Table 3.

Clustering by structural similarity of the Simons sets of 500 conformations

Protein	rmsd cutoff	Cluster size	rmsd center to native (rank in proximity to native state)	rmsd of lowest energy conformation	Mean rmsd of ensemble
1fc2	4 Å	410	4.0  (193)	3.8	4.9
	5 Å	419	4.2
	6 Å	431	5.3
1hdd	4 Å	209	3.5  (17)	5.2	6.8
	5 Å	296	4.5
	6 Å	348	4.8
2cro	4 Å	16	4.4  (3)	7.9	8.7
	5 Å	37	7.2
	6 Å	90	4.9
4icb	4 Å	43	6.5  (82)	5.8	9.4
	5 Å	89	7.0
	6 Å	143	5.9