FunFOLD: an improved automated method for the prediction of ligand binding residues using 3D models of proteins

Roche, Daniel B; Tetchner, Stuart J; McGuffin, Liam J

doi:10.1186/1471-2105-12-160

BMC Bioinformatics

Table 11 The mean MCC and BDT raw scores and Z-scores obtained by FunFOLD are compared with those obtained by the top CASP9 function prediction groups - as in Table 9 except for CASP9 targets containing non-metal ligand s or metal and non-metal ligand s in the same binding site.

From: FunFOLD: an improved automated method for the prediction of ligand binding residues using 3D models of proteins

Group ID	N	Mean score for group		Mean score for FunFOLD		Difference in mean score		Mean Z-score for group		Mean Z-score for FunFOLD		P-value (raw score)		P-value (Z-score)		1 - p-value (raw score)		1 - p-value (Z-score)
		MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT	MCC	BDT
FN035	17	0.707	0.636	0.582	0.516	-0.125	-0.019	0.698	0.647	0.056	0.105	0.888	0.951	0.922	0.940	0.112	0.049	0.078	0.060
FN096	17	0.718	0.654	0.582	0.516	-0.136	-0.138	0.638	0.566	0.056	0.105	0.934	0.827	0.920	0.858	0.066	0.073	0.080	0.412
FN315	17	0.681	0.592	0.582	0.516	-0.099	-0.076	0.528	0.345	0.056	0.105	0.785	0.741	0.798	0.694	0.215	0.259	0.202	0.306
FN242	16	0.696	0.613	0.582	0.522	-0.113	-0.091	0.505	0.389	0.014	0.093	0.934	0.795	0.947	0.795	0.066	0.205	0.053	0.205
FN339	17	0.688	0.630	0.582	0.516	-0.106	-0.114	0.457	0.455	0.056	0.105	0.836	0.847	0.741	0.824	0.164	0.153	0.259	0.176
FN110	17	0.648	0.609	0.582	0.516	-0.066	-0.093	0.176	0.381	0.056	0.105	0.710	0.878	0.518	0.741	0.290	0.122	0.482	0.259
FN104	17	0.636	0.549	0.582	0.516	-0.054	-0.033	0.135	0.006	0.056	0.105	0.644	0.463	0.573	0.391	0.356	0.537	0.427	0.609
FN236	17	0.563	0.481	0.582	0.516	0.019	0.035	-0.128	-0.262	0.056	0.105	0.377	0.134	0.295	0.122	0.623	0.866	0.705	0.878
FN094	17	0.551	0.461	0.582	0.516	0.031	0.055	-0.145	-0.263	0.056	0.105	0.122	0.021	0.183	0.023	0.878	0.979	0.817	0.977
FN017	17	0.551	0.500	0.582	0.516	0.031	0.016	-0.215	-0.103	0.056	0.105	0.290	0.259	0.202	0.215	0.710	0.741	0.798	0.785
FN452	16	0.583	0.519	0.582	0.516	-0.001	0.003	-0.253	-0.209	0.014	0.093	0.556	0.421	0.421	0.257	0.444	0.579	0.579	0.743
FN114	17	0.555	0.448	0.582	0.516	0.027	0.068	-0.263	-0.515	0.056	0.105	0.276	0.046	0.197	0.030	0.724	0.954	0.803	0.970
FN415	17	0.546	0.494	0.582	0.516	0.036	0.023	-0.271	-0.183	0.056	0.105	0.244	0.189	0.142	0.122	0.756	0.811	0.853	0.878
FN113	17	0.562	0.501	0.582	0.516	0.020	0.015	-0.333	-0.211	0.056	0.105	0.274	0.356	0.164	0.259	0.726	0.644	0.836	0.741
FN425	16	0.494	0.404	0.582	0.516	0.089	0.112	-0.434	-0.517	-0.013	0.046	0.147	0.035	0.132	0.047	0.853	0.965	0.868	0.953
FN057	17	0.507	0.468	0.582	0.516	0.075	0.048	0.569	0.323	0.056	0.105	0.060	0.148	0.028	0.080	0.940	0.164	0.972	0.836
FN072	17	0.506	0.473	0.582	0.516	0.076	0.043	0.592	0.328	0.056	0.105	0.094	0.183	0.052	0.095	0.906	0.274	0.948	0.726

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ISSN: 1471-2105

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