DNA复制起始蛋白RepA激活过程中的蛋白质结构域与构象变化
Protein domains and conformational changes in the activation of RepA, a DNA replication initiator.
作者信息
Giraldo R, Andreu J M, Díaz-Orejas R
机构信息
Departmento de Microbiología Molecular, Centro de Investigaciones Biológicas, Consejo Superior de Investigaciones Científicas (CSIC), Madrid, Spain.
出版信息
EMBO J. 1998 Aug 3;17(15):4511-26. doi: 10.1093/emboj/17.15.4511.
Abstract
RepA is the DNA replication initiator protein of the Pseudomonas plasmid pPS10. RepA has a dual function: as a dimer, it binds to an inversely-repeated sequence acting as a repressor of its own synthesis; as a monomer, RepA binds to four directly-repeated sequences to constitute a specialized nucleoprotein complex responsible for the initiation of DNA replication. We have previously shown that a Leucine Zipper-like motif (LZ) at the N-terminus of RepA is responsible for protein dimerization. In this paper we characterize the existence in RepA of two protein globular domains C-terminal to the LZ. We propose that dissociation of RepA dimers into monomers results in a conformational change from a compact arrangement of both domains, competent for binding to the operator, to an extended species that is suited for iteron binding. This model establishes the structural basis for the activation of DNA replication initiators in plasmids from Gram-negative bacteria.
摘要
RepA是假单胞菌质粒pPS10的DNA复制起始蛋白。RepA具有双重功能：作为二聚体，它与反向重复序列结合，作为自身合成的阻遏物；作为单体，RepA与四个直接重复序列结合，构成负责DNA复制起始的特殊核蛋白复合物。我们之前已经表明，RepA N端的一个类似亮氨酸拉链的基序（LZ）负责蛋白质二聚化。在本文中，我们描述了LZ C端RepA中存在的两个蛋白质球状结构域。我们提出，RepA二聚体解离成单体导致构象变化，从两个结构域紧密排列（能够结合操纵子）转变为适合结合迭代子的伸展形式。该模型为革兰氏阴性菌质粒中DNA复制起始蛋白的激活建立了结构基础。
相似文献
1
Protein domains and conformational changes in the activation of RepA, a DNA replication initiator.DNA复制起始蛋白RepA激活过程中的蛋白质结构域与构象变化
EMBO J. 1998 Aug 3;17(15):4511-26. doi: 10.1093/emboj/17.15.4511.
2
Early events in the binding of the pPS10 replication protein RepA to single iteron and operator DNA sequences.pPS10复制蛋白RepA与单个迭代子及操纵基因DNA序列结合的早期事件。
J Mol Biol. 2006 Dec 15;364(5):909-20. doi: 10.1016/j.jmb.2006.09.013. Epub 2006 Sep 8.
3
Twenty years of the pPS10 replicon: insights on the molecular mechanism for the activation of DNA replication in iteron-containing bacterial plasmids.pPS10复制子二十年：对含迭代子细菌质粒中DNA复制激活分子机制的见解
Plasmid. 2004 Sep;52(2):69-83. doi: 10.1016/j.plasmid.2004.06.002.
4
Fluorescence studies of the replication initiator protein RepA in complex with operator and iteron sequences and free in solution.复制起始蛋白RepA与操纵子和迭代子序列结合以及在溶液中游离时的荧光研究。
FEBS J. 2008 Nov;275(21):5393-407. doi: 10.1111/j.1742-4658.2008.06669.x.
5
Negative regulation of pPS10 plasmid replication: origin pairing by zipping-up DNA-bound RepA monomers.pPS10质粒复制的负调控：通过拉链式结合DNA的RepA单体进行起始点配对
Mol Microbiol. 2008 May;68(3):560-72. doi: 10.1111/j.1365-2958.2008.06166.x. Epub 2008 Feb 19.
6
A conformational switch between transcriptional repression and replication initiation in the RepA dimerization domain.RepA二聚化结构域中转录抑制与复制起始之间的构象转换。
Nat Struct Biol. 2003 Jul;10(7):565-71. doi: 10.1038/nsb937.
7
Similarities between the DNA replication initiators of Gram-negative bacteria plasmids (RepA) and eukaryotes (Orc4p)/archaea (Cdc6p).革兰氏阴性菌质粒（RepA）与真核生物（Orc4p）/古细菌（Cdc6p）的DNA复制起始因子之间的相似性。
Proc Natl Acad Sci U S A. 2001 Apr 24;98(9):4938-43. doi: 10.1073/pnas.081079298. Epub 2001 Apr 10.
8
Information analysis of sequences that bind the replication initiator RepA.与复制起始蛋白RepA结合的序列的信息分析
J Mol Biol. 1993 Sep 20;233(2):219-30. doi: 10.1006/jmbi.1993.1501.
9
Structural changes in RepA, a plasmid replication initiator, upon binding to origin DNA.质粒复制起始蛋白RepA与起始DNA结合后发生的结构变化。
J Biol Chem. 2003 May 16;278(20):18606-16. doi: 10.1074/jbc.M212024200. Epub 2003 Mar 7.
10
A leucine zipper motif determines different functions in a DNA replication protein.亮氨酸拉链基序决定了一种DNA复制蛋白的不同功能。
EMBO J. 1996 Feb 15;15(4):925-34.
引用本文的文献
1
Rep protein accommodates together dsDNA and ssDNA which enables a loop-back mechanism to plasmid DNA replication initiation.Rep 蛋白可同时容纳双链 DNA 和单链 DNA，这使得回环机制能够启动质粒 DNA 复制。
Nucleic Acids Res. 2023 Oct 27;51(19):10551-10567. doi: 10.1093/nar/gkad740.
