Identification and analysis of extended strands and β-sheets in globular proteins

K. V. Soman, C. Ramakrishnan

    Research output: Contribution to journalArticle

    4 Scopus citations

    Abstract

    A method to identify β-sheets in globular proteins from extended strands, using only α-carbon positions, has been developed. The strands that form β-sheets are picked up by means of simple distance criteria. The method has been tested by applying it to three proteins with accurately known secondary structures. It has also been applied to ten other proteins wherein only α-carbon coordinates are available, and the list of β-sheets obtained. The following points are worth noting: (i) The sheets identified by the algorithm are found to agree satisfactorily with the reported ones based on backbone hydrogen bonding, wherever this information is available. (ii) β-Strands that do not form parts of any sheet are a common feature of protein structures. (iii) Such isolated β-strands tend to be short. (iv) The conformation corresponding to the preferred right-handed twist of the sheet is overwhelmingly observed in both the sheet-forming and isolated β-strands.

    Original languageEnglish (US)
    Pages (from-to)89-96
    Number of pages8
    JournalInternational Journal of Biological Macromolecules
    Volume8
    Issue number2
    DOIs
    StatePublished - Apr 1986

    Keywords

    • Proteins
    • extended strands
    • secondary structure
    • β-sheets
    • β-strands

    ASJC Scopus subject areas

    • Structural Biology
    • Biochemistry
    • Molecular Biology
    • Economics and Econometrics
    • Energy(all)

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