Signature Types

Different approaches can be used to generate signatures. These include:

  • patterns
  • profiles
  • fingerprints
  • hidden Markov models (HMMs)

Each approach starts with a protein multiple sequence alignment, and can focus on a single conserved sequence region (known as a motif), multiple conserved motifs, or the full alignment of the entire protein or a particular domain (see Figure 12).

 

Figure 12. Representation of different strategies for building signatures. A) single motif methods, B) multiple motif methods; and C) full alignment methods. Protein multiple sequence alignments are represented by black lines and the conserved regions used to build the signatures are indicated by coloured boxes.

Figure 12 Representation of different strategies for building signatures. A) single motif methods, B) multiple motif methods; and C) full alignment methods. Protein multiple sequence alignments are represented by black lines and the conserved regions used to build the signatures are indicated by coloured boxes.