Distribution of secondary structure prediction accuracy as a function of the length of the best hit in PSI-BLAST templates

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> Maximal 30% identity between template and query allowed. The blue bars represent predictions using templates, the red bars template-less predictions. See text for details

Distribution of best-hit (blue) and average (red) sequence similarity in the PSI-BLAST templates for the S2171 set

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> Hits above 95% sequence similarity excluded

Distribution of 4-class (4%, 25% and 50% exposed thresholds) solvent accessibility prediction accuracy as a function of sequence similarity to the best hit in PSI-BLAST templates

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> The blue bars represent predictions using templates (maximal sequence similarity allowed is 95%), the red bars template-less predictions. See text for details

Distribution of secondary structure prediction accuracy as a function of quality of the best hit in PSI-BLAST templates

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> Quality measured as Resolution+Rfactor/20. The blue bars represent predictions using templates, the red bars template-less predictions (Porter). See text for details

Distribution of 4-class (4%, 25% and 50% exposed thresholds) solvent accessibility prediction accuracy as a function of quality of the best hit in PSI-BLAST templates

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> Quality measured as Resolution+Rfactor/20. The blue bars represent predictions using templates, the red bars template-less predictions. See text for details

An example of prediction by Porter H compared to Porter, DSSP assignments, and best template

<p><b>Copyright information:</b></p><p>Taken from "Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information"</p><p>http://www.biomedcentral.com/1471-2105/8/201</p><p>BMC Bioinformatics 2007;8():201-201.</p><p>Published online 14 Jun 2007</p><p>PMCID:PMC1913928.</p><p></p> Best template sequence similarity is 22%. Porter_H correctly identifies the first helix (from the template – strand in Porter), but does not follow the template and assigns correctly the second strand (helix in the template)