The hydrophobic cores of proteins predicted by wavelet analysis

H. Hirakawa, S. Muta, S. Kuhara

研究成果: ジャーナルへの寄稿学術誌査読

54 被引用数 (Scopus)

抄録

Motivation: In the process of protein construction, buried hydrophobic residues tend to assemble in a core of a protein. Methods used to predict these cores involve use or no use of sequential alignment. In the case of a close homology, prediction was more accurate if sequential alignment was used. If the homology was weak, prediction would be unreliable. A hydrophobicity plot involving the hydropathy index is useful for purposes of prediction, and smoothing is essential. However, the proposed methods are insufficient. We attempted to predict hydrophobic cores with a low frequency extracted from the hydrophobicity plot, using wavelet analysis. Results: The cores were predicted at a rate of 68.7%, by cross-validation. Using wavelet analysis, the cores of non-homologus proteins can be predicted with close to 70% accuracy, without sequential alignment. Availability: The program used in this study is available from Interglactic Reality (http://www.intergalact.com).

本文言語英語
ページ(範囲)141-148
ページ数8
ジャーナルBioinformatics
15
2
DOI
出版ステータス出版済み - 2月 1999

!!!All Science Journal Classification (ASJC) codes

  • 統計学および確率
  • 生化学
  • 分子生物学
  • コンピュータ サイエンスの応用
  • 計算理論と計算数学
  • 計算数学

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