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Prediction of protein secondary structure content

1999; Oxford University Press; Volume: 12; Issue: 12 Linguagem: Inglês

10.1093/protein/12.12.1041

1741-0134

Weimin Liu, Kou-Chen Chou,

Enzyme Structure and Function

All existing algorithms for predicting the content of protein secondary structure elements have been based on the conventional amino-acid-composition, where no sequence coupling effects are taken into account. In this article, an algorithm was developed for predicting the content of protein secondary structure elements that was based on a new amino-acid-composition, in which the sequence coupling effects are explicitly included through a series of conditional probability elements. The prediction was examined by a self-consistency test and an independent dataset test. Both indicated a remarkable improvement obtained when using the current algorithm to predict the contents of α-helix, β-sheet, β-bridge, 310-helix, π-helix, H-bonded turn, bend and random coil. Examples of the improved accuracy by introducing the new amino-acid-composition, as well as its impact on the study of protein structural class and biologically function, are discussed.