Use of tetrapeptide signals for protein secondary-structure prediction.
This paper develops a novel sequence-based method, tetra-peptide-based increment of diversity with quadratic discriminant analysis (TPIDQD for short), for protein secondary-structure prediction. The proposed TPIDQD method is based on tetra-peptide signals and is used to predict the structure of the central residue of a sequence fragment. The three-state overall per-residue accuracy (Q (3)) is about 80% in the threefold cross-validated test for 21-residue fragments in the CB513 dataset. The accuracy can be further improved by taking long-range sequence information (fragments of more than 21 residues) into account in prediction. The results show the tetra-peptide signals can indeed reflect some relationship between an amino acid's sequence and its secondary structure, indicating the importance of tetra-peptide signals as the protein folding code in the protein structure prediction.
Feng
Yonge
Y
Laboratory of Theoretical Biophysics, Faculty of Science and Technology, Inner Mongolia University, Hohhot, 010021, China. fengyonge@163.com
Luo
Liaofu
L
D000465:Algorithms; D010455:Peptides / Q000737:chemistry; D017433:Protein Structure, Secondary; D011506:Proteins / Q000737:chemistry*; D020539:Sequence Analysis, Protein
D010455:Peptides; D011506:Proteins