Table 1.

Loop prediction accuracy for 135 proteins

L	5	6	7	8	9	10	11	12
N	161	107	74	61	58	34	37	21
rmsd(a)	1.21	1.28	1.46	1.99	3.06	2.97	3.68	3.81
rmsd(b)	0.85	0.92	1.23	1.45	2.68	2.21	3.52	3.42
rmsd(c)	0.95	1.10	1.58	1.89	2.95	3.01	3.69	3.50

L is the number of residues in the loop. N is the number of loops. rmsd (a–c) are average values for all loops of length N. rmsd(a), obtained from energy function without use of colony energy; rmsd(b), obtained with use of colony energy expression; rmsd(c), obtained by using colony energy but with all side chains represented as alanines.