Parabolic section and distance excess of space curves applied to protein structure classification

Peter Røgen, Per W. Karlsson

    Research output: Contribution to journalJournal articleResearchpeer-review

    Abstract

    Proteins are long chain molecules that fold up into beautiful and complicated three-dimensional structures before fulfilling their biological functions in the living organisms. With the aim of providing an efficient tool for describing the proteins' native folds, we present a global geometric measure of a space curve. This geometric measure allows us to define descriptors of protein structures that quantify how parallel the secondary structure elements of a protein are. These descriptors are C-2 in deformations of the protein structure, are evaluated very fast and reliably, and are demonstrated to capture essential parts of the protein native fold universe.
    Original languageEnglish
    JournalGeometriae Dedicata
    Volume134
    Issue number1
    Pages (from-to)91-107
    ISSN0046-5755
    DOIs
    Publication statusPublished - 2008

    Keywords

    • protein structure classification
    • Gauss integrals
    • protein structure description
    • writhe
    • parabolic section of two space curves
    • distance excess of a space curve
    • co-writhe

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