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 8 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 6 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
FN096	18	0.644	0.545	0.536	0.465	-0.108	-0.081	0.566	0.416	0.140	0.194	0.941	0.848	0.877	0.710	0.059	0.152	0.123	0.290
FN339	18	0.620	0.511	0.536	0.465	-0.084	-0.046	0.505	0.298	0.140	0.194	0.790	0.551	0.776	0.517	0.210	0.449	0.224	0.483
FN035	18	0.613	0.518	0.536	0.465	-0.076	-0.053	0.503	0.544	0.140	0.194	0.888	0.909	0.888	0.909	0.112	0.091	0.112	0.091
FN242	17	0.609	0.526	0.533	0.467	-0.076	-0.059	0.447	0.417	0.106	0.188	0.789	0.510	0.803	0.612	0.211	0.490	0.197	0.388
FN315	18	0.601	0.503	0.536	0.465	-0.065	-0.038	0.376	0.377	0.140	0.194	0.710	0.779	0.665	0.752	0.290	0.221	0.335	0.248
FN104	18	0.571	0.495	0.536	0.465	-0.035	-0.030	0.180	0.192	0.140	0.194	0.776	0.710	0.746	0.567	0.224	0.290	0.254	0.433
FN110	18	0.569	0.515	0.536	0.465	-0.034	-0.050	0.144	0.297	0.140	0.194	0.416	0.617	0.290	0.500	0.584	0.383	0.710	0.500
FN094	18	0.526	0.468	0.536	0.465	0.010	-0.004	0.119	0.128	0.140	0.194	0.449	0.594	0.469	0.594	0.551	0.406	0.531	0.406
FN236	18	0.499	0.437	0.536	0.465	0.036	0.028	-0.017	-0.135	0.140	0.194	0.295	0.294	0.356	0.243	0.705	0.706	0.644	0.757
FN452	17	0.520	0.423	0.533	0.467	0.013	0.044	-0.065	-0.220	0.106	0.188	0.399	0.112	0.335	0.078	0.601	0.888	0.665	0.922
FN114	18	0.520	0.452	0.536	0.465	0.016	0.013	-0.092	-0.165	0.140	0.194	0.370	0.285	0.285	0.197	0.630	0.715	0.715	0.803
FN425	18	0.473	0.397	0.536	0.467	0.063	0.069	-0.150	-0.232	0.121	0.203	0.173	0.084	0.143	0.129	0.827	0.916	0.857	0.871
FN017	18	0.464	0.414	0.536	0.465	0.072	0.051	-0.303	-0.225	0.140	0.194	0.114	0.114	0.084	0.059	0.886	0.886	0.916	0.941
FN415	18	0.457	0.408	0.536	0.465	0.079	0.057	-0.401	-0.356	0.140	0.194	0.071	0.084	0.049	0.030	0.929	0.916	0.951	0.970
FN057	18	0.445	0.413	0.536	0.465	0.091	0.052	-0.538	-0.274	0.140	0.194	0.059	0.209	0.017	0.142	0.941	0.791	0.983	0.858
FN072	18	0.439	0.401	0.536	0.465	0.097	0.064	-0.590	-0.381	0.140	0.194	0.052	0.106	0.016	0.071	0.948	0.894	0.984	0.929
FN113	18	0.447	0.340	0.536	0.465	0.089	0.125	-0.810	-0.878	0.140	0.194	0.054	0.003	0.012	0.003	0.946	0.997	0.988	0.997

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ISSN: 1471-2105

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