Table 1.

The content of the datasets and the query lists used for PRIDE testing

Dataset	Number of domains in the dataset	Number of histograms used for the domain structure representation	Number of domains in the query list
			E*			D**			Total
			α	β	α/β	α	β	α/β
1	29 098	> 30	24	25	25	25	25	25	149
2	4 937	10 – 30	6	6	6	8	8	8	42

*E corresponds to the "easy" cases when the queries belong to highly populated groups of investigated datasets containing at least 50 domains at the homologous superfamily classification level of CATH;

**D corresponds to the "difficult cases" when queries belonged to small groups having no more than 3 domains at the homologous superfamily classification level of CATH