Computer Department, Jing-De-Zhen Ceramic Institute, Jing-De-Zhen, 333001, China.
Mol Divers. 2011 Feb;15(1):149-55. doi: 10.1007/s11030-010-9227-8. Epub 2010 Feb 11.
By hybridizing the functional-domain and sequence-correlated pseudo amino acid composition approaches, a 2-layer predictor called "Quat-2L" was developed for predicting the quaternary structural attribute of a protein according to its sequence information alone. The 1st layer is to identify the query protein as monomer, homo-oligomer, or hetero-oligomer. If the result thus obtained turns out to be homo-oligomer or hetero-oligomer, then the prediction will be automatically continued to further identify it belonging to one of the following six subtypes: (1) dimer, (2) trimer, (3) tetramer, (4) pentamer, (5) hexamer, and (6) octamer. The overall success rate of Quat-2L for the 1st layer identification was 71.14%; while the overall success rates of the 2nd layer for homo-oligomers and hetero-oligomers were 76.91 and 82.52%, respectively. These rates were derived by the jackknife cross-validation tests on the stringent benchmark data set in which none of proteins has ≥ 60% pairwise sequence identity to any other in the same subset. As a web-server, Quat-2L is freely accessible to the public via http://icpr.jci.jx.cn/bioinfo/Quat-2L, where one can get 2-level results in about 15 s.
通过结合功能域和序列相关的伪氨基酸组成方法，开发了一种称为“Quat-2L”的双层预测器，用于根据蛋白质序列信息预测其四级结构属性。第一层是识别查询蛋白质是单体、同聚体还是异聚体。如果得到的结果是同聚体或异聚体，那么预测将自动继续进一步确定它属于以下六种亚型之一：（1）二聚体，（2）三聚体，（3）四聚体，（4）五聚体，（5）六聚体和（6）八聚体。Quat-2L 对第一层识别的总成功率为 71.14%；而对于同聚体和异聚体的第二层的总成功率分别为 76.91%和 82.52%。这些速率是通过在严格的基准数据集上进行的自举交叉验证测试得出的，其中没有任何蛋白质与同一子集中的任何其他蛋白质具有≥60%的成对序列同一性。作为一个网络服务器，Quat-2L 通过 http://icpr.jci.jx.cn/bioinfo/Quat-2L 免费向公众开放，用户可以在大约 15 秒内获得两级结果。
