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Figure 1 | BMC Bioinformatics

Figure 1

From: HMM-ModE – Improved classification using profile hidden Markov models by optimising the discrimination threshold and modifying emission probabilities with negative training sequences

Figure 1

A multiple alignment showing the common fold specific signals, along with the group specific sub-family function specific signals. Alscript [36] figure showing a portion of the alignment of representatives of six protein kinase families discussed in the text. The alignment is coloured based on residue conservation: Red and pink – identical and conserved across all families – correspond to fold signals, and blue and green – identical and conserved within a family. Positions predicted to confer specificity for the family [35] are highlighted in yellow. Deleted regions are indicated by dashes (- - -). Numbers below the alignment correspond to the PDB structure 2f7z.

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