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Figure 2 | BMC Bioinformatics

Figure 2

From: Comparison of phylogenetic trees through alignment of embedded evolutionary distances

Figure 2

Schematic overview of rCEED approach. (a) Genetic distances obtained from sequence alignment or patristic distance obtained from phylogenetic tree are mapped into Euclidean space by multidimensional scaling. Orthologous protein families X 1 and X 2 along with two identical reference structures (16S rRNA orthologs), X r , are embedded in a Euclidean space. (b) Next, each reference structure is superimposed onto their respective protein families. (c) All four structures are now superimposed based on estimated transformations between each set of references. Since both reference structures were orthogonally transformed in (b), they will match exactly at this step. (d) The final superimposition result after removal of the reference structures.

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