PROSTA is a package of PROtein STructure Alignment tools. These tools are designed based on our key observation that there exists a small subset of corresponding residue pairs (i.e., aligned residue pairs) such that a near-optimal superimposition can be determined by minimizing the (weighted) root-mean-square deviation of the corresponding residue pairs. Then, the optimal alignment can be determined by a dynamic programming algorithm.
Computational Bioscience Research Center, King Abdullah University of Science and Technology
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Bioinformatics. 2015 Jun 15;31(12):i133-i141. doi: 10.1093/bioinformatics/btv242.
Finding optimal interaction interface alignments between biological complexes.
Cui X1, Naveed H1, Gao X