Figure 1
From: Improvement of domain-level ortholog clustering by optimizing domain-specific sum-of-pairs score
The concept and examples of domain-level ortholog clustering. (A) Schematic illustration of ortholog clusters containing fusion proteins. The lines represent protein sequences, and red and blue colors represent two distinct domains of the proteins. (B, C) Groups of orthologous domains in two evolutionary scenarios: the case of gene fusion after speciation (B) and gene fusion before speciation (C). (D, E) Appropriate re-splitting of proteins refines the domain-level ortholog clustering. Examples of inconsistent domain boundaries (D) and a refined version of the boundaries (E) are shown in multiple alignments, where two adjacent domains are colored in light blue and pink, respectively (see Methods for details of the alignment visualization tool).