Table 2. Typical examples of best and least predicted folds, superfamilies and families.

Fold/superfamily/family	Distance (Å)	Best Method	Sensitivity	Specificity	Accuracy1	Accuracy2	MCC	LowestAccuracy2	Method	MCC
Fold
NSP3 homodimer (1)	≤ 3.5	BindN+	93.75	89.86	90.26	91.81	0.65	60.28	NAPS	0.14
Ribosomal proteins (2)	≤ 6.0	Pprint	90.62	88.73	91.40	89.68	0.79	61.60	RNAProB	0.32
Nucleoplasmin (3)	≤ 3.5	RNAProB	31.11	94.79	94.09	62.95	0.22	43.81	RNABindR v2.0	0
IF3-like (1)	≤ 6.0	Pprint	38.46	84.13	82.88	61.30	0.10	47.91	BindN	0
Superfamily
Rho N-terminal domain(1)	≤ 3.5	RNAProB	100.00	97.25	97.46	98.62	0.85	49.70	NAPS	0
tRNA-binding arm (1)	≤ 6.0	RNAProB	88.89	99.72	99.46	94.31	0.89	61.39	NAPS	0.07
proRS (1)	≤ 3.5	BindN+	44.44	91.59	90.70	68.02	0.17	48.60	RNAProB	0
Poly A polymerase (1)	≤ 6.0	RNABindR v2.0	42.86	78.82	76.61	60.84	0.12	47.87	BindN+	0
Family
SM motif of SNRNP (1)	≤ 3.5	RNAProB	83.33	93.94	93.06	88.63	0.65	43.94	BindN+	0
L23p(1)	≤ 6.0	Pprint	88.57	95.65	92.59	92.11	0.85	62.86	RNAProB	0.41
RNB domain (1)	≤ 3.5	RNABindR v2.0	61.76	70.61	70.17	66.19	0.15	48.02	RNAProB	0
Comoviridae (2)	≤ 6.0	NAPS	42.11	76.35	74.59	59.23	0.09	46.72	Pprint	0

Accuracy1  =  (TP + TN)/(TP + TN + FP + FN).

Accuracy2  =  (sensitivity + specificity)/2.