Article
Improving the alignment quality of consistency based aligners with an evaluation function using synonymous protein words.
PloS one - 1 Jan 2011
Lin Hsin-Nan, Notredame Cédric, Chang Jia-Ming, Sung Ting-Yi, Hsu Wen-Lian
Abstract excerpt
Most sequence alignment tools can successfully align protein sequences with higher levels of sequence identity. The accuracy of corresponding structure alignment, however, decreases rapidly when considering distantly related sequences (<20% identity). In this range of identity, alignments optimized so as to maximize sequence similarity are often inaccurate from a structural point of view. Over the last two...
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