A fast algorithm for low-resolution protein structure prediction.
We propose a new approach for the protein tertiary structure prediction based on the concept of mini-threading. The method identifies useful fragments in Protein Data Bank (PDB) with variable lengths and retrieves spatial restraints. The multidimensional scaling method and least-squares minimization are used to build coarse-grain structural models. Our method uses the information in the PDB efficiently and the prediction time is in minutes when compared to hours and days required by existing methods.
Bondugula
Rajkumar
R
Dept. of Comput. Sci., Missouri Univ., Columbia, MO 65211, USA.
Xu
Dong
D
Shang
Yi
Y
D000465:Algorithms; D019295:Computational Biology / Q000295:instrumentation / Q000379:methods*; D003198:Computer Simulation; D030562:Databases, Protein; D015233:Models, Statistical; D009010:Monte Carlo Method; D011487:Protein Conformation; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D020539:Sequence Analysis, Protein; D013997:Time Factors
D011506:Proteins