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Molecular dynamics simulations reveal the disparity in specific recognition of GCC-box by AtERFs transcription factors super family in Arabidopsis

文献类型： 外文期刊

作者： Wang, Shichen 1 ; Yang, Shuo 1 ; Yin, Yuejia 2 ; Xi, Jinghui 3 ; Li, Shanyu 4 ; Hao, Dongyun 1 ;

作者机构： 1.Jilin Univ, Key Lab Mol Enzymol & Engn, Minist Educ, Changchun 130023, Peoples R China

2.Jilin Acad Agr Sci, Biotechnol Res Ctr, Changchun 130124, Peoples R China

3.Jilin Univ, Coll Plant Sci, Changchun 130062, Peoples R China

4.Jilin Univ, Clin Hosp 1, Changchun 130021, Peoples R China

关键词： DNA binding domain;GCC-box;protein-DNA interaction;molecular dynamics;Arabidopsis

期刊名称：JOURNAL OF MOLECULAR RECOGNITION （ 影响因子：2.137； 五年影响因子：1.961 ）

ISSN： 0952-3499

年卷期： 2009 年 22 卷 6 期

页码：

收录情况： SCI

摘要： Arabidopsis ethylene responsive element binding factors (AtERFs) form a transcription factor super family. While the functions of most AtERFs are unknown, a number of AtERFs appear to be involved in regulation of stress-related genes through their DNA binding domains (DBD), namely ERF domains, which recognize a consensus motif GCC-box at the regulatory region. In this study, molecular dynamics simulations were performed on the four ERF domain-GCC-box complexes, AtERF1, AtERF4, AtEBP and CFBF1, to determine disparity in specific binding to the GCC-box by the AtERFs. Our results suggested that three amino acid residues Arg29, GIu39 and Arg41, played a vital role in direct readout of DNA. The position of the consensus sequence GCCGCC has an intrinsic disparity on binding with ERF domains. The third C, fourth G and the last C in the GCC motif was compulsory for recognition by ERF domains. Our results provide structural evidence for a sequence-dependent recognition mechanism for AtERFs. Copyright (C) 2009 John Wiley & Sons, Ltd.

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