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Figure 5 | BMC Structural Biology

Figure 5

From: Analysis of an optimal hidden Markov model for secondary structure prediction

Figure 5

Example of a multiple sequence prediction for d1jyoa_. Each plot represents the posterior probabilities of α-helix, β-strand and coil as a function of the position in the sequence, with the color scheme : magenta = helix, green = strand, grey = coil. "Query" indicates the sequence of the initial sequence d1jyoa_ and "sequence 1" to "sequence 7" are the homologuous sequences retrieved by PSI-BLAST. The Henikoff weight of each sequence is indicated on each plot. "Consensus" indicate the consensus prediction for the sequence family. The predicted secondary structure in each case is shown as a colored bar in the upper part of each plot. The observed secondary structure of d1jyoa_ is plotted in the lower part of the figure. Ellipses focus on zones of the secondary structures that are modified in the prediction using only the query sequence and in the prediction using the multiple sequence alignment.

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