Algorithms on strings, trees, and sequences: computer science and computational biology
Algorithms on strings, trees, and sequences: computer science and computational biology
On the approximation of largest common subtrees and largest common point sets
Theoretical Computer Science
LEDA: a platform for combinatorial and geometric computing
LEDA: a platform for combinatorial and geometric computing
Alignment of Flexible Protein Structures
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology
Multiple Graph Alignment for the Structural Analysis of Protein Active Sites
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
The use of a conformational alphabet for fast alignment of protein structures
ISBRA'08 Proceedings of the 4th international conference on Bioinformatics research and applications
Smolign: A Spatial Motifs-Based Protein Multiple Structural Alignment Method
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Multiple alignment of protein structures in three dimensions
CompLife'05 Proceedings of the First international conference on Computational Life Sciences
MAPPIS: multiple 3D alignment of protein-protein interfaces
CompLife'05 Proceedings of the First international conference on Computational Life Sciences
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We present a fully automated highly efficient technique which detects the multiple structural alignments of protein structures. Our method, MultiProt, finds the common geometrical cores between the input molecules. To date, only few methods were developed to tackle the structural multiple alignment problem. Most of them require that all the input molecules be aligned, while our method does not require that all the input molecules participate in the alignment. Actually, it efficiently detects high scoring partial multiple alignments for all possible number of molecules from the input. To demonstrate the power of the presented method we provide a number of experimental results performed by the implemented program. Along with the known multiple alignments of protein structures, we present new multiple structural alignment results of protein families from the All beta proteins class in the SCOP classification.