Table 5.

14 FEATURE predictions of which experimentally solved homologous holo structures are found through a homologous searching process using MAMMOTH

	Loop				FEATURE score			Holo structure				Alignement
PDB ID	Start	End	Sequence	CaDis(Å)	Gap	Loop	Ligand	SCOP ID	Start	End	Sequence	CaDis(Å)	PRA	RMSD	PID
1G57_B	33	39	DDEDREN	2.29	-29.15	62.92	CS	d1pvwa_	21	27	DSDEREG	2.11	86	2.65	24
1VJS_A	181	193	AWDWEVSNENGNY	2.49	41.99	82.70	None	d1e40a2	178	193	EGKAWDWEVSSENGNYDYLMY	2.18	97	1.06	66
2A9Q_A	53	59	LMLPEID	3.34	44.10	57.51	None	d1zh2b1	53	59	LGLPDGD	2.23	98	1.34	41
1GIH_A	149	164	ARAFGVPVRTYTHEVV	3.16	37.28	60.16	1PU	d1u5ra_	173	184	ASIMAPANFVG	2.47	81	3.03	19
1OZT_G	127	141	GKGGNEESTKTGNAG	1.71	23.67	61.66	None	d1sxsb_	125	139	GRGGNEESTKTGNAG	3.53	87	1.86	71
1LEW_A	173	183	RHTDDEMTGYV	2.20	10.16	71.76	None	d2eufb1	170	180	YSFQMALTSVV	4.18	85	2.92	25
2JAV_A	131	141	SDGGHTVLHRD	2.60	8.93	56.86	5Z5	d2auha1	1123	1132	LNAKKFVHRD	4.87	85	3.06	16
2ANT_I	29	43	KATEDEGSEQKIPEA	2.23	20.71	80.94	NAA	d1jmja_	68	99	SEDDLQLFH	5.09	92	2.31	26
1U5I_A	563	568	KREDIK	2.97	39.39	66.52	None	d1alwb_	127	133	TRHPDLK	5.37	98	1.82	13
1EB7_A	222	229	ASVLPSGD	3.96	19.22	58.45	CA,HEC	d1iqca2	207	213	ETKNPAA	6.58	86	1.79	21
1ANT_L	395	406	LNPNRVTFKANR	2.95	42.78	77.77	None	d1jmja_	446	454	TQVRFTVDR	6.64	88	2.72	26
2IYN_C	84	97	ARGEEEDRVRGLET	3.26	35.10	52.26	MG	d1srrc_	81	96	MTAYGELDMIQESKEL	6.88	96	2.7	25
2IK4_A	103	113	PNVSHPETKAV	3.95	41.81	64.20	MG,PO4,	d1i40a_	59	63	NHTLS	4.03	91	3.49	13

Column 1 lists PDB code followed by the chain identifier. We build structures for gaps of which 3D structures are not present in the original PDB files. Information of these structures, referred as "loop", is given in column 2-5. Column 5 lists the distances from the predicted sites to the rebuilt loops (CaDis). Column 6 and 7 list FEATURE scores at the predicted sites in the structures where loop structures are missing (Gap) and in the rebuilt loop structures (Loop). Ligands observed experimentally are listed in column 8 and the ligand IDs are from PDB. Column 9 shows the SCOP ID of the homologous holo structures. Information of aligned counterparts for the binding loops is listed in column 10-13. Column 13 lists the distances from the calcium ions to the aligned loop counterparts (CaDis). The percentage of residues aligned (PRA), the RMSD of the aligned regions, and the percentage of identical residues (PID) are shown in column 14-16.