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Structural class tendency of polypeptide: A new conception in predicting protein structural class

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  • Yu, Tao
  • Sun, Zhi-Bo
  • Sang, Jian-Ping
  • Huang, Sheng-You
  • Zou, Xian-Wu

Abstract

Prediction of protein domain structural classes is an important topic in protein science. In this paper, we proposed a new conception: structural class tendency of polypeptides (SCTP), which is based on the fact that a given amino acid fragment tends to be presented in certain type of proteins. The SCTP is obtained from an available training data set PDB40-B. When using the SCTP to predict protein structural classes by Intimate Sorting predictive method, we got the predictive accuracy (jackknife test) with 93.7%, 96.5%, and 78.6% for the testing data set PDB40-j, Chou&Maggiora and CHOU. These results indicate that the SCTP approach is quite encouraging and promising. This new conception provides an effective tool to extract valuable information from protein sequences.

Suggested Citation

  • Yu, Tao & Sun, Zhi-Bo & Sang, Jian-Ping & Huang, Sheng-You & Zou, Xian-Wu, 2007. "Structural class tendency of polypeptide: A new conception in predicting protein structural class," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 386(1), pages 581-589.
    • Handle: RePEc:eee:phsmap:v:386:y:2007:i:1:p:581-589
    DOI: 10.1016/j.physa.2007.07.061
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