Protein C-Alpha Secondary Structure Output (PCASSO)


Algorithms such as DSSP can automatically assign protein secondary structure based on the backbone hydrogen-bonding pattern but the assignment of secondary structure elements (SSEs) becomes a challenge when only the Cα coordinates are available. We present PCASSO, a fast and accurate program for assigning protein (SSEs) using only the Cα positions. PCASSO achieves ~95% accuacy with respect to DSSP and takes ~0.1 s using a single processor to analyze a 1000 residue system with multiple chains. PCASSO was compared with current state-of-the-art Cα-based methods and was found to significantly outperform all of them in both speed and accuracy.


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PCASSO: A fast and efficient Cα-based method for accurately assigning protein secondary structure elements, S.M. Law, A.T. Frank, and C.L. Brooks III, J. Comput. Chem, 2014 Link

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