Effect of exon X sequence on the amelogenin protein structures.

Abstract

<p>(A) The hydrophilicity-plot analysis using the Kyte and Doolittle algorithm. The hydrophilicity-plots of T2S and T2L and mouse (XM_136160) were generated and compared. In relation to T2S and mouse amelogenin, the region underlined with black line (middle panel) is exon X sequence, which is highly hydrophobic. (B) Exon X affects the secondary structure of T2L predicted by Psipred. Two potential helixes regions for T2S (aa 7∼16; aa 41∼43) and T2L (aa 6∼17; aa 51∼57) in relation to one potential helix region for mouse amelogenin (aa 4∼12) were revealed by Psipred prediction. A strand region (aa 32–35) was also revealed in relation to T2S and mouse amelogenin. (C) Exon X sequence effects on the tertiary structures of T2L. T2S and T2L were used as query sequence for homology detection and structure prediction by HMM-HMM comparison using HHpred. A bar graph summarizes the positions and color-coded significances of the database matches with the probability. A tabular hit lists with probabilities, E-values, scores, and match regions in query and templates.</p