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. Author manuscript; available in PMC: 2017 Jun 30.
Published in final edited form as: Cell. 2016 Jun 9;166(1):102–114. doi: 10.1016/j.cell.2016.05.032

Figure 3. The features of the proteins encoded by ProtoRAG.

Figure 3

(A) Protein alignment of lancelet RAG1L with mouse RAG1, shark RAG1 and sea urchin RAG1L. Repeat motifs are highlighted in yellow. Three regions of conserved cysteine and histidine residues that might bind zinc are underlined with green bars. The N-terminal zinc binding dimerization domain is underlined with dark-red bars. The subdomains of the RAG1 core region are indicated with colored bars and labeled according to (Kim et al., 2015). The four conserved zinc ligand residues that contribute to proper folding of the RAG1 catalytic region are labeled with a red “#” (C727, C730, H937, H942 on mouse RAG1). The conserved acidic catalytic residues are highlighted with red shading (D600, E662, D708 and E962 on mouse RAG1). In the N-terminal RING-zinc finger dimerization domain (ZDD), fifteen zinc-coordinating residues (C266, H270, C290, C293, H295, C305, H307, C310, C313, C325, C328, C355, C360, H372 and H376 on mouse RAG1) that are conserved in vertebrate RAG1s are labeled with asterisks, with red asterisks indicating residues conserved in both vertebrate RAG1s and bbRAG1L, and blue asterisks indicating residues conserved in vertebrate RAG1s but not in lancelet RAG1L. GenBank accessions for mouse RAG1, shark RAG1, lancelet RAG2L and sea urchin RAG1L are NP_033045, XP_007886047, KJ748699 and NP_001028179, respectively.

(B) Protein alignment of lancelet RAG2L with mouse RAG2, shark RAG2 and sea urchin RAG2L. Color shading shows the conservation of physiochemical properties. The N-terminal amino acid sequence can be grouped into Kelch-like repeats similar to Callebaut and Mornon (Callebaut and Mornon, 1998) and Fugmann et al (Fugmann et al., 2006). The central conserved GG motifs of the six Kelch-like repeats are underlined in red. The plant homeodomain (PHD) is also underlined below the alignment. GenBank accessions for mouse RAG2, shark RAG2, lancelet RAG2L and sea urchin RAG2L are NP_033046, XP_007885835, KJ748699 and NP_001028184, respectively.

See also Figure S2.