Archie John, Karplus Kevin
University of California at Santa Cruz, Biomolecular Engineering, Santa Cruz, CA, USA.
Proteins. 2009 May 15;75(3):550-5. doi: 10.1002/prot.22288.
Undertaker is a program designed to help predict protein structure using alignments to proteins of known structure and fragment assembly. The program generates conformations and uses cost functions to select the best structures from among the generated conformations. This paper describes the use of Undertaker's cost functions for model quality assessment. We achieve an accuracy that is similar to other methods, without using consensus-based techniques. Adding consensus-based features further improves our approach substantially. We report several correlation measures, including a new weighted version of Kendall's tau (tau(3)) and show model quality assessment results superior to previously published results on all correlation measures when using only models with no missing atoms.
“送葬者”是一个旨在通过与已知结构的蛋白质进行比对和片段组装来帮助预测蛋白质结构的程序。该程序生成构象，并使用成本函数从生成的构象中选择最佳结构。本文描述了使用“送葬者”的成本函数进行模型质量评估。我们在不使用基于共识的技术的情况下，实现了与其他方法相似的准确率。添加基于共识的特征进一步显著改进了我们的方法。我们报告了几种相关性度量，包括肯德尔秩相关系数（tau(3)）的一种新的加权版本，并表明在仅使用没有缺失原子的模型时，在所有相关性度量上，模型质量评估结果优于先前发表的结果。
