Figure 6

Motifs in putative Omp85 proteins from P. tricornutum and C. merolae. Sequences from P. tricornutum (jgi|Phatr2|36936|fgenesh1_pg.C_chr_11000289, [43]) and C. merolae (CMJ202C, [44]) were found to share similarity with the Omp85 family. Shown is the alignment to three characteristic motifs of this family, the POTRA domain [36] as well as motifs 3 and 4 identified while analyzing a large class of polypeptide transporting β-barrel proteins [7]. Alignments were produced with MAFFT at standard setting using the L-INS-I strategy ([45, e.g. 46]) considering the consensus sequence POTRA (PO), consensus motif 3 (C3), consensus motif 4 (C4), the two identified sequences in P. tricornutum (Pt) and C. merolae (Cm), the sequence from Toc75 (GenBank:Q43715) found in Pisum sativum (Ps) and Toc75-V (TAIR:At5g19620) from Arabidopsis thaliana (At). The amino acids highly conserved in the motifs are shown in black, amino acids representing a preference but not a high conservation are shown in grey and positions with high variation with x. Amino acids within the two sequences identified matching the motif are highlighted in bold. Lower case amino acids on Cm and Pt sequence indicate positions either not conserved in the motif or in the sequence found. The region representing a POTRA domain identified while searching for conserved domains [47] is underlined.