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Turn prediction in proteins using a pattern-matching approach.

F E Cohen·R M Abarbanel·I D Kuntz·R J Fletterick
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Abstract

We extend the use of amino acid sequence patterns [Cohen, F.E., Abarbanel, R. M., Kuntz, I. D., & Fletterick, R. J. (1983) Biochemistry 22, 4894-4904] to the identification of turns in globular proteins. The approach uses a conservative strategy, combined with a hierarchical search (strongest patterns first) and length-dependent masking, to achieve high accuracy (95%) on a test set of proteins of known structure. Applying the same procedure to homologous families gives a 90% success rate. Straightforward changes are suggested to improve the predictive power. The computer program, written in Lisp, provides a general pattern-recognition language well suited for a number of investigations of protein and nucleic acid sequences.

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Amino Acid SequenceComputersModels, BiologicalProtein ConformationProteinsSoftwareStructure-Activity RelationshipJournal ArticleResearch Support, U.S. Gov't, P.H.S.

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F E Cohen, R M Abarbanel, I D Kuntz, R J Fletterick. 1986-01-14. Turn prediction in proteins using a pattern-matching approach.. https://doi.org/10.1021/bi00349a037

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