Additional file 7 of Identification of RAG-like transposons in protostomes suggests their ancient bilaterian origin

Additional file 7. Alignment S1 Multiple sequence alignment of (a) RAG1/RAG1L and (b) RAG2/RAG2L predicted proteins. Domains, sequence motifs, secondary structure assignment, protein-protein and protein-DNA contact interactions (within 5 Å) displayed above the alignment derive from the BbeRAGL cryo-EM structure (PDB: 6B40). Additionally, for RAG1/RAG1L (a), acidic catalytic residues, red; active site residue mouse H795, purple; zinc coordinating residues within ZDD (*) and ZnC2 and ZnH2 (#) are indicated above the sequences, while for RAG2/RAG2L (b) the beta sheet regions of each kelch-type blade and the GG motifs are shown above the alignment. Locations at which coding sequences span exon boundaries are underlined. Sequence descriptions including references to genomic, transcriptomic or protein databases are shown at the end of the alignment, along with a legend of the symbols used.