PPM (phenotypic plasticity method) is a new measure for protein structure similarity and propose a novel method which explicitly tries to model the evolutionary distance of two proteins on the structure level by measuring the cost of ‘morphing’ one structure into the other one.
Structural Bioinformatics , Institute for Bioinformatics , Ludwig-Maximilians-Universität München
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Bioinformatics. 2008 Aug 15;24(16):i98-104. doi: 10.1093/bioinformatics/btn271.
Protein structure alignment considering phenotypic plasticity.
Csaba G, Birzele F, Zimmer R.