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内在无序蛋白质的构象倾向影响结合和折叠机制。

Conformational propensities of intrinsically disordered proteins influence the mechanism of binding and folding.

作者信息

Arai Munehito, Sugase Kenji, Dyson H Jane, Wright Peter E

机构信息

Department of Integrative Structural and Computational Biology and Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037; Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, Meguro, Tokyo 153-8902, Japan; Precursory Research for Embryonic Science and Technology, Japan Science and Technology Agency, Kawaguchi, Saitama 332-0012, Japan.

Department of Integrative Structural and Computational Biology and Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037;

出版信息

Proc Natl Acad Sci U S A. 2015 Aug 4;112(31):9614-9. doi: 10.1073/pnas.1512799112. Epub 2015 Jul 20.

Abstract

Intrinsically disordered proteins (IDPs) frequently function in protein interaction networks that regulate crucial cellular signaling pathways. Many IDPs undergo transitions from disordered conformational ensembles to folded structures upon binding to their cellular targets. Several possible binding mechanisms for coupled folding and binding have been identified: folding of the IDP after association with the target ("induced fit"), or binding of a prefolded state in the conformational ensemble of the IDP to the target protein ("conformational selection"), or some combination of these two extremes. The interaction of the intrinsically disordered phosphorylated kinase-inducible domain (pKID) of the cAMP-response element binding (CREB) protein with the KIX domain of a general transcriptional coactivator CREB-binding protein (CBP) provides an example of the induced-fit mechanism. Here we show by NMR relaxation dispersion experiments that a different intrinsically disordered ligand, the transactivation domain of the transcription factor c-Myb, interacts with KIX at the same site as pKID but via a different binding mechanism that involves elements of conformational selection and induced fit. In contrast to pKID, the c-Myb activation domain has a strong propensity for spontaneous helix formation in its N-terminal region, which binds to KIX in a predominantly folded conformation. The C-terminal region of c-Myb exhibits a much smaller helical propensity and likely folds via an induced-fit process after binding to KIX. We propose that the intrinsic secondary structure propensities of pKID and c-Myb determine their binding mechanisms, consistent with their functions as inducible and constitutive transcriptional activators.

摘要

内在无序蛋白(IDP)常在调节关键细胞信号通路的蛋白质相互作用网络中发挥作用。许多IDP在与细胞靶点结合后会从无序构象集合转变为折叠结构。已确定了几种可能的耦合折叠与结合的机制:IDP与靶点结合后折叠(“诱导契合”),或IDP构象集合中的预折叠状态与靶点蛋白结合(“构象选择”),或这两种极端情况的某种组合。环磷酸腺苷反应元件结合蛋白(CREB)的内在无序磷酸化激酶诱导结构域(pKID)与通用转录共激活因子CREB结合蛋白(CBP)的KIX结构域之间的相互作用提供了诱导契合机制的一个例子。在此,我们通过核磁共振弛豫色散实验表明,另一种内在无序配体——转录因子c-Myb的反式激活结构域,与KIX的结合位点与pKID相同,但通过一种不同的结合机制,该机制涉及构象选择和诱导契合的要素。与pKID不同,c-Myb激活结构域在其N端区域有很强的自发形成螺旋的倾向,该区域以主要折叠的构象与KIX结合。c-Myb的C端区域表现出小得多的螺旋倾向,可能在与KIX结合后通过诱导契合过程折叠。我们提出,pKID和c-Myb的内在二级结构倾向决定了它们的结合机制,这与其作为诱导型和组成型转录激活因子的功能一致。

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