title: Fast and accurate prediction of protein side-chain conformations.
abstract: CONCLUSIONS
  We developed a fast and accurate side-chain modeling program [Optimized Side Chain Atomic eneRgy (OSCAR)-star] based on orientation-dependent energy functions and a rigid rotamer model. The average computing time was 18 s per protein for 218 test proteins with higher prediction accuracy (1.1% increase for χ(1) and 0.8% increase for χ(1+2)) than the best performing program developed by other groups. We show that the energy functions, which were calibrated to tolerate the discrete errors of rigid rotamers, are appropriate for protein loop selection, especially for decoys without extensive structural refinement.
  
  
  BACKGROUND
  OSCAR-star and the 218 test proteins are available for download at http://sysimm.ifrec.osaka-u.ac.jp/OSCAR  CONTACT:  standley@ifrec.osaka-u.ac.jp
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Systems Immunology Lab, Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan.
authors.forename: Shide
authors.initials: S
authors.lastname: Liang
authors.forename: Dandan
authors.initials: D
authors.lastname: Zheng
authors.forename: Chi
authors.initials: C
authors.lastname: Zhang
authors.forename: Daron M
authors.initials: DM
authors.lastname: Standley
mesh_terms: D000465:Algorithms; D008958:Models, Molecular; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry; D012984:Software
chemical_list: D011506:Proteins