Complete Conformation Variations with PFVM According Amino Acid Sequence
The Protein Folding Variation Matrix (PFVM) not only is able to predict the protein conformations, but also to reveal the folding variations as well as the flexibility of conformation along sequence.
The Protein Folding Variation Matrix (PFVM) directly predicts the protein folding confo。rmations along sequence from N-terminate to C- terminate. Each PFSC alphabetic string represents a protein conformation. As result, the PFVM can produce the complete folding variations of 5 amino acids along sequence as PFSC band. With PFSC band, all possible conformations can be formed and the most favorable conformation can be defined.
Overall agreed with given protein structure (Example 1）
Overall agreed with given protein structure (Example 2）
Overall agreed with given protein structures (Example 3）
Obtain favorable conformations from sequence directly
Reference: Yang J. Comprehensive description of protein structures using protein folding shape code. Proteins 2008;71.3:1497-1518