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Bioinformatics analysis of Chd8 reveals a predicted α-helix.

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posted on 10.10.2012 by Maureen O. Shanks, Linda M. Lund, Sabrina Manni, Mary Russell, Joseph R. H. Mauban, Meredith Bond

Bioinformatics analyses of the Chd8 peptide identified in T7 phage display with JPRED2 (A) and Geneious (B) bioinformatics tools show predicted α-helices within the amino acid sequence. C) ClustalW alignment of Chd8 with known AKAP domains. Hydrophobicity plots for each peptide are listed below the amino acid sequence. D) A 2D helical wheel plot was generated for the predicted AKAP domain of Chd8. Hydrophobic amino acids are shaded in gray, and amino acids are numbered starting from the amino terminus. E) Alignment of the predicted AKAP domain (underlined) in Chd8 shows a high level of conservation between species. Sequences from H. sapiens (NP_001164100.1), M. musculus (NP_963999.2), R. norvegicus (NP_075222.2), B. taurus (NP_001179063.1), X. tropicalis (NP_001131089.2), and D. rerio (NP_001189381.1) were used. An asterisk (*) denotes a conserved amino acid, a colon (:) denotes strongly similar amino acids, and a period (.) denotes weakly similar amino acids.

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