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Table 7 LoCo variation: native recognition

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

  Ranknat RMSDbest Znat CCnat FEnat (%)
LoCo BEST 12.0 1.51 1.870 0.529 38.4
LoCo WORST 17.5 3.09 1.445 0.403 30.0
LoCo AVERAGE 13.9 2.36 1.659 0.496 34.5
LoCo CHOSEN 13.4 1.62 1.805 0.519 36.6
DFMAC 6.7 1.17 2.630 0.562 38.3
RF_CB_SRS_OD 19.3 2.68 1.508 0.464 31.3
ProSa 2003 44.0 2.39 1.288 0.491 33.8
Server BEST 28.5 3.12 0.797 0.410 26.3
Server WORST 248.3 5.77 0.014 0.159 7.5
Server AVERAGE 63.3 4.27 0.521 0.324 19.9
  1. Best, worst and average performance for LoCo across all 84 parameter sets tested is compared with the chosen LoCo parameter set, the three best-performing of the other potentials, and the best, worst and average performance of all 26 remaining potentials from the Jernigan Lab server. All best, worst, and average values are for each individual performance measure; no single set contained all those values. All reported measures are averages over the 77 decoy sets in the final testing group. All metrics are defined in Performance measures at the end of Methods. In summary, lower scores are better for Ranknat and RMSDbest. Higher ones are better for Znat, CCnat and FEnat. The average performance across all 84 versions of LoCo surpassed that every other function except DFMAC. Even at its worst, performance for LoCo exceeded that of all Jernigan server functions for every measure except CCnat.