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Quat-2L: a web-server for predicting protein quaternary structural attributes

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Abstract

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.

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Authors and Affiliations

  1. Computer Department, Jing-De-Zhen Ceramic Institute, Jing-De-Zhen, 333001, China

    Xuan Xiao & Pu Wang

  2. Gordon Life Science Institute, 13784 Torrey Del Mar Drive, San Diego, CA, 92130, USA

    Xuan Xiao & Kuo-Chen Chou

Authors
  1. Xuan Xiao
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  2. Pu Wang
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  3. Kuo-Chen Chou
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Correspondence to Xuan Xiao.

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Xiao, X., Wang, P. & Chou, KC. Quat-2L: a web-server for predicting protein quaternary structural attributes. Mol Divers 15, 149–155 (2011). https://doi.org/10.1007/s11030-010-9227-8

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