Principal Component Analysis of the Conformational Freedom within the EF-Hand Superfamily
A database of nonredundant structures of EF-hand domainsi.e., pairs of helix-loop-helix motifshas been assembled, and the six angles among the four helices re-determined. A principal component analysis of these angles allows us to use two such components (PC1 and PC2) to describe the system retain...
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Veröffentlicht in: | Journal of proteome research 2005-11, Vol.4 (6), p.1961-1971 |
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Format: | Artikel |
Sprache: | eng |
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Zusammenfassung: | A database of nonredundant structures of EF-hand domainsi.e., pairs of helix-loop-helix motifshas been assembled, and the six angles among the four helices re-determined. A principal component analysis of these angles allows us to use two such components (PC1 and PC2) to describe the system retaining 80% of the total variance. A PC2 against PC1 plot representation allows us to represent in a compact way the full range of structural diversity of EF-hand domains, their grouping into protein families, and the variation for each family upon calcium and peptide binding. Keywords: EF-hand • principal component analysis • calcium binding • interhelical angle • structural analysis |
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ISSN: | 1535-3893 1535-3907 |
DOI: | 10.1021/pr050148n |