Table 2 Rank of the first detected true positive residue pair in each dimer of four methods. This table shows the rank of first true positive interacting residue pair of each dimer in four methods^[a]. The percentage of interaction pairs^[b]; The Euclidean distance between interacting residue pairs and non- interacting residue pairs^[c]; Complex category labels: antibody-antigen (A); enzyme-inhibitor (EI); enzyme-substrate (ES); enzyme complex with a regulatory or accessory chain (ER); others, G-protein containing (OG); others, receptor containing (OR); others, miscellaneous (OX)²³.

Dimer BV4.0	NSRP	NIRP	SVM	RF	Logistics	Interaction logistic	P^[a]	Distance^[b]	category labels^[c]	category number
1CLV	12928	91	11	7	4	12	0.0070	1.52	EI	1
1FFW	7316	41	9	4	10	2	0.0056	2.04	OX	8
1GL1	7548	71	10	4	16	1	0.0094	1.25	EI	1
1H9D	14796	99	66	24	149	75	0.0067	1.23	OX	8
1MQ8	25725	59	55	787	230	242	0.0023	1.52	OX	8
1OC0	12456	46	194	16	18	10	0.0037	1.70	ER	3
1OYV	25536	105	31	5	27	13	0.0041	1.34	EI	1
1R6Q	10611	62	16	329	104	5	0.0058	1.42	ER	3
1SYX	7080	46	108	120	222	103	0.0065	2.29	OX	8
1US7	22184	44	96	488	74	247	0.0020	2.09	ER	3
1ZM4	144948	65	157	1147	2	122	0.00045	2.76	ES	2
2A5T	65260	73	62	1107	60	155	0.0011	1.79	OX	8
2ABZ	16226	69	110	5	5	9	0.0043	1.30	EI	1
2G77	44688	94	283	19	33	151	0.0021	1.33	OG	6
2I9B	30360	107	140	56	24	12	0.0035	1.81	OR	7
2J0T	18600	71	2	55	59	198	0.0038	1.69	EI	1
2O3B	26875	69	16	135	29	7	0.0026	1.87	EI	1
2OUL	22568	93	94	18	10	1	0.0041	1.58	EI	1
2VDB	30672	75	145	260	380	183	0.0024	1.03	OX	8
4CPA	10526	56	22	43	48	14	0.0053	1.83	EI	1
DimerBV5.0	NSRP	NIRP	SVM	RF	Logistics	Interaction logistic	P	Distance	category labels	category number
2GAF	117448	129	662	52	8	525	0.0011	2.20	ER	3
2GTP	35910	59	42	125	15	6	0.0016	1.48	OG	6
2YVJ	36531	61	3	25	5	19	0.0017	1.90	ER	3
3A4S	11476	38	35	11	1	27	0.0033	2.72	EI	1
3AAD	37548	59	266	60	86	168	0.0016	2.14	OX	8
BAAD	37548	58	35	269	136	293	0.0015	1.45	OX	8
3FN1	16490	79	62	17	163	280	0.0048	1.24	ER	3
3K75	32109	54	189	2	72	300	0.0017	1.90	ER	3
3S9D	31408	69	69	441	127	42	0.0022	1.01	OR	7
3VLB	78764	96	18	604	19	11	0.0012	2.37	EI	1
4H03	138852	59	10	198	787	578	0.00043	2.62	ES	2
4IZ7	28014	44	622	213	297	1041	0.0016	1.74	EI	1
4M76	39772	43	74	153	434	303	0.0011	2.02	OR	7

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