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SANA: protein Structure Alignment by Neighborhood Alignment

Method#

SANA is an algorithm for the alignment of two proteins. Specifically, core regions in two protein structures are first aligned by identifying connected components in a network of neighboring, geometrically compatible aligned fragment pairs (AFPs). The initial alignments then are refined through a multi-objective optimization method. The algorithm can produce both sequential and non-sequential alignments.

Reference#

• Lin Wang, Ling-Yun Wu, Xiang-Sun Zhang, Luonan Chen. SANA: an algorithm for sequential and non-sequential protein structure alignment. Submitted to Amino Acid.

Software#

This version of the program is in very preliminary stage and provided just for testing purpose. The program is still under development.

• SANA.exe (Windows version of Protein Structure Alignment Tool)
• Supplementary_Data.rar (Supplementary data for computational experiments of SANA)

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