Journal
BIOINFORMATICS
Volume 27, Issue 20, Pages 2913-2914Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btr482
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Funding
- Japan Science for the Promotion of Science (JSPS)
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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 chi(1) and 0.8% increase for chi(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.
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