2
The dimerization interface of initiator RctB governs chaperone and enhancer dependence of Vibrio cholerae chromosome 2 replication.引发酶 RctB 的二聚化界面决定了霍乱弧菌染色体 2 复制对伴侣蛋白和增强子的依赖性。
Nucleic Acids Res. 2022 May 6;50(8):4529-4544. doi: 10.1093/nar/gkac210.
3
Defining a novel domain that provides an essential contribution to site-specific interaction of Rep protein with DNA.定义一个新的结构域，为 Rep 蛋白与 DNA 的特定结合提供必要的贡献。
Nucleic Acids Res. 2021 Apr 6;49(6):3394-3408. doi: 10.1093/nar/gkab113.
4
Handcuffing reversal is facilitated by proteases and replication initiator monomers.蛋白酶和复制起始单体有助于手铐逆转。
Nucleic Acids Res. 2017 Apr 20;45(7):3953-3966. doi: 10.1093/nar/gkx166.
5
Replisome Assembly at Bacterial Chromosomes and Iteron Plasmids.细菌染色体和串联重复质粒的复制体组装。
Front Mol Biosci. 2016 Aug 11;3:39. doi: 10.3389/fmolb.2016.00039. eCollection 2016.
6
RepA-WH1 prionoid: Clues from bacteria on factors governing phase transitions in amyloidogenesis.RepA-WH1类朊病毒：来自细菌的关于淀粉样蛋白生成中相变控制因素的线索。
Prion. 2016;10(1):41-9. doi: 10.1080/19336896.2015.1129479.
7
RepA-WH1, the agent of an amyloid proteinopathy in bacteria, builds oligomeric pores through lipid vesicles.RepA-WH1是细菌中一种淀粉样蛋白病的病原体，它通过脂质囊泡形成寡聚孔道。
Sci Rep. 2016 Mar 17;6:23144. doi: 10.1038/srep23144.
8
Pre-amyloid oligomers of the proteotoxic RepA-WH1 prionoid assemble at the bacterial nucleoid.具有蛋白毒性的类朊病毒RepA-WH1的淀粉样前体寡聚体在细菌类核中组装。
Sci Rep. 2015 Oct 1;5:14669. doi: 10.1038/srep14669.
9
Molecular Dissection of the Essential Features of the Origin of Replication of the Second Vibrio cholerae Chromosome.霍乱弧菌第二条染色体复制起点基本特征的分子剖析
mBio. 2015 Jul 28;6(4):e00973. doi: 10.1128/mBio.00973-15.
10
Engineered bacterial hydrophobic oligopeptide repeats in a synthetic yeast prion, [REP-PSI (+)].合成酵母朊病毒[REP-PSI(+)]中的工程化细菌疏水寡肽重复序列。
Front Microbiol. 2015 Apr 21;6:311. doi: 10.3389/fmicb.2015.00311. eCollection 2015.
本文引用的文献
1
Replication and control of circular bacterial plasmids.环状细菌质粒的复制与控制
Microbiol Mol Biol Rev. 1998 Jun;62(2):434-64. doi: 10.1128/MMBR.62.2.434-464.1998.
2
Allosteric effects of DNA on transcriptional regulators.DNA对转录调节因子的变构效应。
Nature. 1998 Apr 30;392(6679):885-8. doi: 10.1038/31860.
3
The structural aspects of limited proteolysis of native proteins.天然蛋白质有限水解的结构方面
Biochim Biophys Acta. 1998 Feb 17;1382(2):191-206. doi: 10.1016/s0167-4838(97)00175-1.
4
Putting it all together: building a prereplicative complex.整合所有要素：构建前复制复合体。
Cell. 1997 Dec 12;91(6):717-20. doi: 10.1016/s0092-8674(00)80459-6.
5
The replication initiation protein of the broad-host-range plasmid RK2 is activated by the ClpX chaperone.广宿主质粒RK2的复制起始蛋白由ClpX伴侣蛋白激活。
Proc Natl Acad Sci U S A. 1997 Dec 23;94(26):14378-82. doi: 10.1073/pnas.94.26.14378.
6
The central region of RepE initiator protein of mini-F plasmid plays a crucial role in dimerization required for negative replication control.微小F质粒的RepE起始蛋白的中央区域在负向复制控制所需的二聚化过程中起着关键作用。
J Mol Biol. 1997 Nov 21;274(1):27-38. doi: 10.1006/jmbi.1997.1373.
7
Two forms of replication initiator protein: positive and negative controls.复制起始蛋白的两种形式：阳性和阴性对照。
Proc Natl Acad Sci U S A. 1997 Dec 9;94(25):13967-72. doi: 10.1073/pnas.94.25.13967.
8
Chaperone-mediated reduction of RepA dimerization is associated with RepA conformational change.伴侣蛋白介导的RepA二聚化减少与RepA构象变化相关。
Mol Microbiol. 1997 Oct;26(1):185-95. doi: 10.1046/j.1365-2958.1997.5691920.x.
9
Architecture of the yeast origin recognition complex bound to origins of DNA replication.与DNA复制起点结合的酵母起源识别复合物的结构。
Mol Cell Biol. 1997 Dec;17(12):7159-68. doi: 10.1128/MCB.17.12.7159.
10
Replication of the R6K gamma origin in vitro: dependence on wt pi and hyperactive piS87N protein variant.R6K γ 起源在体外的复制：对野生型 π 和超活性 πS87N 蛋白变体的依赖性。
Gene. 1997 Jul 1;193(1):97-103. doi: 10.1016/s0378-1119(97)00092-9.
Zotero 插件