Table 3

Performance of assignment algorithms as a function of choice of correct answer
Algorithm1 Correct answer 1-domain 2-domain 3-domain 4-domain Overall2
SS SCOP 75% 60% 46% 34% 70%
SS CATH 83% 67% 47% 34% 74%
SS SCOP or CATH3 83% 75% 64% 55% 79%
SS SCOP (given)4 99% 86% 71% 75% 95%
CA SCOP 75% 58% 45% 32% 69%
CA CATH 81% 67% 45% 41% 73%
CA SCOP or CATH3 82% 74% 64% 60% 79%
CA SCOP (given)4 100% 84% 81% 69% 95%

All runs are with m=22Å and s=5Å, and with adjacency constraint enforced, on the ASTRAL30 data set. 1CA refers to the α-carbon based algorithm and SS the secondary structure based one. 2Total, regardless of number of domains. 3Where SCOP and CATH differ, the choice which matched closest to our assignment was chosen in these runs. 4The algorithms were forced to cut into the number of domains specified by SCOP for each structure.

Feldman

Feldman BMC Bioinformatics 2012 13:286   doi:10.1186/1471-2105-13-286

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