title: SPARKS 2 and SP3 servers in CASP6.
abstract: Two single-method servers, SPARKS 2 and SP3, participated in automatic-server predictions in CASP6. The overall results for all as well as detailed performance in comparative modeling targets are presented. It is shown that both SPARKS 2 and SP3 are able to recognize their corresponding best templates for all easy comparative modeling targets. The alignment accuracy, however, is not always the best among all the servers. Possible factors are discussed. SPARKS 2 and SP3 fold recognition servers, as well as their executables, are freely available for all academic users on http://theory.med.buffalo.edu.
authors.affiliation: Howard Hughes Medical Institute Center for Single Molecule Biophysics, Department of Physiology and Biophysics, State University of New York at Buffalo, Buffalo, New York.
authors.forename: Hongyi
authors.initials: H
authors.lastname: Zhou
authors.affiliation: Howard Hughes Medical Institute Center for Single Molecule Biophysics, Department of Physiology and Biophysics, State University of New York at Buffalo, Buffalo, New York.|Department of Macromolecular Science, Key Laboratory of Molecular Engineering of Polymers, Fudan University, Shanghai, China.
authors.forename: Yaoqi
authors.initials: Y
authors.lastname: Zhou
mesh_terms: D000465:Algorithms; D001331:Automation; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D003201:Computers; D030562:Databases, Protein; D019281:Dimerization; D008958:Models, Molecular; D011487:Protein Conformation; D017510:Protein Folding; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D016415:Sequence Alignment; D012984:Software