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Updated: Aug 14, 2026

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
Principal component analysis of the conformational freedom within the EF-hand superfamily
Elena Babini1, Ivano Bertini, Francesco Capozzi
1Department of Food Science, University of Bologna, 47023 Cesena, Italy.
Abstract:
A database of nonredundant structures of EF-hand domains--i.e., pairs of helix-loop-helix motifs--has 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.
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