Figure 2
From: Similarity of molecular phenotype between known epilepsy gene LGI1 and disease candidate gene LGI2
Phylogenetic analysis of the EAR repeats containing proteins and structural model analysis of the EAR domain. A) Phylogenetic tree of the representative EAR repeats containing proteins. The EAR regions of LGI family, C21orf29, GPR98 of representative species were aligned with MAFFT v6.240 using the L-INS-I algorithm and then the Neighbor-Joining method was used to construct the phylogenetic tree (see Method section for details). WDR5 is used as out-group. Phylogenetic analyses were conducted in MEGA4. NCBI accession numbers of all used sequences are shown. Species are abbreviated as follows: Hs ... Homo sapiens, Rn ... Rattus norvegicus, Dr ... Danio rerio and Cf ... Canis familiaris. B) Structural model and conservation mapping of the EAR domain. A) Shows the propeller domains of LGI2 and LGI1 with residues involved in SNPs of LGI2 (red colored) and mutations of ADLTE found in LGI1 (blue colored). B) Shows the conservation within the whole LGI family mapped to the surface of the propeller domain (see Method section for details) in the same orientation as in a), while c) is rotated by 180 degree to show the other side of the domain. Grey color means no conservation, while the other colors signify conservation of physical properties, i.e., yellow: hydrophobic, green: uncharged polar, blue: positive charge, red: negative charge. Color intensity is proportional to strength of conservation see Method section for more details).