Kryshtafovych Andriy, Fidelis Krzysztof, Moult John
Genome Center, University of California, Davis, California, 95616.
Proteins. 2014 Feb;82 Suppl 2(0 2):164-74. doi: 10.1002/prot.24448. Epub 2013 Dec 17.
We compare results of the community efforts in modeling protein structures in the tenth CASP experiment, with those in earlier CASPs particularly in CASP5, a decade ago. There is a substantial improvement in template based model accuracy as reflected in more successful modeling of regions of structure not easily derived from a single experimental structure template, most likely reflecting intensive work within the modeling community in developing methods that make use of multiple templates, as well as the increased number of experimental structures available. Deriving structural information not obvious from a template is the most demanding as well as one of the most useful tasks that modeling can perform. Thus this is gratifying progress. By contrast, overall backbone accuracy of models appears little changed in the last decade. This puzzling result is explained by two factors--increased database size in some ways makes it harder to choose the best available templates, and the increased intrinsic difficulty of CASP targets as experimental work has progressed to larger and more unusual structures. There is no detectable recent improvement in template-free modeling, but again, this may reflect the changing nature of CASP targets.
我们将第十届蛋白质结构预测关键评估(CASP)实验中社区在蛋白质结构建模方面的成果,与早期尤其是十年前的第五届CASP实验中的成果进行了比较。基于模板的模型准确性有了显著提高,这体现在对那些不易从单个实验结构模板推导出来的结构区域进行了更成功的建模,这很可能反映了建模社区在开发利用多个模板的方法方面所做的大量工作,以及可用实验结构数量的增加。从模板中推导不明显的结构信息是建模所能执行的最具挑战性也是最有用的任务之一。因此,这是令人欣慰的进展。相比之下,在过去十年中,模型的整体骨架准确性似乎变化不大。这个令人困惑的结果可以由两个因素来解释:数据库规模的增加在某些方面使得选择最佳可用模板变得更加困难,以及随着实验工作进展到更大、更不寻常的结构,CASP目标的内在难度增加。目前在无模板建模方面没有可检测到的改进,但同样,这可能反映了CASP目标性质的变化。