Next: Amino acid scoring
Up: No Title
In the context of protein structure prediction, there are two
principle reasons for comparing and aligning protein sequences:
- To obtain an accurate alignment. This may be for protein modelling
by comparison to proteins of known three-dimensional structure.
- To scan a database with a newly determined protein sequence and identify
possible functions for the protein by analogy with well characterised proteins.
In this chapter I review the underlying principles and techniques for
sequence comparison as applied to proteins and used to satisfy these two aims.