Prediction of protein secondary structure based on residue pairs

Details Prediction of protein secondary structure based on residue pairs Prediction of protein secondary structure based on residue pairs

2002-12-18

arxiv.org/abs/physics/0212065v3

Physics

Biological Physics

13 pages, 2 figures

Scientific paper

The GOR program for predicting protein secondary structure is extended to include triple correlation. A score system for a residue pair to be at certain conformation state is derived from the conditional weight matrix describing amino acid frequencies at each position of a window flanking the pair under the condition for the pair to be at the fixed state. A program using this score system to predict protein secondary structure is established. After training the model with a learning set created from PDB\_SELECT, the program is tested with two test sets. As a method using single sequence for predicting secondary structures, the approach achieves a high accuracy near 70%.

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