In quest of an empirical potential for protein structure prediction. Export

@article{citeulike:549085, abstract = {Key to successful protein structure prediction is a potential that recognizes the native state from misfolded structures. Recent advances in empirical potentials based on known protein structures include improved reference states for assessing random interactions, sidechain-orientation-dependent pair potentials, potentials for describing secondary or supersecondary structural preferences and, most importantly, optimization protocols that sculpt the energy landscape to enhance the correlation between native-like features and the energy. Improved clustering algorithms that select native-like structures on the basis of cluster density also resulted in greater prediction accuracy. For template-based modeling, these advances allowed improvement in predicted structures relative to their initial template alignments over a wide range of target-template homology. This represents significant progress and suggests applications to proteome-scale structure prediction.}, address = {Center of Excellence in Bioinformatics, University at Buffalo, 901 Washington Street, Buffalo, NY, 14203, USA.}, author = {Skolnick, J.}, citeulike-article-id = {549085}, citeulike-linkout-0 = {http://dx.doi.org/10.1016/j.sbi.2006.02.004}, citeulike-linkout-1 = {http://linkinghub.elsevier.com/retrieve/pii/S0959440X06000376}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/16524716}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=16524716}, citeulike-linkout-4 = {http://www.sciencedirect.com/science/article/B6VS6-4JF8H7V-1/2/dffe26442754e9dd86fa5121f9db7420}, day = {6}, doi = {10.1016/j.sbi.2006.02.004}, issn = {0959-440X}, journal = {Current opinion in structural biology}, keywords = {abinitio, forcefield, protein, structure}, month = {April}, number = {2}, pages = {166--171}, posted-at = {2006-03-12 15:00:19}, priority = {2}, title = {In quest of an empirical potential for protein structure prediction.}, url = {http://dx.doi.org/10.1016/j.sbi.2006.02.004}, volume = {16}, year = {2006} }

TY - JOUR ID - citeulike:549085 L3 - citeulike-article-id:549085 N2 - Key to successful protein structure prediction is a potential that recognizes the native state from misfolded structures. Recent advances in empirical potentials based on known protein structures include improved reference states for assessing random interactions, sidechain-orientation-dependent pair potentials, potentials for describing secondary or supersecondary structural preferences and, most importantly, optimization protocols that sculpt the energy landscape to enhance the correlation between native-like features and the energy. Improved clustering algorithms that select native-like structures on the basis of cluster density also resulted in greater prediction accuracy. For template-based modeling, these advances allowed improvement in predicted structures relative to their initial template alignments over a wide range of target-template homology. This represents significant progress and suggests applications to proteome-scale structure prediction. IS - 2 JF - Current opinion in structural biology SN - 0959-440X AD - Center of Excellence in Bioinformatics, University at Buffalo, 901 Washington Street, Buffalo, NY, 14203, USA. EP - 171 TI - In quest of an empirical potential for protein structure prediction. VL - 16 SP - 166 KW - abinitio KW - forcefield KW - protein KW - structure AU - Skolnick, J PY - 2006/04/06/ UR - http://dx.doi.org/10.1016/j.sbi.2006.02.004 ER -