SABIC: protein Structure Alignment Based on Internal Coordinates
- Last updated: Oct 16, 2010
Introduction#
Welcome to our website! This is a webpage for our paper "Protein Structure Alignment Based on Internal Coordinates ". In the paper, we introduced a novel method named SABIC for protein structure alignment based on the internal coordinates (i.e. bond lengths, bond angles and torsion angles) of structure representation. SABIC provides multi-alignments as the output, from which various aspects of structural similarities between proteins can be identified. The experimental results on benchmark datasets show that SABIC performs better than other popular algorithms, such as DALI, CE and SSM. Using a new defined mQ-score of alignment, SABIC performs consistently better in detecting structural classifications of proteins. In addition, we detected the extreme value distribution form statistics of mQ-score, and then the statistical significance P-value of alignment can be obtained simultaneously. You can find the software, source data, and supplementary materials which referred in the paper. Pay attention to the users: You can use and redistribute the data and software if you accept GNU General Public License (GPL).
Reference#
- Shen YF, Li B, and Liu ZP*. Protein Structure Alignment Based on Internal Coordinates. Interdisciplinary Sciences: Computational Life Sciences, 2:308-319, 2010.
Software and Data#
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