Recognition of 27-Class Protein Folds by Adding the Interaction of Segments and Motif Information

Table 3

Prediction accuracies of different parameters in the testing set (%).

Fold	A	A + ACC	A + ACC + M	A + ACC + M + P	A + ACC + M + P (5-fold cross validation)	The results of Liu et al. [27]	Ding and Dubchak’s dataset [11]; A + ACC + M + P
1	21.43	71.43	71.43	71.43	75.00 (0.0252)	78.5	100.00
2	10.00	70.00	70.00	80.00	95.00 (0.0000)	90.0	100.00
3	60.00	90.00	91.11	91.11	92.86 (0.0026)	75.5	75.00
4	4.17	83.33	75.00	75.00	81.63 (0.0000)	54.1	87.50
5	12.50	25.00	12.50	25.00	18.75 (0.0187)	25.0	77.78
6	0.00	60.87	52.17	52.17	75.00 (0.0342)	39.1	66.67
7	87.06	91.76	89.41	90.59	89.47 (0.0114)	82.3	79.55
8	11.11	27.78	27.78	38.89	41.67 (0.0000)	55.5	75.00
9	45.83	50.00	50.00	58.33	70.83 (0.0421)	70.8	84.62
10	23.53	35.29	47.06	52.94	57.14 (0.0255)	47.0	66.67
11	24.39	56.10	48.78	58.54	70.73 (0.0185)	43.9	37.50
12	0.00	46.43	64.29	60.71	54.39 (0.0096)	60.7	89.47
13	0.00	30.00	50.00	60.00	66.67 (0.0426)	10.0	50.00
14	37.50	56.25	62.50	62.50	81.82 (0.0000)	75.0	25.00
15	53.33	40.00	40.00	46.67	67.74 (0.0136)	40.0	100.00
16	86.96	95.65	98.91	100.00	98.92 (0.0144)	89.1	66.67
17	0.00	20.00	20.00	20.00	20.00 (0.0097)	20.0	91.67
18	11.11	30.56	47.22	61.11	68.49 (0.0894)	16.6	38.46
19	37.50	81.25	100.00	100.00	100.00 (0.0300)	81.2	62.96
20	26.03	72.60	90.41	89.04	91.84 (0.0398)	87.6	41.67
21	30.56	50.00	75.00	72.22	72.60 (0.0217)	52.7	75.00
22	22.50	40.00	62.50	57.50	65.82 (0.0113)	50.0	41.67
23	27.27	45.45	90.91	90.91	95.46 (0.0107)	78.7	57.15
24	0.00	16.67	50.00	66.67	41.67 (0.0373)	50.0	25.00
25	12.82	56.41	61.54	61.54	69.23 (0.0233)	30.7	12.50
26	51.52	88.89	90.91	92.93	86.00 (0.0104)	67.6	62.96
27	100.00	75.61	87.80	92.68	92.68 (0.0122)	1.000	96.30
𝑄	43.66	68.80	76.25	78.38	81.16 (0.0028)	66.5	70.24

Note: A means amino acid composition (20 dimensions), A + ACC means amino acid composition and the interaction of segments (164 dimensions), A + ACC + M means amino acid composition, the interaction of segments, and motif frequency (290 dimensions), and A + ACC + M + P means amino acid composition, the interaction of segments, motif frequency, and predicted secondary structure information (296 dimensions); 𝑄 means the overall accuracy; the standard deviation values are in the parenthesis of the sixth column, the penultimate column is the results of Liu et al. [27] with the same dataset, and the last column is our results of the dataset built by Ding and Dubchak [11].