LoCo: a novel main chain scoring function for protein structure prediction based on local coordinates

BMC Bioinformatics

Table 5 LoCo vs. all-atom potentials: native recognition

	Rank_nat	RMSD_best	Z_nat	CC_nat	FE_nat (%)
LoCo	13.4	1.62	1.805	0.519	36.6
RAPDF	30.2	2.54	1.367	0.474	33.2
dDFIRE	21.2	1.89	2.019	0.556	37.3
DOPE	37.5	2.69	1.525	0.482	34.5
RF_HA_SRS	18.6	1.59	2.055	0.526	39.7

LoCo native recognition performance is compared to that of four widely-used all-atom potentials. All reported measures are averages over the 77 decoy sets in the final testing group. LoCo performance is comparable to the others, placing 1^st, 2^nd, 3^rd, 3^rd and 3^rd in Rank_nat, RMSD_best, Z_nat, CC_nat and FE_nat, respectively. Taking the sum of all rankings among these five potentials, LoCo places 3^rd overall. All metrics are defined in Performance measures at the end of Methods.

ISSN: 1471-2105