Review: what can structural classifications reveal about protein evolution?

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ECOD: An Evolutionary Classification of Protein Domains (2014, background): “Fold similarity usually refers to general resemblance in both architecture and topology and can result from either common ancestry (homology) or physical/chemical restrictions (analogy) [35,36,37].”
Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable data sets. (2008, methodology): “We use 13 structural alignment-based scores to characterize each pair in the manually constructed and the SCOP-baseddatasets.Thesescoresbelongtofourdifferent types: (1) pairwise sequence scores, including sequence identity (id) and blosum score (blosum)60; (2) profile sequence scores, including comp”