Table II.

Structural coverage of Swiss-Prot-validated proteins from the seven KEGG signaling pathways of the HCPIN

	Total structural coverage			Secreted/membrane protein structural coverage			Intracellular protein structural coverage
	No.	%SDa	%Res.b	%No.c	%SD	%Res.	%No.	%SD	%Res.
Medium accuracy homology modeling level (BLAST E-value <10−6)
Apoptosis	72	94	72	19	100	78	81	93	71
TGF	79	90	56	52	90	59	48	89	54
PI3K	81	85	51	12	70	28	88	87	56
Cell cycle	82	76	36	4	100	31	96	75	36
TLRd	88	93	71	45	95	77	55	92	69
JAK-STAT	139	78	54	59	76	49	41	81	58
MAPK	216	94	64	25	98	70	75	92	63
HCPIN pathway proteins	600	86	55	33	85	56	67	86	55
Interaction proteins	1728	76	42	26	75	47	74	76	41
Total	2328	78	45	28	78	49	72	78	44
High accuracy homology modeling level (BLAST E-value <10−6 and >80% sequence identity)
Apoptosis	72	68	36	19	64	32	81	69	36
TGF	79	62	29	52	59	26	48	66	32
PI3K	81	36	13	12	10	5	88	39	15
Cell cycle	82	46	20	4	100	30	96	44	20
TLR	88	68	36	45	75	38	55	63	35
JAK-STAT	139	55	32	59	59	32	41	51	32
MAPK	216	60	33	25	60	36	75	60	32
HCPIN pathway proteins	600	52	25	33	54	26	67	51	25
Interaction protein	1728	44	18	26	39	16	74	46	19
Total	2328	46	20	28	44	18	72	47	20

^aThe percentage of pathway proteins with single domain structural coverage.

^bThe number of residues covered by PDB hit divided by total length of proteins in the pathways. Residues predicted to be low complexity or coiled coil are not counted in the denominator.

^cThe percentage of proteins in the pathways that are predicted to be secreted or have integral or one-pass transmembrane domains.

^dTLR, Toll-like receptor.