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. 2006 Aug 2;34(13):3646–3659. doi: 10.1093/nar/gkl395

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© 2006 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commerical use, distribution, and reproduction in any medium, provided the original work is properly cited.

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3D-BLAST performance with E-values on the protein query set SCOP-894. (A) The relationship between precision and recall for structure database search. The precision is 0.81 and recall is 0.50 if the E-value is set to e⁻¹⁵. (B) The number of correct and false family/superfamily assignments. The correct percentage of the superfamily assignments is 97.53% if the E-value is set to e⁻¹⁵, and the coverage is 91.61%. (C) The relationship between 3D-BLAST E-values and both Z-Scores of CE (blue) and rmsd of aligned residues (red).