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The future of protein secondary structure prediction accuracy
1Martinsried Institute for Protein Sequences, Max-Planck-Institute for Biochemistry, Germany. frishman@mips.biochem.mpg.de
Background:
The accuracy of secondary structure prediction for a protein from knowledge of its sequence has been significantly improved by about 7% to the 70-75% range by inclusion of information residing in sequences similar to the query sequence. The scientific literature has been inconsistent, if not negative, regarding chances for further improvement from the vast knowledge to be provided by genome sequencing efforts.
Results:
By applying a prediction technique that is particularly sensitive to added sequence information to a standard set of query sequences with related primary structures taken from chronologically successive releases of the SWISS-PROT database, it is shown that prediction accuracy can be expected to reach 80-85% with a large 10-fold increase in present sequence knowledge.
Conclusions:
Even with present prediction approaches, improvement in prediction accuracy can still be expected, albeit limited to no more than 10%.