.55	2.88	1.00	2.92
		Rosetta-NGk	1.58	0.65	1.69	2.71	1.36	2.66	3.40	1.51	3.10
		GalaxyLoop-PS2	1.34	0.61	1.34	2.96	1.70	2.66	3.68	1.92	2.87
	CommonHC_db	best	0.95	0.50	0.87	1.72	0.76	1.61	2.28	0.76	2.16
		JSD	1.44	0.68	1.35	2.72	1.44	2.50	3.37	1.53	3.04
		DOPE	1.36	0.68	1.19	2.34	1.10	2.16	2.81	0.96	2.79
		DaReUS-Loop	1.45	0.71	1.45	2.53	1.16	2.57	2.98	1.09	2.93
		LoopIng	2.16	0.58	2.23	4.50	1.74	4.16	—	—	—
		Sphinx	1.51	0.94	1.45	2.63	1.65	2.29	3.53	1.71	2.86

The average and its standard deviation and median RMSD values (10 models, Å) are reported. The RMSDs are calculated as root-mean-square deviation of the candidate loop main-chain atoms N, C_α, C and O to the native loop. Bold values correspond to the best average values among all the methods.