Structure prediction for the helical skeletons detected from the low resolution protein density map

BMC Bioinformatics

Table 2 Structure prediction of the local regions in two large proteins

ID	#AA^a	#hlces^b	#sticks^c	#Possible Topologies^d	#Valid Topologies^e	#Generated structures^f	Rank^g	RMSD^h	Prctⁱ
1A0P_G1		14	4	384384	69738	6973800	10448	3.96	0.15%
1A0P_G2		14	4	384384	84733	8473300	14673	4.11	0.17%
1A0P	290	14	8			5.9E+13	3741775		0%
1WQ3_G1		20	4	1860480	184255	18425500	40485	6.47	0.22%
1WQ3_G2		20	4	1860480	280708	28070800	18412	4.65	0.07%
1WQ3	322	20	8			5.17E+14	32104299		0%

a: the number of amino acids in the protein
b: the number of helices in the protein
c: the number of skeletons used for structure prediction in the region
d: the number of all possible topologies in the region
e: the number of valid topologies after applying distance and length screening
f: the number of structures generated in the region or the total number of the structures evaluated for two regions
g: the highest rank of the structure with the correct topology among the generated structures
h: the RMSD of the highest ranked structure with the correct topology among the generated structures
i: the percentage of the rank for the structure with the highest rank and the correct topology

ISSN: 1471-2105