Topology in Molecular Biology

144 A.E. Kister et al.

proposed search algorithm compares favorably with the powerful and widely
used techniques based on hidden Markov Models.
Another advantage of carrying out a structure-based analysis is that it
often allows one not only to predict the affiliation of a particular protein and
outline its secondary and 3D structure, but also to make “educated guesses”
about functional role of various portions of the sequence. It is evident that
an ability to pinpoint parts of protein sequence that is likely to take part in
protein binding, for example, can prove invaluable for planning mutagenesis
experiments or rational drug design.

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